diff --git a/pato-base.json b/pato-base.json index 3102bbb..09673a8 100644 --- a/pato-base.json +++ b/pato-base.json @@ -25,9 +25,9 @@ "val" : "1.2" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2023-02-17" + "val" : "2023-05-18" } ], - "version" : "http://purl.obolibrary.org/obo/pato/releases/2023-02-17/pato-base.json" + "version" : "http://purl.obolibrary.org/obo/pato/releases/2023-05-18/pato-base.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/BFO_0000050", diff --git a/pato-base.obo b/pato-base.obo index 04c08e1..37dd029 100644 --- a/pato-base.obo +++ b/pato-base.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: pato/releases/2023-02-17/pato-base.owl +data-version: pato/releases/2023-05-18/pato-base.owl subsetdef: abnormal_slim "Abnormal/normal slim" subsetdef: absent_slim "Absent/present slim" subsetdef: attribute_slim "Attribute slim" @@ -17,7 +17,7 @@ property_value: http://purl.org/dc/elements/1.1/title "PATO - the Phenotype And property_value: http://purl.org/dc/elements/1.1/type IAO:8000001 property_value: http://purl.org/dc/terms/license https://creativecommons.org/licenses/by/3.0/ property_value: IAO:0000700 PATO:0000001 -property_value: owl:versionInfo "2023-02-17" xsd:string +property_value: owl:versionInfo "2023-05-18" xsd:string [Term] id: CL:0000000 diff --git a/pato-base.owl b/pato-base.owl index 746efe2..9ed7030 100644 --- a/pato-base.owl +++ b/pato-base.owl @@ -12,7 +12,7 @@ xmlns:terms="http://purl.org/dc/terms/" xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#"> - + An ontology of phenotypic qualities (properties, attributes or characteristics). PATO - the Phenotype And Trait Ontology @@ -20,7 +20,7 @@ quality 1.2 - 2023-02-17 + 2023-05-18 diff --git a/pato-full.json b/pato-full.json index 32b6df4..8ad83ad 100644 --- a/pato-full.json +++ b/pato-full.json @@ -22,9 +22,9 @@ "val" : "1.2" }, { "pred" : "http://www.w3.org/2002/07/owl#versionInfo", - "val" : "2023-02-17" + "val" : "2023-05-18" } ], - "version" : "http://purl.obolibrary.org/obo/pato/releases/2023-02-17/pato-full.json" + "version" : "http://purl.obolibrary.org/obo/pato/releases/2023-05-18/pato-full.json" }, "nodes" : [ { "id" : "http://purl.obolibrary.org/obo/BFO_0000002", @@ -1673,6 +1673,111 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "lbl" : "D-glutamic acid", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An optically active form of glutamic acid having D-configuration." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "(2R)-2-aminopentanedioic acid", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasExactSynonym", + "val" : "D-Glutamic acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "D-glutamic acid", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(R)-2-aminopentanedioic acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "D-2-Aminoglutaric acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "D-Glutaminic acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "D-Glutaminsaeure", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "DGL", + "xrefs" : [ "PDBeChem" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "glutamic acid D-form", + "xrefs" : [ "ChemIDplus" ] + } ], + "xrefs" : [ { + "val" : "Beilstein:1723800" + }, { + "val" : "CAS:6893-26-1" + }, { + "val" : "CAS:6893-26-1" + }, { + "val" : "CAS:6893-26-1" + }, { + "val" : "DrugBank:DB02517" + }, { + "val" : "Gmelin:201189" + }, { + "val" : "HMDB:HMDB0003339" + }, { + "val" : "KEGG:C00217" + }, { + "val" : "KNApSAcK:C00019577" + }, { + "val" : "MetaCyc:D-GLT" + }, { + "val" : "PDBeChem:DGL" + }, { + "val" : "Reaxys:1723800" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/chebi/charge", + "val" : "0" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/formula", + "val" : "C5H9NO4" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/inchi", + "val" : "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m1/s1" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/inchikey", + "val" : "WHUUTDBJXJRKMK-GSVOUGTGSA-N" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/mass", + "val" : "147.12930" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/monoisotopicmass", + "val" : "147.05316" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/smiles", + "val" : "N[C@H](CCC(O)=O)C(O)=O" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:21023" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:4183" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_15986", "lbl" : "polynucleotide", @@ -1714,6 +1819,170 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "lbl" : "L-glutamic acid", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An optically active form of glutamic acid having L-configuration." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "(2S)-2-aminopentanedioic acid", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasExactSynonym", + "val" : "L-Glutamic acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "L-glutamic acid", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(S)-2-aminopentanedioic acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(S)-glutamic acid", + "xrefs" : [ "NIST_Chemistry_WebBook" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "E", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "GLUTAMIC ACID", + "xrefs" : [ "PDBeChem" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "Glu", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "Glutamate", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "L-Glu", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "L-Glutaminic acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "L-Glutaminsaeure", + "xrefs" : [ "ChEBI" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#INN", + "pred" : "hasRelatedSynonym", + "val" : "acide glutamique", + "xrefs" : [ "ChEBI" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#INN", + "pred" : "hasRelatedSynonym", + "val" : "acido glutamico", + "xrefs" : [ "ChEBI" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#INN", + "pred" : "hasRelatedSynonym", + "val" : "acidum glutamicum", + "xrefs" : [ "ChEBI" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#INN", + "pred" : "hasRelatedSynonym", + "val" : "glutamic acid", + "xrefs" : [ "ChEBI" ] + } ], + "xrefs" : [ { + "val" : "BPDB:2297" + }, { + "val" : "Beilstein:1723801" + }, { + "val" : "CAS:56-86-0" + }, { + "val" : "CAS:56-86-0" + }, { + "val" : "CAS:56-86-0" + }, { + "val" : "DrugBank:DB00142" + }, { + "val" : "Drug_Central:1310" + }, { + "val" : "Gmelin:3502" + }, { + "val" : "HMDB:HMDB0000148" + }, { + "val" : "KEGG:C00025" + }, { + "val" : "KEGG:D00007" + }, { + "val" : "KNApSAcK:C00001358" + }, { + "val" : "LINCS:LSM-36375" + }, { + "val" : "MetaCyc:GLT" + }, { + "val" : "PDBeChem:GLU_LFOH" + }, { + "val" : "PMID:15739367" + }, { + "val" : "PMID:15930465" + }, { + "val" : "PMID:16719819" + }, { + "val" : "PMID:16892196" + }, { + "val" : "PMID:19581495" + }, { + "val" : "PMID:22219301" + }, { + "val" : "PMID:22735334" + }, { + "val" : "Reaxys:1723801" + }, { + "val" : "Wikipedia:L-Glutamic_Acid" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/chebi/charge", + "val" : "0" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/formula", + "val" : "C5H9NO4" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/inchi", + "val" : "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m0/s1" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/inchikey", + "val" : "WHUUTDBJXJRKMK-VKHMYHEASA-N" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/mass", + "val" : "147.12930" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/monoisotopicmass", + "val" : "147.05316" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/smiles", + "val" : "N[C@@H](CCC(O)=O)C(O)=O" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:21304" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:42825" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:6224" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_16134", "lbl" : "ammonia", @@ -2429,6 +2698,65 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_16733", + "lbl" : "D-alpha-amino acid", + "type" : "CLASS", + "meta" : { + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "D-alpha-amino acid", + "xrefs" : [ "ChEBI" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "D-alpha-amino acids", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "D-Amino acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "D-alpha-amino acids", + "xrefs" : [ "ChEBI" ] + } ], + "xrefs" : [ { + "val" : "KEGG:C00405" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/chebi/charge", + "val" : "0" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/formula", + "val" : "C2H4NO2R" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/mass", + "val" : "74.05870" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/monoisotopicmass", + "val" : "74.02420" + }, { + "pred" : "http://purl.obolibrary.org/obo/chebi/smiles", + "val" : "N[C@H]([*])C(O)=O" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:12909" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:13625" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:20906" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:4097" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_167559", "lbl" : "glycan", @@ -2676,6 +3004,101 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "lbl" : "deoxyribonucleic acid", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Deoxyribonucleic acid", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "synonymType" : "http://purl.obolibrary.org/obo/chebi#IUPAC_NAME", + "pred" : "hasExactSynonym", + "val" : "deoxyribonucleic acids", + "xrefs" : [ "IUPAC" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(Deoxyribonucleotide)m", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(Deoxyribonucleotide)n", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "(Deoxyribonucleotide)n+m", + "xrefs" : [ "KEGG_COMPOUND" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "DNA", 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: [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:13302" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:21123" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:33698" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "CHEBI:4291" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_17087", "lbl" : "ketone", @@ -2891,6 +3314,36 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_173085", + "lbl" : "ferroptosis inducer", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any substance that induces or promotes ferroptosis (a type of programmed cell death dependent on iron and characterized by the accumulation of lipid peroxides) in organisms." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "ferroptosis inducers", + "xrefs" : [ "ChEBI" ] + } ], + "xrefs" : [ { + "val" : "PMID:31899616" + }, { + "val" : "PMID:32015325" + }, { + "val" : "PMID:33167414" + }, { + "val" : "PMID:34012798" + }, { + "val" : "Wikipedia:Ferroptosis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_17544", "lbl" : "hydrogencarbonate", @@ -4424,6 +4877,84 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_24319", + "lbl" : "EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." + }, + "subsets" : 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"hasRelatedSynonym", + "val" : "acid-ammonia (or amine) ligase inhibitor", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "acid-ammonia (or amine) ligase inhibitors", + "xrefs" : [ "ChEBI" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_76924", "lbl" : "plant metabolite", @@ -17114,6 +18199,95 @@ "val" : "chebi_ontology" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_83820", + "lbl" : "non-proteinogenic amino acid", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any amino-acid that is not naturally encoded in the genetic code of any organism." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "non-canonical amino acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-canonical amino acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-canonical amino-acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-canonical amino-acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-coded amino acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-coded amino acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-coded amino-acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-coded amino-acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic amino acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic amino-acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic amino-acids", + "xrefs" : [ "ChEBI" ] + } ], + "xrefs" : [ { + "val" : "Wikipedia:Non-proteinogenic_amino_acids" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/CHEBI_83925", + "lbl" : "non-proteinogenic alpha-amino acid", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/chebi#3_STAR" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic alpha-amino acids", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic alpha-amino-acid", + "xrefs" : [ "ChEBI" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "non-proteinogenic alpha-amino-acids", + "xrefs" : [ "ChEBI" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "chebi_ontology" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CHEBI_84729", "lbl" : "hydroxyindoles", @@ -17252,6 +18426,10 @@ "lbl" : "germ line stem cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A stem cell that is the precursor of gametes.", + "xrefs" : [ "doi:10.1016/j.stem.2012.05.016" ] + }, "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "germline stem cell" @@ -17279,6 +18457,10 @@ "lbl" : "female germ line stem cell", "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A stem cell that is the precursor of female gametes.", + "xrefs" : [ "doi:10.1016/j.stem.2012.05.016" ] + }, "xrefs" : [ { "val" : "FBbt:00004873" } ] @@ -17396,10 +18578,6 @@ "val" : "BTO:0000930" }, { "val" : "FMA:70563" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000337" } ] } }, { @@ -17472,7 +18650,7 @@ "xrefs" : [ "GOC:add", "GOC:dsd", "GOC:tfm", "PMID:19022770", "http://en.wikipedia.org/wiki/Hematopoietic_stem_cell" ] }, "comments" : [ "Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "HSC" @@ -17513,6 +18691,7 @@ "val" : "A progenitor cell committed to the erythroid lineage.", "xrefs" : [ "GOC:add", "ISBN:0721601464" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "BFU-E" @@ -17749,9 +18928,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000044" } ] } }, { @@ -18103,12 +19279,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000804" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000812" } ] } }, { @@ -18541,9 +19711,6 @@ "val" : "FMA:70546" } ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0002452" - }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", "val" : "https://github.com/obophenotype/cell-ontology/issues/474" } ] @@ -18575,9 +19742,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000450" } ] } }, { @@ -18611,6 +19775,7 @@ "xrefs" : [ "GOC:add", "ISBN:0781735149" ] }, "comments" : [ "Note change of name; nearly all somatic cells can present antigens to T cells via MHC Class I complexes leading to effector responses, but professional antigen presenting cells constitutively express MHC Class II as well as costimulatory molecules, and thus can initiate immune responses via T cells." ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "APC" @@ -18664,9 +19829,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000572" } ] } }, { @@ -18863,9 +20025,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000381" } ] } }, { @@ -19165,9 +20324,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000191" } ] } }, { @@ -19438,7 +20594,7 @@ "val" : "A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen.", "xrefs" : [ "GOC:tfm", "MESH:D004912" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RBC" @@ -19485,7 +20641,7 @@ "xrefs" : [ "GOC:add", "GOC:tfm", "GO_REF:0000031", "PMID:16213494", "PMID:1919437" ] }, "comments" : [ "Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "histiocyte" @@ -19629,10 +20785,6 @@ "val" : "FBbt:00005038" }, { "val" : "FMA:74793" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000474" } ] } }, { @@ -19667,9 +20819,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0002185" } ] } }, { @@ -19914,10 +21063,6 @@ "val" : "FMA:62411" }, { "val" : "MESH:D000078404" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000396" } ] } }, { @@ -20213,10 +21358,6 @@ } ], "xrefs" : [ { "val" : "FMA:84797" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000714" } ] } }, { @@ -20418,6 +21559,7 @@ "val" : "An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers.", "xrefs" : [ "ISBN:0721601464", "MESH:A11.118.290.350.200", "PMID:1638021" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "rubriblast", @@ -20611,11 +21753,11 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm.", - "xrefs" : [ "ISBN:0721601464", "MESH:D008533", "http://en.wikipedia.org/wiki/Megakaryocyte" ] + "val" : "A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release.", + "xrefs" : [ "ISBN:0721601464", "MESH:D008533", "PMID:31043076", "http://en.wikipedia.org/wiki/Megakaryocyte" ] }, "comments" : [ "Megakaryocytes are reportedly CD181-positive and CD182-positive." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "megacaryocyte" @@ -20690,6 +21832,7 @@ "val" : "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds.", "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:15946868", "PMID:2037622" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "xrefs" : [ { "val" : "BTO:0001173" }, { @@ -20832,9 +21975,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000431" } ] } }, { @@ -20847,7 +21987,7 @@ "xrefs" : [ "GO_REF:0000031", "MESH:D009000" ] }, "comments" : [ "Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0000876" }, { @@ -21303,6 +22443,16 @@ "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_0000752", + "lbl" : "cone retinal bipolar cell", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer.", + "xrefs" : [ "PMID:14689473" ] + } + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000763", "lbl" : "myeloid cell", @@ -21350,9 +22500,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0002156" } ] } }, { @@ -21364,6 +22511,7 @@ "val" : "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers.", "xrefs" : [ "GOC:add", "ISBN:0721601464", "PMID:18174176" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "normoblast" @@ -21397,7 +22545,7 @@ "val" : "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes.", "xrefs" : [ "GOC:add", "GOC:amm", "GOC:tfm", "ISBN:0721601464" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "PMN" @@ -21623,7 +22771,7 @@ "xrefs" : [ "GOC:add", "GOC:tfm", "PMID:19022770" ] }, "comments" : [ "Markers differ between mouse and human." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "MPP" @@ -21694,6 +22842,7 @@ "val" : "A leukocyte with a single non-segmented nucleus in the mature form.", "xrefs" : [ "GOC:add" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "mononuclear leukocyte" @@ -21709,6 +22858,33 @@ "val" : "FMA:86713" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_0000850", + "lbl" : "serotonergic neuron", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A neuron that releases serotonin as a neurotransmitter.", + "xrefs" : [ "SANBI:mhl" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "5-HT neuron" + }, { + "pred" : "hasExactSynonym", + "val" : "5-hydroxytryptamine neuron" + }, { + "pred" : "hasRelatedSynonym", + "val" : "serotinergic neuron" + } ], + "xrefs" : [ { + "val" : "FBbt:00005133" + }, { + "val" : "MESH:D059326" + }, { + "val" : "WBbt:0006837" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000864", "lbl" : "tissue-resident macrophage", @@ -21754,7 +22930,8 @@ "val" : "An immature myeloid leukocyte of heterogeneous phenotype found particularly in cancer and sepsis patients that is capable of suppressing activity of T cells in ex vivo assays. This cell type is CD45-positive, CD11b-positive.", "xrefs" : [ "GOC:add", "GOC:ana", "GO_REF:0000031", "PMID:16168663", "PMID:17016554", "PMID:17016559" ] }, - "comments" : [ "Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis." ] + "comments" : [ "Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis." ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ] } }, { "id" : "http://purl.obolibrary.org/obo/CL_0000988", @@ -21795,7 +22972,7 @@ "xrefs" : [ "GOC:amm", "GO_REF:0000031", "PMID:17850486" ] }, "comments" : [ "Originally described in the dendritic cell ontology (DC_CL:0000003)(PMID:19243617) These cells are also CD20-negative, MHCII-positive." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "interdigitating cell" @@ -22408,6 +23585,7 @@ "val" : "A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells.", "xrefs" : [ "GOC:tfm", "PMID:19022770" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -22426,6 +23604,7 @@ "xrefs" : [ "GOC:tfm", "PMID:19022770", "https://orcid.org/0000-0001-5208-3432" ] }, "comments" : [ "This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060)." ], + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0003-1980-3228" @@ -22854,6 +24033,7 @@ "val" : "A leukocyte that lacks granules.", "xrefs" : [ "GOC:tfm" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "agranular leukocyte" @@ -23084,9 +24264,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-24T10:45:54Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000294" } ] } }, { @@ -23144,9 +24321,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-25T03:22:08Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000399" } ] } }, { @@ -23167,9 +24341,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-25T03:38:51Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000404" } ] } }, { @@ -23190,9 +24361,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-25T03:57:08Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000400" } ] } }, { @@ -23213,9 +24381,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-08-26T03:12:49Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000439" } ] } }, { @@ -23305,9 +24470,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-02T02:09:14Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000407" } ] } }, { @@ -23508,9 +24670,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-08T09:28:20Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000402" } ] } }, { @@ -23537,9 +24696,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-08T09:28:22Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000292" } ] } }, { @@ -23560,9 +24716,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-08T09:41:46Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000293" } ] } }, { @@ -23617,9 +24770,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-14T10:40:12Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000446" } ] } }, { @@ -23644,9 +24794,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-14T10:57:26Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000403" } ] } }, { @@ -23866,9 +25013,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-15T03:01:54Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000406" } ] } }, { @@ -24002,9 +25146,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-21T04:33:05Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000475" } ] } }, { @@ -24167,9 +25308,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2010-09-24T01:13:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000369" } ] } }, { @@ -24596,9 +25734,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2011-02-28T03:48:11Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:1000393" } ] } }, { @@ -24770,9 +25905,10 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function.", - "xrefs" : [ "GOC:tfm" ] + "val" : "A glial cell that myelinates or ensheathes axons in the peripheral nervous system.", + "xrefs" : [ "GOC:tfm", "PMID:16807057" ] }, + "comments" : [ "A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle." ], "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "BTO:0001220" @@ -25412,6 +26548,20 @@ "val" : "multiciliated epithelial cell" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_0005024", + "lbl" : "somatomotor neuron", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic.", + "xrefs" : [ "ZFIN:CVS" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "somatic motor neuron" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0005026", "lbl" : "hepatoblast", @@ -25522,7 +26672,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A muscle cell that is part of some visceral muscle", + "val" : "A muscle cell that is part of some visceral muscle.", "xrefs" : [ "GOC:dos" ] }, "xrefs" : [ { @@ -25603,6 +26753,16 @@ "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_0008025", + "lbl" : "noradrenergic neuron", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter.", + "xrefs" : [ "GOC:dos" ] + } + } }, { "id" : "http://purl.obolibrary.org/obo/CL_0008028", "lbl" : "visual system neuron", @@ -26262,9 +27422,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-7258-9596" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0002609" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", "val" : "https://github.com/obophenotype/cell-ontology/issues/1359" @@ -27297,9 +28454,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0002542" } ] } }, { @@ -28235,9 +29389,6 @@ }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2014-06-25T02:28:17Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000111" } ] } }, { @@ -29014,9 +30165,6 @@ "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0001-7258-9596" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "CL:0000328" } ] } }, { @@ -29098,6 +30246,7 @@ "val" : "A lymphocyte located in blood.", "xrefs" : [ "https://orcid.org/0000-0001-9990-8331" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/cl#blood_and_immune_upper_slim" ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", "val" : "https://orcid.org/0000-0002-1773-2692" @@ -29152,6 +30301,26 @@ "val" : "2023-02-09T11:25:14Z" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4030045", + "lbl" : "lacks_part", + "type" : "PROPERTY", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4030046", + "lbl" : "lacks_plasma_membrane_part", + "type" : "PROPERTY", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/CL_4033005", "lbl" : "serous secreting cell of bronchus submucosal gland", @@ -29197,6 +30366,102 @@ "val" : "2023-02-02T11:17:04Z" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4033017", + "lbl" : "bronchiolar smooth muscle cell", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A smooth muscle cell that is part of a bronchiole.", + "xrefs" : [ "ISBN:9781260462982", "PMID:15347627" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-9185-3994" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-03-16T09:38:17Z" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4033018", + "lbl" : "lung megakaryocyte", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A megakaryocyte that is resident in the lung connective tissue.", + "xrefs" : [ "PMID:33351116" ] + }, + "synonyms" : [ { + "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#PLURAL", + "pred" : "hasRelatedSynonym", + "val" : "lung MKs", + "xrefs" : [ "PMID:33351116" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-9185-3994" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-03-16T11:31:23Z" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4033020", + "lbl" : "mucus secreting cell of trachea gland", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A mucus secreting cell that is part of a submucosal gland of the trachea.", + "xrefs" : [ "PMID:18931053", "PMID:29656943" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "tracheal submucosal gland mucous cell", + "xrefs" : [ "PMID:18931053" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-9185-3994" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-03-16T13:03:13Z" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/CL_4033022", + "lbl" : "mucus secreting cell of bronchus submucosal gland", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A mucus secreting cell of a submucosal gland of the bronchus.", + "xrefs" : [ "PMID:19965983" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "bronchial gland mucous cell", + "xrefs" : [ "PMID:5487122" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0002-9185-3994" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-03-16T15:12:52Z" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GOREL_0002003", "lbl" : "results_in_distribution_of", @@ -29274,24 +30539,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0000035", - "lbl" : "acyl binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid.", - "xrefs" : [ "GOC:curators", "ISBN:0198506732" ] - }, - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "acyl-CoA or acyl binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0000041", "lbl" : "transition metal ion transport", @@ -29344,6 +30591,10 @@ "val" : "The lipid bilayer surrounding any of the compartments of the Golgi apparatus.", "xrefs" : [ "GOC:mah" ] }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus membrane" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "cellular_component" @@ -31567,21 +32818,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0002054", - "lbl" : "nucleobase binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases.", - "xrefs" : [ "GOC:hjd" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0002062", "lbl" : "chondrocyte differentiation", @@ -37734,6 +38970,56 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0003357", + "lbl" : "noradrenergic neuron differentiation", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline.", + "xrefs" : [ "GOC:dph" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "norepinephrine secreting neuron differentiation", + "xrefs" : [ "GOC:dph" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "dph" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2009-12-03T10:34:30Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0003358", + "lbl" : "noradrenergic neuron development", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell.", + "xrefs" : [ "GOC:dph" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "norepinephrine secreting neuron development", + "xrefs" : [ "GOC:dph" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "dph" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2009-12-03T10:38:37Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003360", "lbl" : "brainstem development", @@ -37754,6 +39040,26 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0003361", + "lbl" : "noradrenergic neuron differentiation involved in brainstem development", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem.", + "xrefs" : [ "GOC:dph" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "dph" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2009-12-03T10:53:30Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003365", "lbl" : "establishment of cell polarity involved in ameboidal cell migration", @@ -38040,7 +39346,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process.", + "val" : "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.", "xrefs" : [ "GOC:pdt" ] }, "comments" : [ "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex." ], @@ -38057,90 +39363,6 @@ "val" : "molecular_function" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0003676", - "lbl" : "nucleic acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a nucleic acid.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "base pairing" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0000496" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0003682", - "lbl" : "chromatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.", - "xrefs" : [ "GOC:jl", "ISBN:0198506732", "PMID:20404130" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "lamin/chromatin binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "microtubule/chromatin interaction" - }, { - "pred" : "hasNarrowSynonym", - "val" : "nuclear membrane vesicle binding to chromatin" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0003723", - "lbl" : "RNA binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an RNA molecule or a portion thereof.", - "xrefs" : [ "GOC:jl", "GOC:mah" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "base pairing with RNA" - }, { - "pred" : "hasRelatedSynonym", - "val" : "poly(A) RNA binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "poly(A)-RNA binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "poly-A RNA binding" - } ], - "xrefs" : [ { - "val" : "Reactome:R-HSA-203922" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0000498" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0044822" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0003824", "lbl" : "catalytic activity", @@ -38165,131 +39387,48 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0004857", - "lbl" : "enzyme inhibitor activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and stops, prevents or reduces the activity of an enzyme.", - "xrefs" : [ "GOC:ai", "GOC:ebc" ] - }, - "comments" : [ "This term should only be used in cases when the regulator directly interacts with the enzyme." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "metalloenzyme inhibitor activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0048551" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005102", - "lbl" : "signaling receptor binding", + "id" : "http://purl.obolibrary.org/obo/GO_0004518", + "lbl" : "nuclease activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.", - "xrefs" : [ "GOC:bf", "GOC:ceb", "ISBN:0198506732" ] + "val" : "Catalysis of the hydrolysis of ester linkages within nucleic acids.", + "xrefs" : [ "ISBN:0198547684" ] }, - "comments" : [ "Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "receptor binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "receptor ligand" - }, { - "pred" : "hasRelatedSynonym", - "val" : "receptor-associated protein activity" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Ligand_(biochemistry)" - } ], + "comments" : [ "Note that 'tRNA nucleotidyltransferase activity ; GO:0009022', also known as 'ribonuclease PH', and 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906' do not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005126", - "lbl" : "cytokine receptor binding", + "id" : "http://purl.obolibrary.org/obo/GO_0004536", + "lbl" : "DNA nuclease activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to a cytokine receptor.", - "xrefs" : [ "GOC:mah", "GOC:vw" ] + "val" : "Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid.", + "xrefs" : [ "GOC:mah", "ISBN:0198547684" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "hematopoietin/interferon-class (D200-domain) cytokine receptor binding", - "xrefs" : [ "GOC:add", "GOC:mah" ] + "val" : "deoxyribonuclease activity" }, { "pred" : "hasNarrowSynonym", - "val" : "hematopoietin/interferon-class (D200-domain) cytokine receptor ligand" + "val" : "caspase-activated deoxyribonuclease activity" } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005172", - "lbl" : "vascular endothelial growth factor receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a vascular endothelial growth factor receptor.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "VEGF receptor binding" - }, { - "pred" : "hasExactSynonym", - "val" : "VEGFR binding" + "xrefs" : [ { + "val" : "Reactome:R-HSA-211247" }, { - "pred" : "hasNarrowSynonym", - "val" : "vascular endothelial growth factor" + "val" : "Reactome:R-HSA-5685994" }, { - "pred" : "hasNarrowSynonym", - "val" : "vascular endothelial growth factor receptor ligand" + "val" : "Reactome:R-HSA-6785986" } ], "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005173", - "lbl" : "stem cell factor receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor.", - "xrefs" : [ "GOC:jl", "PMID:10698217" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "SCFR binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "KIT binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "SCF" - }, { - "pred" : "hasNarrowSynonym", - "val" : "stem cell factor" + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0004537" }, { - "pred" : "hasNarrowSynonym", - "val" : "stem cell factor receptor ligand" - } ], - "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "molecular_function" } ] @@ -38404,6 +39543,42 @@ "val" : "molecular_function" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0005313", + "lbl" : "L-glutamate transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid.", + "xrefs" : [ "GOC:ai", "GOC:mtg_transport", "ISBN:0815340729" ] + }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "L-glutamate transporter activity" + }, { + "pred" : "hasBroadSynonym", + "val" : "glutamate transmembrane transporter activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "glutamate/aspartate porter activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "glutamate/aspartate:sodium symporter activity" + } ], + "xrefs" : [ { + "val" : "RHEA:66336" + }, { + "val" : "Reactome:R-HSA-210444" + }, { + "val" : "Reactome:R-HSA-428052" + }, { + "val" : "Reactome:R-HSA-5624256" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005319", "lbl" : "lipid transporter activity", @@ -38577,151 +39752,6 @@ "val" : "molecular_function" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005488", - "lbl" : "binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.", - "xrefs" : [ "GOC:ceb", "GOC:mah", "ISBN:0198506732" ] - }, - "comments" : [ "Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "ligand" - } ], - "xrefs" : [ { - "val" : "Wikipedia:Binding_(molecular)" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005496", - "lbl" : "steroid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene.", - "xrefs" : [ "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005506", - "lbl" : "iron ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an iron (Fe) ion.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "iron binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005515", - "lbl" : "protein binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a protein.", - "xrefs" : [ "GOC:go_curators" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "protein amino acid binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "glycoprotein binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0001948" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0045308" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005518", - "lbl" : "collagen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%).", - "xrefs" : [ "GOC:ai", "ISBN:0198506732" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005536", - "lbl" : "glucose binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to D- or L-enantiomers of glucose.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005539", - "lbl" : "glycosaminoglycan binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues.", - "xrefs" : [ "GOC:jl", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0005540", - "lbl" : "hyaluronic acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "hyaluronan binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0005575", "lbl" : "cellular_component", @@ -40057,24 +41087,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0006073", - "lbl" : "cellular glucan metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell.", - "xrefs" : [ "ISBN:0198547684" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular glucan metabolism" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0006082", "lbl" : "organic acid metabolic process", @@ -40269,6 +41281,97 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0006259", + "lbl" : "DNA metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.", + "xrefs" : [ "ISBN:0198506732" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA metabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "cellular DNA metabolism" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0055132" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0006308", + "lbl" : "DNA catabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one.", + "xrefs" : [ "GOC:go_curators", "ISBN:0198506732" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA breakdown" + }, { + "pred" : "hasExactSynonym", + "val" : "DNA catabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "DNA degradation" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0006309", + "lbl" : "apoptotic DNA fragmentation", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments.", + "xrefs" : [ "GOC:dph", "GOC:mah", "GOC:mtg_apoptosis", "GOC:tb", "ISBN:0721639976", "PMID:15723341", "PMID:23379520" ] + }, + "comments" : [ "DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases. In human, these include DNA fragmentation factor (DFF) or caspase-activated DNase (CAD) and endonuclease G (Endo G) (reviewed in PMID:15723341). Caution is needed when apoptotic DNA laddering assays show presence of fragmented DNA. A positive assay may simply reflect the end point of a whole apoptotic process. Unless clear experimental evidence is available to show that a gene product is directly involved in fragmenting DNA, please do not annotate to GO:0006309 'apoptotic DNA fragmentation' and consider annotating instead to a more upstream process such as, e.g., GO:0042981 'regulation of apoptotic process', GO:0006915 'apoptotic process', GO:0097190 'apoptotic signaling pathway'. Also, note that gene products involved in compartmentalization of apoptotic nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341)." ], + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "DNA fragmentation" + }, { + "pred" : "hasBroadSynonym", + "val" : "chromatinolysis", + "xrefs" : [ "GOC:mtg_apoptosis" ] + }, { + "pred" : "hasExactSynonym", + "val" : "DNA catabolic process during apoptosis" + }, { + "pred" : "hasExactSynonym", + "val" : "DNA catabolism during apoptosis" + }, { + "pred" : "hasExactSynonym", + "val" : "DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:cjm", "GOC:dph", "GOC:tb" ] + }, { + "pred" : "hasExactSynonym", + "val" : "endonucleolytic DNA catabolic process involved in apoptosis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24396" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0008178" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0006325", "lbl" : "chromatin organization", @@ -41661,6 +42764,101 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0006897", + "lbl" : "endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle.", + "xrefs" : [ "GOC:mah", "ISBN:0198506732", "ISBN:0716731363", "Wikipedia:Endocytosis" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "endocytic import into cell" + }, { + "pred" : "hasExactSynonym", + "val" : "vesicle endocytosis" + }, { + "pred" : "hasNarrowSynonym", + "val" : "plasma membrane invagination" + }, { + "pred" : "hasRelatedSynonym", + "val" : "nonselective vesicle endocytosis" + } ], + "xrefs" : [ { + "val" : "Wikipedia:Endocytosis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24907" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/25268" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0016193" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0016196" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0098701" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0006900", + "lbl" : "vesicle budding from membrane", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The evagination of a membrane, resulting in formation of a vesicle.", + "xrefs" : [ "GOC:jid", "GOC:tb" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "membrane evagination" + }, { + "pred" : "hasExactSynonym", + "val" : "vesicle biosynthesis" + }, { + "pred" : "hasExactSynonym", + "val" : "vesicle formation" + }, { + "pred" : "hasRelatedSynonym", + "val" : "nonselective vesicle assembly" + }, { + "pred" : "hasRelatedSynonym", + "val" : "single organism membrane budding", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "single-organism membrane budding" + }, { + "pred" : "hasRelatedSynonym", + "val" : "vesicle budding" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "jl" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-12-19T15:26:17Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0006902" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:1902591" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0006903", "lbl" : "vesicle targeting", @@ -41702,6 +42900,9 @@ "val" : "Wikipedia:Phagocytosis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24907" + }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" }, { @@ -42457,6 +43658,9 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus organization" + }, { "pred" : "hasExactSynonym", "val" : "Golgi organisation" }, { @@ -44147,30 +45351,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0008017", - "lbl" : "microtubule binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a microtubule, a filament composed of tubulin monomers.", - "xrefs" : [ "GOC:krc" ] - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "microtubule severing activity" - }, { - "pred" : "hasRelatedSynonym", - "val" : "microtubule/chromatin interaction" - } ], - "xrefs" : [ { - "val" : "Reactome:R-HSA-9614343" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0008028", "lbl" : "monocarboxylic acid transmembrane transporter activity", @@ -44204,28 +45384,6 @@ "val" : "molecular_function" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0008047", - "lbl" : "enzyme activator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and increases the activity of an enzyme.", - "xrefs" : [ "GOC:dph", "GOC:mah", "GOC:tb" ] - }, - "comments" : [ "This term should only be used in cases when the regulator directly interacts with the enzyme." ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "metalloenzyme activator activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0010577" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0008078", "lbl" : "mesodermal cell migration", @@ -44310,21 +45468,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0008092", - "lbl" : "cytoskeletal protein binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton).", - "xrefs" : [ "GOC:mah" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_yeast", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0008104", "lbl" : "protein localization", @@ -44381,39 +45524,13 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0008134", - "lbl" : "transcription factor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a transcription factor, a protein required to initiate or regulate transcription.", - "xrefs" : [ "ISBN:0198506732" ] - }, - "comments" : [ "Note that this term should not be used for direct annotation. Please consier one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "TF binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "transcription regulator binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/19354" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0008150", "lbl" : "biological_process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.", + "val" : "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.", "xrefs" : [ "GOC:pdt" ] }, "comments" : [ "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this." ], @@ -44435,6 +45552,9 @@ "val" : "Wikipedia:Biological_process" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24968" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" }, { @@ -44550,7 +45670,6 @@ "xrefs" : [ "GOC:mah", "GOC:mtg_apoptosis", "PMID:25236395" ] }, "comments" : [ "This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "accidental cell death" @@ -44676,21 +45795,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0008289", - "lbl" : "lipid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a lipid.", - "xrefs" : [ "GOC:ai" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0008291", "lbl" : "acetylcholine metabolic process", @@ -45017,6 +46121,10 @@ }, "xrefs" : [ { "val" : "Reactome:R-HSA-2142859" + }, { + "val" : "Reactome:R-HSA-561041" + }, { + "val" : "Reactome:R-HSA-9794830" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -45299,6 +46407,15 @@ }, { "pred" : "hasNarrowSynonym", "val" : "multicellular organismal macromolecule catabolic process" + }, { + "pred" : "hasRelatedSynonym", + "val" : "cellular macromolecule catabolic process" + }, { + "pred" : "hasRelatedSynonym", + "val" : "cellular macromolecule catabolism" + }, { + "pred" : "hasRelatedSynonym", + "val" : "cellular macromolecule degradation" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", @@ -45388,6 +46505,9 @@ "val" : "macromolecule synthesis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "http://amigo.geneontology.org/amigo/term/GO:0070589" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043284" }, { @@ -46888,6 +48008,7 @@ "val" : "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.", "xrefs" : [ "GOC:go_curators", "GOC:isa_complete" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_plant" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -47196,6 +48317,34 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0010324", + "lbl" : "membrane invagination", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The infolding of a membrane.", + "xrefs" : [ "GOC:tb" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "single-organism membrane invagination" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "jl" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-12-02T13:58:34Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:1902534" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0010453", "lbl" : "regulation of cell fate commitment", @@ -48265,48 +49414,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0010675", - "lbl" : "regulation of cellular carbohydrate metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.", - "xrefs" : [ "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0010676", - "lbl" : "positive regulation of cellular carbohydrate metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.", - "xrefs" : [ "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0010677", - "lbl" : "negative regulation of cellular carbohydrate metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.", - "xrefs" : [ "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0010700", "lbl" : "negative regulation of norepinephrine secretion", @@ -49170,34 +50277,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0010941", - "lbl" : "regulation of cell death", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.", - "xrefs" : [ "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0010942", - "lbl" : "positive regulation of cell death", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.", - "xrefs" : [ "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0010948", "lbl" : "negative regulation of cell cycle process", @@ -49454,7 +50533,7 @@ "xrefs" : [ "GOC:lr", "GOC:mtg_apoptosis" ] }, "comments" : [ "Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulated cell death" @@ -49481,6 +50560,9 @@ "val" : "Wikipedia:Programmed_cell_death" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24835" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0016244" }, { @@ -50950,6 +52032,12 @@ "val" : "Reactome:R-HSA-561054" }, { "val" : "Reactome:R-HSA-561072" + }, { + "val" : "Reactome:R-HSA-9794270" + }, { + "val" : "Reactome:R-HSA-9794523" + }, { + "val" : "Reactome:R-HSA-9795207" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -51083,6 +52171,8 @@ "val" : "Reactome:R-HSA-5661184" }, { "val" : "Reactome:R-HSA-5661198" + }, { + "val" : "Reactome:R-HSA-9733964" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -51307,6 +52397,27 @@ "val" : "molecular_function" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0015172", + "lbl" : "acidic amino acid transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3.", + "xrefs" : [ "GOC:ai", "GOC:mtg_transport", "ISBN:0815340729" ] + }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "acidic amino acid transporter activity" + } ], + "xrefs" : [ { + "val" : "Reactome:R-HSA-372448" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015179", "lbl" : "L-amino acid transmembrane transporter activity", @@ -51398,20 +52509,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0015631", - "lbl" : "tubulin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to monomeric or multimeric forms of tubulin, including microtubules.", - "xrefs" : [ "GOC:clt" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015669", "lbl" : "gas transport", @@ -51615,6 +52712,30 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0015813", + "lbl" : "L-glutamate transmembrane transport", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The directed movement of L-glutamate across a membrane.", + "xrefs" : [ "PMID:21307582" ] + }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "L-glutamate transport" + }, { + "pred" : "hasRelatedSynonym", + "val" : "mitochondrial aspartate/glutamate transport" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0089711" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015833", "lbl" : "peptide transport", @@ -51718,6 +52839,25 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0015869", + "lbl" : "protein-DNA complex transport", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.", + "xrefs" : [ "GOC:ai" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA-protein complex transport", + "xrefs" : [ "GOC:mah" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0015870", "lbl" : "acetylcholine transport", @@ -52349,13 +53489,16 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms.", + "val" : "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues.", "xrefs" : [ "GOC:cjm", "GOC:dph", "GOC:ems", "GOC:pf", "Wikipedia:Cell_migration" ] }, "xrefs" : [ { "val" : "Wikipedia:Cell_migration" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24787" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -52407,39 +53550,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0016595", - "lbl" : "glutamate binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to glutamate, the anion of 2-aminopentanedioic acid.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "glutamic acid binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0016597", - "lbl" : "amino acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an amino acid, organic acids containing one or more amino substituents.", - "xrefs" : [ "GOC:ai" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0016740", "lbl" : "transferase activity", @@ -52486,17 +53596,63 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0017046", - "lbl" : "peptide hormone binding", + "id" : "http://purl.obolibrary.org/obo/GO_0016787", + "lbl" : "hydrolase activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to a peptide with hormonal activity in animals.", - "xrefs" : [ "GOC:jl", "ISBN:0198506732" ] + "val" : "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.", + "xrefs" : [ "ISBN:0198506732" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], + "xrefs" : [ { + "val" : "EC:3.-.-.-" + }, { + "val" : "Reactome:R-HSA-1236938" + }, { + "val" : "Reactome:R-HSA-2029475" + }, { + "val" : "Reactome:R-HSA-5694583" + }, { + "val" : "Reactome:R-HSA-5695964" + }, { + "val" : "Reactome:R-HSA-6786190" + }, { + "val" : "Reactome:R-HSA-6788295" + }, { + "val" : "Reactome:R-HSA-8938314" + }, { + "val" : "Reactome:R-HSA-8952137" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0016788", + "lbl" : "hydrolase activity, acting on ester bonds", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Catalysis of the hydrolysis of any ester bond.", + "xrefs" : [ "GOC:jl" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "polypeptide hormone binding" + "val" : "esterase activity" + } ], + "xrefs" : [ { + "val" : "EC:3.1.-.-" + }, { + "val" : "Reactome:R-HSA-162729" + }, { + "val" : "Reactome:R-HSA-9023617" + }, { + "val" : "Reactome:R-HSA-9023619" + }, { + "val" : "Reactome:R-HSA-9749609" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -52738,48 +53894,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0019207", - "lbl" : "kinase regulator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0019209", - "lbl" : "kinase activator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0019210", - "lbl" : "kinase inhibitor activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and stops, prevents or reduces the activity of a kinase.", - "xrefs" : [ "GOC:mah" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0019216", "lbl" : "regulation of lipid metabolic process", @@ -53136,6 +54250,30 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0019478", + "lbl" : "D-amino acid catabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids.", + "xrefs" : [ "GOC:ai", "GOC:jsg" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "D-amino acid breakdown" + }, { + "pred" : "hasExactSynonym", + "val" : "D-amino acid catabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "D-amino acid degradation" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0019538", "lbl" : "protein metabolic process", @@ -53311,28 +54449,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0019825", - "lbl" : "oxygen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to oxygen (O2).", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "cytochrome P450" - }, { - "pred" : "hasRelatedSynonym", - "val" : "cytochrome P450 activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0019867", "lbl" : "outer membrane", @@ -53480,6 +54596,20 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0021523", + "lbl" : "somatic motor neuron differentiation", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate.", + "xrefs" : [ "GOC:cls", "GOC:dgh", "GOC:dph", "GOC:jid", "GO_REF:0000021", "PMID:11262869" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0021532", "lbl" : "neural tube patterning", @@ -55637,7 +56767,7 @@ } }, { "id" : "http://purl.obolibrary.org/obo/GO_0022618", - "lbl" : "ribonucleoprotein complex assembly", + "lbl" : "protein-RNA complex assembly", "type" : "CLASS", "meta" : { "definition" : { @@ -55653,7 +56783,7 @@ "val" : "RNP complex assembly" }, { "pred" : "hasExactSynonym", - "val" : "protein-RNA complex assembly" + "val" : "ribonucleoprotein complex assembly" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -55827,6 +56957,7 @@ "val" : "Any process that modulates the frequency, rate or extent of transmembrane transporter activity.", "xrefs" : [ "GOC:dph", "GOC:mtg_cardio", "GOC:mtg_transport" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -55854,40 +56985,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0023023", - "lbl" : "MHC protein complex binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a major histocompatibility complex.", - "xrefs" : [ "GOC:mtg_signal", "GOC:vw" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-02-16T09:30:50Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0023026", - "lbl" : "MHC class II protein complex binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a class II major histocompatibility complex.", - "xrefs" : [ "GOC:mtg_signal", "GOC:vw" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-02-16T09:30:50Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0023051", "lbl" : "regulation of signaling", @@ -56434,6 +57531,20 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0030100", + "lbl" : "regulation of endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of endocytosis.", + "xrefs" : [ "GOC:go_curators" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030133", "lbl" : "transport vesicle", @@ -56493,7 +57604,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", + "val" : "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.", "xrefs" : [ "ISBN:0198506732" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_plant" ], @@ -56501,6 +57612,9 @@ "val" : "Wikipedia:Cellular_differentiation" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24390" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -56897,36 +58011,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0030234", - "lbl" : "enzyme regulator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and modulates the activity of an enzyme.", - "xrefs" : [ "GOC:dph", "GOC:mah", "GOC:tb" ] - }, - "comments" : [ "This term should only be used in cases when the regulator directly interacts with the enzyme." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_mouse", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "catalytic regulator activity", - "xrefs" : [ "GOC:dph" ] - }, { - "pred" : "hasExactSynonym", - "val" : "enzyme modulator" - }, { - "pred" : "hasNarrowSynonym", - "val" : "metalloenzyme regulator activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0010576" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030239", "lbl" : "myofibril assembly", @@ -56941,52 +58025,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0030246", - "lbl" : "carbohydrate binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.", - "xrefs" : [ "GOC:mah" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "sugar binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "selectin" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0005529" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0030247", - "lbl" : "polysaccharide binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "polysaccharide assembly with MHC class II protein complex" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0002506" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0030261", "lbl" : "chromosome condensation", @@ -57606,7 +58644,7 @@ "meta" : { "definition" : { "val" : "A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell.", - "xrefs" : [ "GOC:mah" ] + "xrefs" : [ "GOC:mah", "PMID:24193406" ] }, "synonyms" : [ { "pred" : "hasBroadSynonym", @@ -57616,6 +58654,9 @@ "val" : "cellular sulfate ion homeostasis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24514" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -57629,6 +58670,7 @@ "val" : "A homeostatic process involved in the maintenance of a steady state level of phosphate ions within a cell.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cellular phosphate ion homeostasis" @@ -59479,39 +60521,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0031402", - "lbl" : "sodium ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a sodium ion (Na+).", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "Na+ ion binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0031406", - "lbl" : "carboxylic acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-).", - "xrefs" : [ "GOC:mah", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0031410", "lbl" : "cytoplasmic vesicle", @@ -59561,20 +60570,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0031420", - "lbl" : "alkali metal ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen.", - "xrefs" : [ "GOC:mah" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0031503", "lbl" : "protein-containing complex localization", @@ -60008,20 +61003,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0032052", - "lbl" : "bile acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a bile acid, a steroid carboxylic acids occurring in bile.", - "xrefs" : [ "GOC:rph" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0032057", "lbl" : "negative regulation of translational initiation in response to stress", @@ -60137,26 +61118,105 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0032091", - "lbl" : "negative regulation of protein binding", + "id" : "http://purl.obolibrary.org/obo/GO_0032069", + "lbl" : "regulation of nuclease activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids.", + "xrefs" : [ "GOC:mah" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "nuclease regulator activity" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032070", + "lbl" : "regulation of deoxyribonuclease activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid.", + "xrefs" : [ "GOC:mah" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "DNase regulator" + }, { + "pred" : "hasRelatedSynonym", + "val" : "deoxyribonuclease regulator" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032074", + "lbl" : "negative regulation of nuclease activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids.", + "xrefs" : [ "GOC:mah" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "down regulation of nuclease activity" + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of nuclease activity" + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of nuclease activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of nuclease activity" + }, { + "pred" : "hasRelatedSynonym", + "val" : "nuclease inhibitor" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032075", + "lbl" : "positive regulation of nuclease activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding.", + "val" : "Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "down regulation of protein binding" + "val" : "up regulation of nuclease activity" }, { "pred" : "hasExactSynonym", - "val" : "down-regulation of protein binding" + "val" : "up-regulation of nuclease activity" }, { "pred" : "hasExactSynonym", - "val" : "downregulation of protein binding" + "val" : "upregulation of nuclease activity" }, { "pred" : "hasNarrowSynonym", - "val" : "inhibition of protein binding" + "val" : "activation of nuclease activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "stimulation of nuclease activity" + }, { + "pred" : "hasRelatedSynonym", + "val" : "nuclease activator" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -60164,29 +61224,70 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0032092", - "lbl" : "positive regulation of protein binding", + "id" : "http://purl.obolibrary.org/obo/GO_0032076", + "lbl" : "negative regulation of deoxyribonuclease activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of protein binding.", + "val" : "Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "up regulation of protein binding" + "val" : "down regulation of deoxyribonuclease activity" }, { "pred" : "hasExactSynonym", - "val" : "up-regulation of protein binding" + "val" : "down-regulation of deoxyribonuclease activity" }, { "pred" : "hasExactSynonym", - "val" : "upregulation of protein binding" + "val" : "downregulation of deoxyribonuclease activity" }, { "pred" : "hasNarrowSynonym", - "val" : "activation of protein binding" + "val" : "inhibition of deoxyribonuclease activity" + }, { + "pred" : "hasRelatedSynonym", + "val" : "DNase inhibitor" + }, { + "pred" : "hasRelatedSynonym", + "val" : "deoxyribonuclease inhibitor" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032077", + "lbl" : "positive regulation of deoxyribonuclease activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid.", + "xrefs" : [ "GOC:mah" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "up regulation of deoxyribonuclease activity" + }, { + "pred" : "hasExactSynonym", + "val" : "up-regulation of deoxyribonuclease activity" + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of deoxyribonuclease activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of deoxyribonuclease activity" }, { "pred" : "hasNarrowSynonym", - "val" : "stimulation of protein binding" + "val" : "stimulation of deoxyribonuclease activity" + }, { + "pred" : "hasRelatedSynonym", + "val" : "DNase activator" + }, { + "pred" : "hasRelatedSynonym", + "val" : "deoxyribonuclease activator" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -61079,6 +62180,7 @@ "val" : "Any process that modulates the activity of a transporter.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -61093,6 +62195,7 @@ "val" : "Any process that stops or reduces the activity of a transporter.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of transporter activity" @@ -61120,6 +62223,7 @@ "val" : "Any process that activates or increases the activity of a transporter.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of transporter activity" @@ -61150,6 +62254,7 @@ "val" : "Any process that modulates the activity of an ion transporter.", "xrefs" : [ "GOC:mah", "GOC:tb" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "regulation of ion transmembrane transporter activity" @@ -61172,6 +62277,7 @@ "val" : "Any process that stops or reduces the activity of an ion transporter.", "xrefs" : [ "GOC:mah", "GOC:tb" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of ion transporter activity" @@ -61203,6 +62309,7 @@ "val" : "Any process that activates or increases the activity of an ion transporter.", "xrefs" : [ "GOC:mah", "GOC:tb" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "positive regulation of ion transporter activity", @@ -61531,6 +62638,7 @@ "xrefs" : [ "GOC:mah", "GOC:txnOH" ] }, "comments" : [ "Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "RNA anabolism" @@ -62251,9 +63359,28 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032986", + "lbl" : "protein-DNA complex disassembly", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The disaggregation of a protein-DNA complex into its constituent components.", + "xrefs" : [ "GOC:mah" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA-protein complex disassembly", + "xrefs" : [ "GOC:mah" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0032988", - "lbl" : "ribonucleoprotein complex disassembly", + "lbl" : "protein-RNA complex disassembly", "type" : "CLASS", "meta" : { "definition" : { @@ -62268,9 +63395,12 @@ "val" : "RNP complex disassembly" }, { "pred" : "hasExactSynonym", - "val" : "protein-RNA complex disassembly" + "val" : "ribonucleoprotein complex disassembly" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/25143" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -62344,6 +63474,27 @@ "val" : "cellular_component" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0032993", + "lbl" : "protein-DNA complex", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A macromolecular complex containing both protein and DNA molecules.", + "xrefs" : [ "GOC:mah" ] + }, + "comments" : [ "Note that this term is intended to classify complexes that have DNA as one of the members of the complex, that is, the complex does not exist if DNA is not present. Protein complexes that interact with DNA e.g. transcription factor complexes should not be classified here." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA-protein complex", + "xrefs" : [ "GOC:mah" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "cellular_component" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0032997", "lbl" : "Fc receptor complex", @@ -62806,6 +63957,24 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0033054", + "lbl" : "D-glutamate metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid.", + "xrefs" : [ "GOC:jsg", "GOC:mah" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "D-glutamate metabolism" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0033059", "lbl" : "cellular pigmentation", @@ -62884,21 +64053,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033218", - "lbl" : "amide binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group.", - "xrefs" : [ "GOC:mah" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0033238", "lbl" : "regulation of amine metabolic process", @@ -63061,91 +64215,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033293", - "lbl" : "monocarboxylic acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-).", - "xrefs" : [ "GOC:mah" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033341", - "lbl" : "regulation of collagen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of collagen binding.", - "xrefs" : [ "GOC:mah" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033342", - "lbl" : "negative regulation of collagen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding.", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "down regulation of collagen binding" - }, { - "pred" : "hasExactSynonym", - "val" : "down-regulation of collagen binding" - }, { - "pred" : "hasExactSynonym", - "val" : "downregulation of collagen binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of collagen binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033343", - "lbl" : "positive regulation of collagen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of collagen binding.", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "up regulation of collagen binding" - }, { - "pred" : "hasExactSynonym", - "val" : "up-regulation of collagen binding" - }, { - "pred" : "hasExactSynonym", - "val" : "upregulation of collagen binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "activation of collagen binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "stimulation of collagen binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0033363", "lbl" : "secretory granule organization", @@ -63387,6 +64456,7 @@ "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of kinase activity" @@ -63417,6 +64487,7 @@ "val" : "Any process that activates or increases the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.", "xrefs" : [ "GOC:mah" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "up regulation of kinase activity" @@ -63438,39 +64509,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0033692", - "lbl" : "cellular polysaccharide biosynthetic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell.", - "xrefs" : [ "GOC:go_curators" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular glycan biosynthesis" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular glycan biosynthetic process" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide anabolism" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide biosynthesis" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide formation" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide synthesis" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0033750", "lbl" : "ribosome localization", @@ -64280,20 +65318,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0034637", - "lbl" : "cellular carbohydrate biosynthetic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells.", - "xrefs" : [ "GOC:mah" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0034641", "lbl" : "cellular nitrogen compound metabolic process", @@ -64313,44 +65337,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0034645", - "lbl" : "cellular macromolecule biosynthetic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells.", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular biopolymer biosynthetic process", - "xrefs" : [ "GOC:mtg_chebi_dec09" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule anabolism", - "xrefs" : [ "GOC:mah" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule biosynthesis", - "xrefs" : [ "GOC:mah" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule formation", - "xrefs" : [ "GOC:mah" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule synthesis", - "xrefs" : [ "GOC:mah" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0034961" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0034654", "lbl" : "nucleobase-containing compound biosynthetic process", @@ -65423,66 +66409,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0035561", - "lbl" : "regulation of chromatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.", - "xrefs" : [ "GOC:bf", "PMID:20404130" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-05-19T10:28:36Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0035562", - "lbl" : "negative regulation of chromatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.", - "xrefs" : [ "GOC:bf", "PMID:20404130" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-05-19T10:29:06Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0035563", - "lbl" : "positive regulation of chromatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.", - "xrefs" : [ "GOC:bf", "PMID:20404130" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-05-19T10:29:41Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0035577", "lbl" : "azurophil granule membrane", @@ -66517,28 +67443,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0036094", - "lbl" : "small molecule binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule.", - "xrefs" : [ "GOC:curators", "GOC:pde", "GOC:pm" ] - }, - "comments" : [ "Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-01-17T04:20:34Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0036135", "lbl" : "Schwann cell migration", @@ -66797,6 +67701,9 @@ "xrefs" : [ "GOC:PARL", "GOC:bf", "PMID:12473691" ] }, "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus membrane fusion" + }, { "pred" : "hasExactSynonym", "val" : "membrane fusion involved in Golgi reassembly", "xrefs" : [ "GOC:bf" ] @@ -67591,35 +68498,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0042165", - "lbl" : "neurotransmitter binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell.", - "xrefs" : [ "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0042166", - "lbl" : "acetylcholine binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions.", - "xrefs" : [ "GOC:ai" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0042175", "lbl" : "nuclear outer membrane-endoplasmic reticulum membrane network", @@ -67995,35 +68873,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0042277", - "lbl" : "peptide binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0042301", - "lbl" : "phosphate ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a phosphate ion.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0042325", "lbl" : "regulation of phosphorylation", @@ -68695,21 +69544,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0042562", - "lbl" : "hormone binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0042582", "lbl" : "azurophil granule", @@ -69022,6 +69856,38 @@ "val" : "molecular_function" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0042940", + "lbl" : "D-amino acid transport", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.", + "xrefs" : [ "GOC:jl", "GOC:jsg", "GOC:mah" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0042943", + "lbl" : "D-amino acid transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids.", + "xrefs" : [ "GOC:jl", "GOC:jsg", "GOC:mah", "GOC:mtg_transport", "ISBN:0815340729" ] + }, + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "D-amino acid transporter activity" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0042981", "lbl" : "regulation of apoptotic process", @@ -69247,54 +70113,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043021", - "lbl" : "ribonucleoprotein complex binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a complex of RNA and protein.", - "xrefs" : [ "GOC:bf", "GOC:go_curators", "GOC:vk" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "RNP binding" - }, { - "pred" : "hasExactSynonym", - "val" : "protein-RNA complex binding", - "xrefs" : [ "GOC:bf", "GOC:vk" ] - }, { - "pred" : "hasExactSynonym", - "val" : "ribonucleoprotein binding", - "xrefs" : [ "GOC:bf", "GOC:vk" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043022", - "lbl" : "ribosome binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a ribosome.", - "xrefs" : [ "GOC:go_curators" ] - }, - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "ribosome receptor activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0030376" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043025", "lbl" : "neuronal cell body", @@ -69677,7 +70495,7 @@ "val" : "Any process that activates or increases the activity of an enzyme.", "xrefs" : [ "GOC:ebc", "GOC:jl", "GOC:tb", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "positive regulation of enzyme activity", @@ -69733,6 +70551,7 @@ "val" : "Any process that stops or reduces the activity of an enzyme.", "xrefs" : [ "GOC:ebc", "GOC:jl", "GOC:tb", "GOC:vw" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of enzyme activity" @@ -69863,53 +70682,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043167", - "lbl" : "ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an ion, a charged atoms or groups of atoms.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_yeast" ], - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "atom binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043168", - "lbl" : "anion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an anion, a charged atom or group of atoms with a net negative charge.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043169", - "lbl" : "cation binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a cation, a charged atom or group of atoms with a net positive charge.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043170", "lbl" : "macromolecule metabolic process", @@ -69935,6 +70707,9 @@ "val" : "multicellular organismal macromolecule metabolic process" } ], "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", + "val" : "GO:0034960" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0043283" }, { @@ -69969,65 +70744,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043176", - "lbl" : "amine binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043177", - "lbl" : "organic acid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an organic acid, any acidic compound containing carbon in covalent linkage.", - "xrefs" : [ "GOC:jl", "ISBN:0198506732" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043184", - "lbl" : "vascular endothelial growth factor receptor 2 binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a vascular endothelial growth factor receptor 2.", - "xrefs" : [ "GOC:st" ] - }, - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "KDR binding" - }, { - "pred" : "hasExactSynonym", - "val" : "Flk-1 binding" - }, { - "pred" : "hasExactSynonym", - "val" : "VEGF receptor 2 binding" - }, { - "pred" : "hasExactSynonym", - "val" : "VEGFR 2 binding" - }, { - "pred" : "hasExactSynonym", - "val" : "kinase domain region binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043197", "lbl" : "dendritic spine", @@ -70072,20 +70788,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043199", - "lbl" : "sulfate binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to sulfate, SO4(2-), a negatively charged small molecule.", - "xrefs" : [ "GOC:mlg" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043200", "lbl" : "response to amino acid", @@ -70676,20 +71378,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043393", - "lbl" : "regulation of protein binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of protein binding.", - "xrefs" : [ "GOC:go_curators" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043434", "lbl" : "response to peptide hormone", @@ -70794,20 +71482,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043471", - "lbl" : "regulation of cellular carbohydrate catabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043473", "lbl" : "pigmentation", @@ -71094,28 +71768,12 @@ "val" : "Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.", "xrefs" : [ "GOC:bf" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0043559", - "lbl" : "insulin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms.", - "xrefs" : [ "ISBN:0198506732" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002161", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0043576", "lbl" : "regulation of respiratory gaseous exchange", @@ -71681,6 +72339,7 @@ "val" : "Any process that stops or reduces the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding.", "xrefs" : [ "GO:jl" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" @@ -71701,6 +72360,7 @@ "val" : "Any process that activates or increases the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding.", "xrefs" : [ "GO:jl" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "jl" @@ -71748,6 +72408,7 @@ "val" : "The chemical reactions and pathways by which individual cells transform chemical substances.", "xrefs" : [ "GOC:go_curators" ] }, + "comments" : [ "This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term." ], "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -71781,30 +72442,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044247", - "lbl" : "cellular polysaccharide catabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide breakdown" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide catabolism" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide degradation" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0044248", "lbl" : "cellular catabolic process", @@ -71880,113 +72517,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044260", - "lbl" : "cellular macromolecule metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells.", - "xrefs" : [ "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular biopolymer metabolic process", - "xrefs" : [ "GOC:mtg_chebi_dec09" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule metabolism" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0034960" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044262", - "lbl" : "cellular carbohydrate metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular carbohydrate metabolism" - }, { - "pred" : "hasNarrowSynonym", - "val" : "main pathways of carbohydrate metabolic process" - }, { - "pred" : "hasNarrowSynonym", - "val" : "main pathways of carbohydrate metabolism" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0006092" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044264", - "lbl" : "cellular polysaccharide metabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular glycan metabolic process" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular glycan metabolism" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular polysaccharide metabolism" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044265", - "lbl" : "cellular macromolecule catabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular biopolymer catabolic process", - "xrefs" : [ "GOC:mtg_chebi_dec09" ] - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule breakdown" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule catabolism" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular macromolecule degradation" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0034962" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0044270", "lbl" : "cellular nitrogen compound catabolic process", @@ -72101,30 +72631,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044275", - "lbl" : "cellular carbohydrate catabolic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.", - "xrefs" : [ "GOC:jl" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cellular carbohydrate breakdown" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular carbohydrate catabolism" - }, { - "pred" : "hasExactSynonym", - "val" : "cellular carbohydrate degradation" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0044281", "lbl" : "small molecule metabolic process", @@ -72557,57 +73063,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044815", - "lbl" : "DNA packaging complex", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein complex that plays a role in the process of DNA packaging.", - "xrefs" : [ "GOC:jl" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "jl" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2013-09-19T11:33:45Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "cellular_component" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0044877", - "lbl" : "protein-containing complex binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a macromolecular complex.", - "xrefs" : [ "GOC:jl" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "protein complex binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "macromolecular complex binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "jl" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2014-12-16T11:38:58Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0032403" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0045009", "lbl" : "chitosome", @@ -72694,11 +73149,14 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field.", + "val" : "The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate.", "xrefs" : [ "ISBN:0716731185" ] }, "comments" : [ "Note that this term was 'cell fate determination' but the term name was changed to better match its existing definition and the child term 'cell fate determination; GO:0001709' was also created." ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24390" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -72740,25 +73198,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0045182", - "lbl" : "translation regulator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome.", - "xrefs" : [ "GOC:ai" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "translation factor activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0045184", "lbl" : "establishment of protein localization", @@ -73083,20 +73522,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0045296", - "lbl" : "cadherin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to cadherin, a type I membrane protein involved in cell adhesion.", - "xrefs" : [ "GOC:bf" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0045321", "lbl" : "leukocyte activation", @@ -75629,6 +76054,63 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0045806", + "lbl" : "negative regulation of endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis.", + "xrefs" : [ "GOC:go_curators" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "down regulation of endocytosis" + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of endocytosis" + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of endocytosis" + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of endocytosis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0045807", + "lbl" : "positive regulation of endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that activates or increases the frequency, rate or extent of endocytosis.", + "xrefs" : [ "GOC:go_curators" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "up regulation of endocytosis" + }, { + "pred" : "hasExactSynonym", + "val" : "up-regulation of endocytosis" + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of endocytosis" + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of endocytosis" + }, { + "pred" : "hasNarrowSynonym", + "val" : "stimulation of endocytosis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0045818", "lbl" : "negative regulation of glycogen catabolic process", @@ -77223,6 +77705,51 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0046416", + "lbl" : "D-amino acid metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids.", + "xrefs" : [ "GOC:ai", "GOC:jsg" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "D-amino acid metabolism" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0046437", + "lbl" : "D-amino acid biosynthetic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids.", + "xrefs" : [ "GOC:ai", "GOC:jsg" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "D-amino acid anabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "D-amino acid biosynthesis" + }, { + "pred" : "hasExactSynonym", + "val" : "D-amino acid formation" + }, { + "pred" : "hasExactSynonym", + "val" : "D-amino acid synthesis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0046483", "lbl" : "heterocycle metabolic process", @@ -77850,25 +78377,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0046848", - "lbl" : "hydroxyapatite binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin.", - "xrefs" : [ "PMID:2438276" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "hydroxylapatite binding", - "xrefs" : [ "GOC:vk" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0046849", "lbl" : "bone remodeling", @@ -77961,28 +78469,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0046872", - "lbl" : "metal ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a metal ion.", - "xrefs" : [ "GOC:ai" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_metagenomics" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "metal binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "heavy metal binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0046873", "lbl" : "metal ion transmembrane transporter activity", @@ -78193,25 +78679,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0046906", - "lbl" : "tetrapyrrole binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position.", - "xrefs" : [ "GOC:curators", "ISBN:0198506732" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_metagenomics", "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "porphyrin binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0046907", "lbl" : "intracellular transport", @@ -78243,20 +78710,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0046914", - "lbl" : "transition metal ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.", - "xrefs" : [ "ISBN:0198506732" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0046915", "lbl" : "transition metal ion transmembrane transporter activity", @@ -78365,20 +78818,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0048029", - "lbl" : "monosaccharide binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides.", - "xrefs" : [ "GOC:jid" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0048048", "lbl" : "embryonic eye morphogenesis", @@ -78638,6 +79077,27 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0048194", + "lbl" : "Golgi vesicle budding", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The evagination of the Golgi membrane, resulting in formation of a vesicle.", + "xrefs" : [ "GOC:jid", "ISBN:0716731363", "PMID:10219233" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi-derived vesicle budding" + }, { + "pred" : "hasNarrowSynonym", + "val" : "dictyosome vesicle budding" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0048199", "lbl" : "vesicle targeting, to, from or within Golgi", @@ -78840,6 +79300,9 @@ "xrefs" : [ "GOC:jid", "PMID:12851069" ] }, "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus inheritance" + }, { "pred" : "hasExactSynonym", "val" : "Golgi division", "xrefs" : [ "GOC:ascb_2009", "GOC:dph", "GOC:tb" ] @@ -79073,7 +79536,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate.", + "val" : "The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place.", "xrefs" : [ "GOC:go_curators" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_candida" ], @@ -79083,6 +79546,9 @@ "xrefs" : [ "GOC:dph", "GOC:tb" ] } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24390" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -79093,7 +79559,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state.", + "val" : "The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state.", "xrefs" : [ "GOC:go_curators" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], @@ -79103,6 +79569,9 @@ "xrefs" : [ "GOC:dph" ] } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24390" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -82222,7 +82691,7 @@ "val" : "Any process that modulates the activity of an enzyme.", "xrefs" : [ "GOC:ai", "GOC:ebc", "GOC:vw" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "regulation of enzyme activity" @@ -82571,55 +83040,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050839", - "lbl" : "cell adhesion molecule binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a cell adhesion molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "CAM binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "adhesive extracellular matrix constituent" - }, { - "pred" : "hasRelatedSynonym", - "val" : "cell adhesion molecule activity" - }, { - "pred" : "hasRelatedSynonym", - "val" : "cell adhesion receptor activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0050840", - "lbl" : "extracellular matrix binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a component of the extracellular matrix.", - "xrefs" : [ "GOC:ai" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_chembl", "http://purl.obolibrary.org/obo/go#goslim_pir" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "extracellular matrix constituent binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "adhesive extracellular matrix constituent" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0050863", "lbl" : "regulation of T cell activation", @@ -83577,6 +83997,20 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051027", + "lbl" : "DNA transport", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.", + "xrefs" : [ "GOC:ai" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051032", "lbl" : "nucleic acid transmembrane transporter activity", @@ -83608,6 +84042,20 @@ "val" : "molecular_function" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051035", + "lbl" : "DNA transmembrane transporter activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other.", + "xrefs" : [ "GOC:ai" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051046", "lbl" : "regulation of secretion", @@ -83751,6 +84199,88 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051052", + "lbl" : "regulation of DNA metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA.", + "xrefs" : [ "GOC:ai" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_yeast" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA metabolism" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051053", + "lbl" : "negative regulation of DNA metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA.", + "xrefs" : [ "GOC:ai" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "down regulation of DNA metabolic process" + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of DNA metabolic process" + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of DNA metabolic process" + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA metabolism" + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of DNA metabolic process" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051054", + "lbl" : "positive regulation of DNA metabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA.", + "xrefs" : [ "GOC:ai" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "positive regulation of DNA metabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "up regulation of DNA metabolic process" + }, { + "pred" : "hasExactSynonym", + "val" : "up-regulation of DNA metabolic process" + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of DNA metabolic process" + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of DNA metabolic process" + }, { + "pred" : "hasNarrowSynonym", + "val" : "stimulation of DNA metabolic process" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051055", "lbl" : "negative regulation of lipid biosynthetic process", @@ -83794,20 +84324,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051059", - "lbl" : "NF-kappaB binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters.", - "xrefs" : [ "GOC:ai" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051078", "lbl" : "meiotic nuclear membrane disassembly", @@ -83919,77 +84435,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051098", - "lbl" : "regulation of binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051099", - "lbl" : "positive regulation of binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "up regulation of binding" - }, { - "pred" : "hasExactSynonym", - "val" : "up-regulation of binding" - }, { - "pred" : "hasExactSynonym", - "val" : "upregulation of binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "activation of binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "stimulation of binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051100", - "lbl" : "negative regulation of binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule.", - "xrefs" : [ "GOC:ai" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "down regulation of binding" - }, { - "pred" : "hasExactSynonym", - "val" : "down-regulation of binding" - }, { - "pred" : "hasExactSynonym", - "val" : "downregulation of binding" - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051119", "lbl" : "sugar transmembrane transporter activity", @@ -85321,6 +85766,9 @@ "val" : "Wikipedia:Meiosis" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/24599" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "GO:0007126" }, { @@ -85328,6 +85776,25 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051336", + "lbl" : "regulation of hydrolase activity", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.", + "xrefs" : [ "GOC:ai" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "hydrolase regulator" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051338", "lbl" : "regulation of transferase activity", @@ -85338,7 +85805,7 @@ "xrefs" : [ "GOC:ai" ] }, "comments" : [ "This term is useful for grouping, but is too general for manual annotation. Please use a child term instead." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "transferase regulator" @@ -85349,34 +85816,33 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051347", - "lbl" : "positive regulation of transferase activity", + "id" : "http://purl.obolibrary.org/obo/GO_0051345", + "lbl" : "positive regulation of hydrolase activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor.", + "val" : "Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds.", "xrefs" : [ "GOC:ai" ] }, - "comments" : [ "This term is useful for grouping, but is too general for manual annotation. Please use a child term instead." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "transferase activator" + "val" : "hydrolase activator" }, { "pred" : "hasExactSynonym", - "val" : "up regulation of transferase activity" + "val" : "up regulation of hydrolase activity" }, { "pred" : "hasExactSynonym", - "val" : "up-regulation of transferase activity" + "val" : "up-regulation of hydrolase activity" }, { "pred" : "hasExactSynonym", - "val" : "upregulation of transferase activity" + "val" : "upregulation of hydrolase activity" }, { "pred" : "hasNarrowSynonym", - "val" : "activation of transferase activity" + "val" : "activation of hydrolase activity" }, { "pred" : "hasNarrowSynonym", - "val" : "stimulation of transferase activity" + "val" : "stimulation of hydrolase activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -85384,31 +85850,30 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051348", - "lbl" : "negative regulation of transferase activity", + "id" : "http://purl.obolibrary.org/obo/GO_0051346", + "lbl" : "negative regulation of hydrolase activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor.", + "val" : "Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds.", "xrefs" : [ "GOC:ai" ] }, - "comments" : [ "This term is useful for grouping, but is too general for manual annotation. Please use a child term instead." ], - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "down regulation of transferase activity" + "val" : "down regulation of hydrolase activity" }, { "pred" : "hasExactSynonym", - "val" : "down-regulation of transferase activity" + "val" : "down-regulation of hydrolase activity" }, { "pred" : "hasExactSynonym", - "val" : "downregulation of transferase activity" + "val" : "downregulation of hydrolase activity" }, { "pred" : "hasExactSynonym", - "val" : "transferase inhibitor" + "val" : "hydrolase inhibitor" }, { "pred" : "hasNarrowSynonym", - "val" : "inhibition of transferase activity" + "val" : "inhibition of hydrolase activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", @@ -85416,39 +85881,70 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051378", - "lbl" : "serotonin binding", + "id" : "http://purl.obolibrary.org/obo/GO_0051347", + "lbl" : "positive regulation of transferase activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties.", + "val" : "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor.", "xrefs" : [ "GOC:ai" ] }, + "comments" : [ "This term is useful for grouping, but is too general for manual annotation. Please use a child term instead." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "5-hydroxytryptamine binding" + "val" : "transferase activator" + }, { + "pred" : "hasExactSynonym", + "val" : "up regulation of transferase activity" + }, { + "pred" : "hasExactSynonym", + "val" : "up-regulation of transferase activity" + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of transferase activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of transferase activity" + }, { + "pred" : "hasNarrowSynonym", + "val" : "stimulation of transferase activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" + "val" : "biological_process" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0051380", - "lbl" : "norepinephrine binding", + "id" : "http://purl.obolibrary.org/obo/GO_0051348", + "lbl" : "negative regulation of transferase activity", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine.", + "val" : "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor.", "xrefs" : [ "GOC:ai" ] }, + "comments" : [ "This term is useful for grouping, but is too general for manual annotation. Please use a child term instead." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_manually_annotate", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "noradrenaline binding" + "val" : "down regulation of transferase activity" + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of transferase activity" + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of transferase activity" + }, { + "pred" : "hasExactSynonym", + "val" : "transferase inhibitor" + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of transferase activity" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" + "val" : "biological_process" } ] } }, { @@ -86906,6 +87402,25 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0051938", + "lbl" : "L-glutamate import", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle.", + "xrefs" : [ "GOC:ai", "GOC:jsg", "GOC:mah" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "L-glutamate uptake", + "xrefs" : [ "GOC:dph", "GOC:tb" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0051952", "lbl" : "regulation of amine transport", @@ -87993,24 +88508,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0055072", - "lbl" : "iron ion homeostasis", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.", - "xrefs" : [ "GOC:ai", "GOC:jid", "GOC:mah" ] - }, - "synonyms" : [ { - "pred" : "hasBroadSynonym", - "val" : "iron homeostasis" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0055078", "lbl" : "sodium ion homeostasis", @@ -88515,6 +89012,25 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0060096", + "lbl" : "serotonin secretion, neurotransmission", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter.", + "xrefs" : [ "GOC:dph" ] + }, + "synonyms" : [ { + "pred" : "hasRelatedSynonym", + "val" : "serotonin release, neurotransmission", + "xrefs" : [ "GOC:tb" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0060135", "lbl" : "maternal process involved in female pregnancy", @@ -90260,26 +90776,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0060548", - "lbl" : "negative regulation of cell death", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.", - "xrefs" : [ "GOC:BHF", "GOC:dph", "GOC:tb" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "dph" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2009-04-13T01:56:10Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0060560", "lbl" : "developmental growth involved in morphogenesis", @@ -94257,6 +94753,31 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0061533", + "lbl" : "norepinephrine secretion, neurotransmission", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter.", + "xrefs" : [ "GOC:dph" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "noradrenaline secretion, neurotransmission", + "xrefs" : [ "GOC:dph" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "dph" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-06-21T16:05:08Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0061535", "lbl" : "glutamate secretion, neurotransmission", @@ -94736,54 +95257,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0061629", - "lbl" : "RNA polymerase II-specific DNA-binding transcription factor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription.", - "xrefs" : [ "GOC:dph", "GOC:vw" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "RNA polymerase II sequence-specific DNA binding transcription factor binding" - }, { - "pred" : "hasExactSynonym", - "val" : "RNA polymerase II sequence-specific DNA-binding transcription factor binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "RNA polymerase II activating transcription factor binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "RNA polymerase II repressing transcription factor binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "RNA polymerase II transcription factor binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/19354" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "dph" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2014-05-15T09:12:24Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0001085" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0001102" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0001103" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0061687", "lbl" : "detoxification of inorganic compound", @@ -95312,6 +95785,25 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0065004", + "lbl" : "protein-DNA complex assembly", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex.", + "xrefs" : [ "GOC:jl" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA-protein complex assembly", + "xrefs" : [ "GOC:mah" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0065007", "lbl" : "biological regulation", @@ -95340,7 +95832,7 @@ "val" : "Any process that modulates the frequency, rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding.", "xrefs" : [ "GOC:isa_complete" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant" ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_pir", "http://purl.obolibrary.org/obo/go#goslim_plant", "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "regulation of a molecular function" @@ -95403,20 +95895,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0070051", - "lbl" : "fibrinogen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade.", - "xrefs" : [ "GOC:BHF", "GOC:mah", "GOC:vk" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0070062", "lbl" : "extracellular exosome", @@ -96274,24 +96752,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0070405", - "lbl" : "ammonium ion binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to ammonium ions (NH4+).", - "xrefs" : [ "CHEBI:28938", "GOC:ecd" ] - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "ammonium binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0070444", "lbl" : "oligodendrocyte progenitor proliferation", @@ -96595,26 +97055,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0070851", - "lbl" : "growth factor receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a growth factor receptor.", - "xrefs" : [ "GOC:mah", "GOC:vw" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "mah" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2009-08-07T11:23:02Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0070857", "lbl" : "regulation of bile acid biosynthetic process", @@ -98075,9 +98515,41 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0071824", + "lbl" : "protein-DNA complex organization", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex.", + "xrefs" : [ "GOC:mah" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "DNA-protein complex subunit organization", + "xrefs" : [ "GOC:mah" ] + }, { + "pred" : "hasExactSynonym", + "val" : "protein-DNA complex subunit organisation", + "xrefs" : [ "GOC:mah" ] + }, { + "pred" : "hasExactSynonym", + "val" : "protein-DNA complex subunit organization" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "mah" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2010-09-08T10:03:26Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0071826", - "lbl" : "ribonucleoprotein complex subunit organization", + "lbl" : "protein-RNA complex organization", "type" : "CLASS", "meta" : { "definition" : { @@ -98096,8 +98568,14 @@ "pred" : "hasExactSynonym", "val" : "ribonucleoprotein complex subunit organisation", "xrefs" : [ "GOC:mah" ] + }, { + "pred" : "hasExactSynonym", + "val" : "ribonucleoprotein complex subunit organization" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/25143" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { @@ -98349,31 +98827,40 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_0071890", - "lbl" : "bicarbonate binding", + "id" : "http://purl.obolibrary.org/obo/GO_0071897", + "lbl" : "DNA biosynthetic process", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Binding to bicarbonate ions (CHO3-).", - "xrefs" : [ "GOC:curators" ] + "val" : "The biosynthetic process resulting in the formation of DNA.", + "xrefs" : [ "GOC:mah" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "CHO3- ion binding binding" + "val" : "DNA anabolism", + "xrefs" : [ "GOC:mah" ] + }, { + "pred" : "hasExactSynonym", + "val" : "DNA biosynthesis", + "xrefs" : [ "GOC:mah" ] + }, { + "pred" : "hasExactSynonym", + "val" : "DNA formation", + "xrefs" : [ "GOC:mah" ] }, { "pred" : "hasExactSynonym", - "val" : "hydrogencarbonate binding", - "xrefs" : [ "CHEBI:17544" ] + "val" : "DNA synthesis", + "xrefs" : [ "GOC:mah" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "mah" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-09-14T01:47:43Z" + "val" : "2010-09-15T02:14:33Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" + "val" : "biological_process" } ] } }, { @@ -98382,8 +98869,8 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures.", - "xrefs" : [ "GOC:mah" ] + "val" : "The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures.", + "xrefs" : [ "GOC:pdt" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon" ], "basicPropertyValues" : [ { @@ -100055,6 +100542,10 @@ "val" : "A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance.", "xrefs" : [ "GOC:ascb_2009", "GOC:dph", "GOC:tb" ] }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus disassembly" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "tb" @@ -100075,6 +100566,10 @@ "val" : "The reformation of the Golgi following its breakdown and partitioning contributing to Golgi inheritance.", "xrefs" : [ "GOC:ascb_2009", "GOC:dph", "GOC:tb" ] }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "Golgi apparatus reassembly" + } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "tb" @@ -100889,6 +101384,39 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0097054", + "lbl" : "L-glutamate biosynthetic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid.", + "xrefs" : [ "GOC:yaf" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "L-glutamate anabolism" + }, { + "pred" : "hasExactSynonym", + "val" : "L-glutamate biosynthesis" + }, { + "pred" : "hasExactSynonym", + "val" : "L-glutamate formation" + }, { + "pred" : "hasExactSynonym", + "val" : "L-glutamate synthesis" + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "pr" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2011-05-24T04:30:38Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0097060", "lbl" : "synaptic membrane", @@ -101022,26 +101550,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0097159", - "lbl" : "organic cyclic compound binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure.", - "xrefs" : [ "GOC:sjw", "PMID:7583672" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pr" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2011-09-23T02:31:01Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0097164", "lbl" : "ammonium ion metabolic process", @@ -101390,27 +101898,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0097367", - "lbl" : "carbohydrate derivative binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a carbohydrate derivative.", - "xrefs" : [ "GOC:pr" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_agr", "http://purl.obolibrary.org/obo/go#goslim_mouse" ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pr" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-08-02T13:03:39Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0097386", "lbl" : "glial cell projection", @@ -101783,25 +102270,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0097690", - "lbl" : "iron ion transmembrane transporter inhibitor activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter.", - "xrefs" : [ "GOC:BHF", "GOC:kom", "PMID:15514116" ] - }, - "comments" : [ "An example of this is human hepcidin (UniProt symbol P81172), which regulates iron transport out of cells (see PMID:15514116)." ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "iron channel inhibitor activity" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0097708", "lbl" : "intracellular vesicle", @@ -102119,66 +102587,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0098631", - "lbl" : "cell adhesion mediator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell.", - "xrefs" : [ "GOC:vw", "Wikipedia:Cell_adhesion" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cell adhesion molecule" - }, { - "pred" : "hasExactSynonym", - "val" : "protein binding involved in cell adhesion" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/22959" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0098632", - "lbl" : "cell-cell adhesion mediator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell.", - "xrefs" : [ "Wikipedia:Cell_adhesion" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "cell-cell adhesion molecule" - }, { - "pred" : "hasExactSynonym", - "val" : "protein binding involved in cell-cell adhesion" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0098633", - "lbl" : "collagen fibril binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a collagen fibril.", - "xrefs" : [ "GOC:dos", "PMID:21421911" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0098635", "lbl" : "protein complex involved in cell-cell adhesion", @@ -102214,20 +102622,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0098641", - "lbl" : "cadherin binding involved in cell-cell adhesion", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any cadherin binding that occurs as part of the process of cell-cell adhesion.", - "xrefs" : [ "GOC:dos" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0098642", "lbl" : "network-forming collagen trimer", @@ -102512,6 +102906,7 @@ "val" : "Any process involved in the maintenance of an internal steady state of inorganic ions within an organism or cell.", "xrefs" : [ "GOC:dos" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pombe" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", "val" : "https://github.com/geneontology/go-ontology/issues/24455" @@ -102520,31 +102915,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0098772", - "lbl" : "molecular function regulator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition.", - "xrefs" : [ "GOC:dos", "GOC:pt" ] - }, - "subsets" : [ "http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate", "http://purl.obolibrary.org/obo/go#goslim_flybase_ribbon", "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "molecular function regulator" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/20854" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/20862" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0098773", "lbl" : "skin epidermis development", @@ -103831,9 +104201,6 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_drosophila", "http://purl.obolibrary.org/obo/go#goslim_synapse" ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002161", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_4895" - }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] @@ -104798,6 +105165,7 @@ "val" : "Any process that modulates the frequency, rate, or extent of lipid transporter activity.", "xrefs" : [ "GOC:BHF", "GOC:BHF_miRNA", "GOC:rph", "PMID:27365390" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "kmv" @@ -104818,6 +105186,7 @@ "val" : "Any process that increases the frequency, rate, or extent of lipid transporter activity.", "xrefs" : [ "GOC:BHF", "GOC:BHF_miRNA", "GOC:rph", "PMID:27365390" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "kmv" @@ -104838,6 +105207,7 @@ "val" : "Any process that decreases the frequency, rate, or extent of lipid transporter activity.", "xrefs" : [ "GOC:BHF", "GOC:BHF_miRNA", "GOC:rph", "PMID:27365390" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "kmv" @@ -104998,6 +105368,7 @@ "val" : "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex.", "xrefs" : [ "GOC:kmv" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_pir" ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", "val" : "kmv" @@ -105078,29 +105449,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0120023", - "lbl" : "somatostatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin.", - "xrefs" : [ "GOC:cvs", "PMID:20472043" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/13143" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "krc" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2017-03-17T14:54:21Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0120025", "lbl" : "plasma membrane bounded cell projection", @@ -105926,6 +106274,30 @@ "val" : "molecular_function" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0140097", + "lbl" : "catalytic activity, acting on DNA", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Catalytic activity that acts to modify DNA.", + "xrefs" : [ "GOC:molecular_function_refactoring", "GOC:pdt" ] + }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_generic", "http://purl.obolibrary.org/obo/go#prokaryote_subset" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/go-ontology/issues/14225" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "pg" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2017-09-14T12:03:51Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "molecular_function" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0140098", "lbl" : "catalytic activity, acting on RNA", @@ -106073,6 +106445,56 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0140238", + "lbl" : "presynaptic endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.", + "xrefs" : [ "PMID:24719103" ] + }, + "comments" : [ "Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/synapse/issues/230" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "pg" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-07-15T07:33:55Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_0140239", + "lbl" : "postsynaptic endocytosis", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.", + "xrefs" : [ "PMID:12839988" ] + }, + "comments" : [ "Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua." ], + "subsets" : [ "http://purl.obolibrary.org/obo/go#goslim_synapse" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", + "val" : "https://github.com/geneontology/synapse/issues/230" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "pg" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2018-07-15T07:38:27Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_0140241", "lbl" : "translation at synapse", @@ -106378,48 +106800,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0140297", - "lbl" : "DNA-binding transcription factor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription.", - "xrefs" : [ "GOC:txnOH-2018" ] - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "activating transcription factor binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "repressing transcription factor binding" - }, { - "pred" : "hasRelatedSynonym", - "val" : "transcription activator binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/19354" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pg" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2018-11-28T12:48:20Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0001107" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0033613" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", - "val" : "GO:0070491" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0140318", "lbl" : "protein transporter activity", @@ -106626,52 +107006,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0140677", - "lbl" : "molecular function activator activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target.", - "xrefs" : [ "GOC:curators" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/21782" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pg" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-07-07T07:24:16Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0140678", - "lbl" : "molecular function inhibitor activity", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target.", - "xrefs" : [ "GOC:curators" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000233", - "val" : "https://github.com/geneontology/go-ontology/issues/21782" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pg" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2021-07-07T07:24:32Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0140694", "lbl" : "non-membrane-bounded organelle assembly", @@ -106786,20 +107120,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_0150005", - "lbl" : "enzyme activator complex", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active.", - "xrefs" : [ "GOC:bhm", "PMID:16244137", "PMID:28710280" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "cellular_component" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_0150031", "lbl" : "regulation of protein localization to lysosome", @@ -107702,109 +108022,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900120", - "lbl" : "regulation of receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor.", - "xrefs" : [ "GOC:TermGenie", "GOC:signaling" ] - }, - "synonyms" : [ { - "pred" : "hasNarrowSynonym", - "val" : "regulation of receptor ligand", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-22T11:40:53Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900121", - "lbl" : "negative regulation of receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor.", - "xrefs" : [ "GOC:TermGenie", "GOC:signaling" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "down regulation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "down-regulation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "downregulation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of receptor ligand", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "down regulation of receptor-associated protein activity", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-22T11:40:57Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900122", - "lbl" : "positive regulation of receptor binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor.", - "xrefs" : [ "GOC:TermGenie", "GOC:signaling" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "up regulation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "upregulation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "activation of receptor binding", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-22T11:41:00Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1900125", "lbl" : "regulation of hyaluronan biosynthetic process", @@ -108076,100 +108293,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900130", - "lbl" : "regulation of lipid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of lipid binding.", - "xrefs" : [ "GOC:TermGenie", "GOC:pm" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pm" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-23T04:05:03Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900131", - "lbl" : "negative regulation of lipid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding.", - "xrefs" : [ "GOC:TermGenie", "GOC:pm" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "down regulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "down-regulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "downregulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pm" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-23T04:05:07Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1900132", - "lbl" : "positive regulation of lipid binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of lipid binding.", - "xrefs" : [ "GOC:TermGenie", "GOC:pm" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "up regulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "up-regulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "upregulation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "activation of lipid binding", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pm" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-02-23T04:05:11Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1900141", "lbl" : "regulation of oligodendrocyte apoptotic process", @@ -110661,26 +110784,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1901338", - "lbl" : "catecholamine binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to catecholamine.", - "xrefs" : [ "GOC:TermGenie" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-09-03T14:08:44Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1901342", "lbl" : "regulation of vasculature development", @@ -110858,26 +110961,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1901363", - "lbl" : "heterocyclic compound binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to heterocyclic compound.", - "xrefs" : [ "GOC:TermGenie" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-09-14T13:53:50Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1901374", "lbl" : "acetate ester transport", @@ -113128,30 +113211,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1901681", - "lbl" : "sulfur compound binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a sulfur compound.", - "xrefs" : [ "GOC:TermGenie", "GOC:pr" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "sulfur molecular entity binding" - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pr" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2012-11-26T20:45:23Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1901682", "lbl" : "sulfur compound transmembrane transporter activity", @@ -114470,6 +114529,26 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1902065", + "lbl" : "response to L-glutamate", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus.", + "xrefs" : [ "GOC:TermGenie", "PMID:23574009" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "tb" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-04-16T21:21:14Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1902074", "lbl" : "response to salt", @@ -116401,6 +116480,286 @@ "val" : "cellular_component" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1902510", + "lbl" : "regulation of apoptotic DNA fragmentation", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation.", + "xrefs" : [ "GOC:TermGenie", "GOC:hjd", "PMID:15572351", "PMID:15723341" ] + }, + "comments" : [ "DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases (see GO:0006309 'apoptotic DNA fragmentation'). Gene products involved in compartmentalization of such nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341)." ], + "synonyms" : [ { + "pred" : "hasBroadSynonym", + "val" : "regulation of DNA fragmentation", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasBroadSynonym", + "val" : "regulation of chromatinolysis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "hjd" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-11-15T18:28:32Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1902511", + "lbl" : "negative regulation of apoptotic DNA fragmentation", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation.", + "xrefs" : [ "GOC:TermGenie", "GOC:hjd", "PMID:15572351" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "down regulation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : 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"pred" : "hasExactSynonym", + "val" : "down-regulation of apoptotic DNA fragmentation", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of apoptotic DNA fragmentation", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ 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catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of apoptotic DNA fragmentation", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of DNA catabolic process during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of DNA catabolism during apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of DNA fragmentation involved in apoptotic nuclear change", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of apoptotic DNA fragmentation", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of endonucleolytic DNA catabolic process involved in apoptosis", + "xrefs" : [ "GOC:TermGenie" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "hjd" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2013-11-15T18:28:50Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1902513", "lbl" : "regulation of organelle transport along microtubule", @@ -122038,6 +122397,233 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1903624", + "lbl" : "regulation of DNA catabolic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of DNA catabolic process.", + "xrefs" : [ "GOC:TermGenie", "GO_REF:0000058", "PMID:2001740" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA breakdown", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA catabolism", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA degradation", + "xrefs" : [ "GOC:TermGenie" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "sl" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2014-11-19T22:36:35Z" + }, { + "pred" : 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: "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1903697", "lbl" : "negative regulation of microvillus assembly", @@ -126016,6 +126602,7 @@ "val" : "Any process that modulates the frequency, rate or extent of an iron transmembrane transporter activity.", "xrefs" : [ "GOC:BHF", "GOC:TermGenie", "GOC:kom", "GO_REF:0000059", "PMID:15514116" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "regulation of iron cation channel activity", @@ -126048,6 +126635,7 @@ "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of an iron transmembrane transporter activity.", "xrefs" : [ "GOC:BHF", "GOC:TermGenie", "GOC:kom", "GO_REF:0000059", "PMID:15514116" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "down regulation of iron cation channel activity", @@ 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"2015-11-09T11:43:19Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1904817", "lbl" : "serous membrane development", @@ -132961,6 +133301,100 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1905153", + "lbl" : "regulation of membrane invagination", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of membrane invagination.", + "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000058", "PMID:26589353" ] + }, + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "bf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2016-04-18T15:43:54Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1905154", + "lbl" : "negative regulation of membrane invagination", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination.", + "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000058", "PMID:26589353" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "down regulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "down-regulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "downregulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "inhibition of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "bf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2016-04-18T15:44:04Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_1905155", + "lbl" : "positive regulation of membrane invagination", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that activates or increases the frequency, rate or extent of membrane invagination.", + "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000058" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "up regulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "up-regulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasExactSynonym", + "val" : "upregulation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + }, { + "pred" : "hasNarrowSynonym", + "val" : "activation of membrane invagination", + "xrefs" : [ "GOC:TermGenie" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "bf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2016-04-18T15:44:12Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_1905165", "lbl" : "regulation of lysosomal protein catabolic process", @@ -133612,131 +134046,61 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_1905214", - "lbl" : "regulation of RNA binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of RNA binding.", - "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000059" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2016-06-06T10:20:56Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1905215", - "lbl" : "negative regulation of RNA binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding.", - "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000059" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "down regulation of RNA binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "down-regulation of RNA binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "downregulation of RNA binding", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasNarrowSynonym", - "val" : "inhibition of RNA binding", - "xrefs" : [ "GOC:TermGenie" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2016-06-06T10:21:04Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1905216", - "lbl" : "positive regulation of RNA binding", + "id" : "http://purl.obolibrary.org/obo/GO_1905223", + "lbl" : "epicardium morphogenesis", "type" : "CLASS", "meta" : { "definition" : { - "val" : "Any process that activates or increases the frequency, rate or extent of RNA binding.", - "xrefs" : [ "GOC:PARL", "GOC:TermGenie", "GOC:bf", "GO_REF:0000059", "PMID:25116364" ] + "val" : "The developmental process by which an epicardium is generated and organized.", + "xrefs" : [ "GOC:BHF", "GOC:TermGenie", "GOC:rl", "GO_REF:0000083", "PMID:18718461" ] }, "synonyms" : [ { "pred" : "hasExactSynonym", - "val" : "up regulation of RNA binding", + "val" : "heart epicardium morphogenesis", "xrefs" : [ "GOC:TermGenie" ] }, { "pred" : "hasExactSynonym", - "val" : "up-regulation of RNA binding", + "val" : "visceral serous pericardium of heart morphogenesis", "xrefs" : [ "GOC:TermGenie" ] }, { "pred" : "hasExactSynonym", - "val" : "upregulation of RNA binding", + "val" : "visceral serous pericardium proper morphogenesis", "xrefs" : [ "GOC:TermGenie" ] }, { - "pred" : "hasNarrowSynonym", - "val" : "activation of RNA binding", + "pred" : "hasRelatedSynonym", + "val" : "pericardium visceral mesothelium morphogenesis", "xrefs" : [ "GOC:TermGenie" ] } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "bf" + "val" : "rl" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2016-06-06T10:21:12Z" + "val" : "2016-06-07T10:02:32Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/GO_1905223", - "lbl" : "epicardium morphogenesis", + "id" : "http://purl.obolibrary.org/obo/GO_1905232", + "lbl" : "cellular response to L-glutamate", "type" : "CLASS", "meta" : { "definition" : { - "val" : "The developmental process by which an epicardium is generated and organized.", - "xrefs" : [ "GOC:BHF", "GOC:TermGenie", "GOC:rl", "GO_REF:0000083", "PMID:18718461" ] + "val" : "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus.", + "xrefs" : [ "GOC:TermGenie", "GO_REF:0000071", "PMID:25962137" ] }, "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "heart epicardium morphogenesis", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "visceral serous pericardium of heart morphogenesis", - "xrefs" : [ "GOC:TermGenie" ] - }, { - "pred" : "hasExactSynonym", - "val" : "visceral serous pericardium proper morphogenesis", - "xrefs" : [ "GOC:TermGenie" ] - }, { "pred" : "hasRelatedSynonym", - "val" : "pericardium visceral mesothelium morphogenesis", - "xrefs" : [ "GOC:TermGenie" ] + "val" : "cellular response to L-glutamate(1-)" } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "rl" + "val" : "sl" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2016-06-07T10:02:32Z" + "val" : "2016-06-07T17:30:08Z" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "biological_process" @@ -140366,26 +140730,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1990188", - "lbl" : "euchromatin binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin.", - "xrefs" : [ "GOC:vw", "PMID:22431512" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "tb" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2013-09-11T19:18:38Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1990234", "lbl" : "transferase complex", @@ -140406,26 +140750,6 @@ "val" : "cellular_component" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_1990239", - "lbl" : "steroid hormone binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to a steroid hormone.", - "xrefs" : [ "GOC:ln" ] - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "pr" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2013-11-15T09:26:18Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_1990266", "lbl" : "neutrophil migration", @@ -141162,88 +141486,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_2000112", - "lbl" : "regulation of cellular macromolecule biosynthetic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process.", - "xrefs" : [ "GOC:obol" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "regulation of cellular biopolymer biosynthetic process", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "regulation of cellular macromolecule anabolism", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "regulation of cellular macromolecule biosynthesis", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "regulation of cellular macromolecule formation", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "regulation of cellular macromolecule synthesis", - "xrefs" : [ "GOC:obol" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "tb" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-09-15T08:55:45Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_2000113", - "lbl" : "negative regulation of cellular macromolecule biosynthetic process", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process.", - "xrefs" : [ "GOC:obol" ] - }, - "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "negative regulation of cellular biopolymer biosynthetic process", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "negative regulation of cellular macromolecule anabolism", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "negative regulation of cellular macromolecule biosynthesis", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "negative regulation of cellular macromolecule formation", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasExactSynonym", - "val" : "negative regulation of cellular macromolecule synthesis", - "xrefs" : [ "GOC:obol" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "tb" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2010-09-15T08:55:48Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "biological_process" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_2000114", "lbl" : "regulation of establishment of cell polarity", @@ -142161,6 +142403,80 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_2000278", + "lbl" : "regulation of DNA biosynthetic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that modulates the frequency, rate or extent of DNA biosynthetic process.", + "xrefs" : [ "GOC:obol" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA anabolism", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA biosynthesis", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA formation", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "regulation of DNA synthesis", + "xrefs" : [ "GOC:obol" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "yaf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2010-12-08T04:48:15Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_2000279", + "lbl" : "negative regulation of DNA biosynthetic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process.", + "xrefs" : [ "GOC:obol" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA anabolism", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA biosynthesis", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA formation", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "negative regulation of DNA synthesis", + "xrefs" : [ "GOC:obol" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "yaf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2010-12-08T04:48:20Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_2000282", "lbl" : "regulation of cellular amino acid biosynthetic process", @@ -143320,6 +143636,43 @@ "val" : "biological_process" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/GO_2000573", + "lbl" : "positive regulation of DNA biosynthetic process", + "type" : "CLASS", + "meta" : { + "definition" : { + "val" : "Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process.", + "xrefs" : [ "GOC:obol" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "positive regulation of DNA anabolism", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "positive regulation of DNA biosynthesis", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "positive regulation of DNA formation", + "xrefs" : [ "GOC:obol" ] + }, { + "pred" : "hasExactSynonym", + "val" : "positive regulation of DNA synthesis", + "xrefs" : [ "GOC:obol" ] + } ], + "basicPropertyValues" : [ { + "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", + "val" : "yaf" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", + "val" : "2011-04-04T10:01:20Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "biological_process" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/GO_2000647", "lbl" : "negative regulation of stem cell proliferation", @@ -143369,6 +143722,7 @@ "val" : "Any process that modulates the frequency, rate or extent of sodium ion transmembrane transporter activity.", "xrefs" : [ "GOC:obol" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "regulation of sodium transporter activity", @@ -143394,6 +143748,7 @@ "val" : "Any process that stops, prevents or reduces the frequency, rate or extent of sodium ion transmembrane transporter activity.", "xrefs" : [ "GOC:obol" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "negative regulation of sodium transporter activity", @@ -143419,6 +143774,7 @@ "val" : "Any process that activates or increases the frequency, rate or extent of sodium ion transmembrane transporter activity.", "xrefs" : [ "GOC:obol" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/go#term_scheduled_for_obsoletion" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "positive regulation of sodium transporter activity", @@ -144602,35 +144958,6 @@ "val" : "biological_process" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/GO_2001069", - "lbl" : "glycogen binding", - "type" : "CLASS", - "meta" : { - "definition" : { - "val" : "Binding to glycogen.", - "xrefs" : [ "GOC:mengo_curators" ] - }, - "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "animal starch binding", - "xrefs" : [ "GOC:obol" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "liver starch binding", - "xrefs" : [ "GOC:obol" ] - } ], - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "jl" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", - "val" : "2011-09-14T12:01:06Z" - }, { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "molecular_function" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/GO_2001141", "lbl" : "regulation of RNA biosynthetic process", @@ -202995,7 +203322,7 @@ "val" : "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "has boundary" @@ -203023,7 +203350,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.org/spar/cito/citesAsAuthority", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" @@ -203042,7 +203369,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.org/spar/cito/citesAsAuthority", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" @@ -203063,7 +203390,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -203281,6 +203608,9 @@ "val" : "RO:0002082" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "David Osumi-Sutherland" }, { @@ -203340,6 +203670,9 @@ "val" : "RO:0002090" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" + }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "David Osumi-Sutherland" }, { @@ -203372,7 +203705,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", "val" : " some (\n and some ?Y)" @@ -203394,22 +203727,56 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : " some (\n and some (\n and some (\n and some ?Y)))" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" + }, { + "pred" : "http://purl.org/spar/cito/citesAsAuthority", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002103", + "lbl" : "synapsed by", + "type" : "PROPERTY", + "meta" : { + "definition" : { + "val" : "Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. " + }, + "xrefs" : [ { + "val" : "RO:0002103" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", - "val" : " some (\n and some (\n and some (\n and some ?Y)))" + "val" : " some ( that part_of some ( that has_part some ( that some Y?)))" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" }, { "pred" : "http://purl.org/spar/cito/citesAsAuthority", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "uberon" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", + "val" : "synapsed_by" } ] } }, { @@ -203428,13 +203795,13 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Alexander Diehl" + "val" : "https://orcid.org/0000-0001-9990-8331" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Lindsay Cowell" + "val" : "https://orcid.org/0000-0003-1617-8244" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/19243617" @@ -203459,10 +203826,10 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "synapsed in" @@ -203502,6 +203869,35 @@ "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002120", + "lbl" : "synapsed to", + "type" : "PROPERTY", + "meta" : { + "definition" : { + "val" : " Relation between a neuron and an anatomical structure (including cells) that it chemically synapses to.\n " + }, + "comments" : [ "N1 synapsed_to some N2 \nExpands to:\nN1 SubclassOf ( \n has_part some (\n ‘pre-synaptic membrane ; GO:0042734’ that part_of some ( \n\t‘synapse ; GO:0045202’ that has_part some (\n\t ‘post-synaptic membrane ; GO:0045211’ that part_of some N2))))" ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", + "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-7073-9172" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", + "val" : " some ( that part_of some ( that some ( that some Y?)))" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0001900", + "val" : "http://purl.obolibrary.org/obo/RO_0001901" + }, { + "pred" : "http://purl.org/spar/cito/citesAsAuthority", + "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22402613" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002130", "lbl" : "has synaptic terminal in", @@ -203515,7 +203911,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "has synapse in" @@ -203578,7 +203974,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", "val" : " some ( that ( some ( that some Y?)))" @@ -203612,7 +204008,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "connected to" @@ -203655,7 +204051,7 @@ "val" : "The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g.\n\n 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/17921072" @@ -203691,10 +204087,10 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0001-9227-417X" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Jennifer Deegan" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/17921072" @@ -203729,7 +204125,7 @@ "val" : "There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. " }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22293552" @@ -203939,16 +204335,16 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0001-9114-8737" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melissa Haendel" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Terry Meehan" + "val" : "https://orcid.org/0000-0003-1980-3228" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -203971,13 +204367,13 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Terry Meehan" + "val" : "https://orcid.org/0000-0003-1980-3228" } ] } }, { @@ -203989,6 +204385,10 @@ "val" : "Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y." }, "comments" : [ "TODO - add child relations from DOS" ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "has developmental precursor" + } ], "xrefs" : [ { "val" : "RO:0002207" } ], @@ -203997,13 +204397,10 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" - }, { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "has developmental precursor" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "FBbt" @@ -204049,13 +204446,13 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0001-7476-6306" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Hill" + "val" : "https://orcid.org/0000-0002-3837-8864" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Tanya Berardini" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -204093,7 +204490,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -204125,7 +204522,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -204163,7 +204560,7 @@ "val" : "osteoclast SubClassOf 'capable of' some 'bone resorption'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "has function realized in" @@ -204200,7 +204597,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "has function in" @@ -204234,7 +204631,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" @@ -204278,7 +204675,7 @@ "val" : "This relation acts as a join point with BSPO" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" @@ -204310,7 +204707,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0001900", "val" : "http://purl.obolibrary.org/obo/RO_0001901" @@ -204334,7 +204731,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "https://en.wikipedia.org/wiki/Allen%27s_interval_algebra" @@ -204361,6 +204758,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Chris Mungall" @@ -204393,6 +204793,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Chris Mungall" @@ -204426,7 +204829,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -204451,7 +204854,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "EHDAA2" @@ -204481,6 +204884,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Chris Mungall" @@ -204507,6 +204913,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000114", "val" : "http://purl.obolibrary.org/obo/IAO_0000125" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", "val" : "Chris Mungall" @@ -204541,7 +204950,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "starts with process that occurs in" @@ -204570,7 +204979,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "ends with process that occurs in" @@ -204599,7 +205008,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "consumes" @@ -204628,7 +205037,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "produces" @@ -204659,7 +205068,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -204682,7 +205091,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -204701,13 +205110,13 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0001-9114-8737" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "David Osumi-Sutherland" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melissa Haendel" + "val" : "https://orcid.org/0000-0002-7073-9172" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "induced by" @@ -204744,7 +205153,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -204764,7 +205173,7 @@ "val" : "false" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "In general you should not use this relation to make assertions - use one of the more specific relations below this one" @@ -204827,7 +205236,7 @@ "val" : "This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "replaces" @@ -204852,7 +205261,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -204868,7 +205277,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -204890,7 +205299,7 @@ "val" : "This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -204922,7 +205331,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.geneontology.org/GO.doc.development.shtml" @@ -204954,7 +205363,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "GOC:mtg_berkeley_2013" @@ -204989,7 +205398,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "GOC:mtg_berkeley_2013" @@ -205024,7 +205433,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "GOC:mtg_berkeley_2013" @@ -205054,7 +205463,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "pred" : "http://purl.org/dc/terms/creator", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205080,7 +205489,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002411" }, { "pred" : "http://purl.org/dc/terms/creator", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205102,7 +205511,7 @@ "val" : "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "inheres in part of" @@ -205134,7 +205543,7 @@ "val" : "an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "GOC:mtg_berkeley_2013" @@ -205156,7 +205565,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution." @@ -205176,7 +205585,7 @@ "val" : "Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving ecological interactions" @@ -205196,7 +205605,7 @@ "val" : "An experimental relation currently used to connect a feature possessed by an organism (e.g. anatomical structure, biological process, phenotype or quality) to a habitat or environment in which that feature is well suited, adapted or provides a reproductive advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "adapted for" @@ -205218,7 +205627,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" @@ -205237,7 +205646,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" @@ -205257,7 +205666,7 @@ "val" : "a particular instances of akt-2 enables some instance of protein kinase activity" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "catalyzes" @@ -205291,7 +205700,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "This is a grouping relation that collects relations used for the purpose of connecting structure and function" @@ -205313,7 +205722,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "false" @@ -205329,7 +205738,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "actively involved in" @@ -205357,7 +205766,7 @@ "val" : "every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -205383,7 +205792,7 @@ "subsets" : [ "http://purl.obolibrary.org/obo/valid_for_gocam" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -205400,7 +205809,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", "val" : "regulated by (processual)" @@ -205426,7 +205835,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205449,7 +205858,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205468,7 +205877,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is a grouping relation." @@ -205488,7 +205897,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205511,7 +205920,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205533,7 +205942,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205556,7 +205965,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205578,7 +205987,7 @@ "val" : "'pollen tube growth' results_in growth_of some 'pollen tube'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205600,7 +206009,7 @@ "val" : "'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739)" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205673,7 +206082,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -205696,7 +206105,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -205715,7 +206124,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -205732,7 +206141,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000589", "val" : "attached to (anatomical structure to anatomical structure)" @@ -205757,7 +206166,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "Wikipedia:Insertion_(anatomy)" @@ -205785,7 +206194,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "Wikipedia:Insertion_(anatomy)" @@ -205813,7 +206222,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships" @@ -205854,7 +206263,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "drains into" @@ -205900,7 +206309,7 @@ "val" : "A lump of clay and a statue" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "This relation is added for formal completeness. It is unlikely to be used in many practical scenarios" @@ -205923,7 +206332,7 @@ "val" : "In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -205951,7 +206360,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -205970,7 +206379,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -205992,7 +206401,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206011,7 +206420,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206033,7 +206442,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206052,7 +206461,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -206074,7 +206483,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000428" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -206093,7 +206502,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "indirectly activates" @@ -206112,7 +206521,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "indirectly inhibits" @@ -206135,7 +206544,7 @@ "val" : "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." @@ -206155,7 +206564,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -206177,7 +206586,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002575", "val" : "http://purl.obolibrary.org/obo/RO_0002411" @@ -206209,7 +206618,7 @@ "val" : "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "influences (processual)" @@ -206235,7 +206644,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -206257,7 +206666,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206270,7 +206679,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0004049", "val" : "http://purl.obolibrary.org/obo/RO_0002428" @@ -206286,7 +206695,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0004050", "val" : "http://purl.obolibrary.org/obo/RO_0002428" @@ -206305,7 +206714,7 @@ "val" : "OWL does not allow defining object properties via a Union" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "involved in or reguates" @@ -206330,7 +206739,7 @@ "val" : "A protein that enables activity in a cytosol." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "executes activity in" @@ -206349,7 +206758,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206379,7 +206788,7 @@ "val" : "Considering relabeling as 'pairwise interacts with'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." @@ -206401,7 +206810,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "binds" @@ -206426,7 +206835,7 @@ "val" : "Axiomatization to GO to be added later" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." @@ -206446,10 +206855,10 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Vasundra Touré" + "val" : "https://orcid.org/0000-0003-4639-4431" } ] } }, { @@ -206466,10 +206875,10 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Vasundra Touré" + "val" : "https://orcid.org/0000-0003-4639-4431" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "directly inhibits" @@ -206489,10 +206898,10 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Vasundra Touré" + "val" : "https://orcid.org/0000-0003-4639-4431" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "directly activates" @@ -206505,7 +206914,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." @@ -206528,7 +206937,7 @@ "val" : "'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/22293552" @@ -206554,7 +206963,7 @@ "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206564,7 +206973,33 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002485", + "lbl" : "receives input from", + "type" : "PROPERTY", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "See notes for inverse relation" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + } ] + } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002486", + "lbl" : "sends output to", + "type" : "PROPERTY", + "meta" : { + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", + "val" : "This is an exploratory relation. The label is taken from the FMA. It needs aligned with the neuron-specific relations such as has postsynaptic terminal in." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206574,7 +207009,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage." @@ -206593,7 +207028,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206615,7 +207050,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206635,7 +207070,7 @@ "comments" : [ "The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription." ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206656,7 +207091,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206683,7 +207118,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206706,7 +207141,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206728,7 +207163,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206750,7 +207185,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002575", "val" : "http://purl.obolibrary.org/obo/RO_0002494" @@ -206776,7 +207211,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206799,7 +207234,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -206831,7 +207266,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -206847,7 +207282,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", "val" : "http://purl.obolibrary.org/obo/BFO_0000169" @@ -206866,7 +207301,7 @@ "val" : "This relation is provided in order to support the use of relational qualities such as 'concentration of'; for example, the concentration of C in V is a quality that inheres in V, but pertains to C." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.ncbi.nlm.nih.gov/pubmed/20064205" @@ -206882,7 +207317,7 @@ "val" : "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -206907,7 +207342,7 @@ "val" : "Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000118", "val" : "has supporting framework" @@ -206929,7 +207364,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -206945,7 +207380,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.w3.org/2000/01/rdf-schema#seeAlso", "val" : "http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29" @@ -206961,7 +207396,7 @@ "meta" : { "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -206978,7 +207413,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232" }, { @@ -206999,10 +207434,10 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Vasundra Touré" + "val" : "https://orcid.org/0000-0003-4639-4431" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -207021,7 +207456,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes." @@ -207040,7 +207475,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "Wikipedia:Antagonist_(muscle)" @@ -207066,7 +207501,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -207075,6 +207510,35 @@ "val" : "has_branching_part" } ] } + }, { + "id" : "http://purl.obolibrary.org/obo/RO_0002570", + "lbl" : "conduit for", + "type" : "PROPERTY", + "meta" : { + "definition" : { + "val" : "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." + }, + "subsets" : [ "http://purl.obolibrary.org/obo/ro/subsets#ro-eco" ], + "xrefs" : [ { + "val" : "RO:0002570" + } ], + "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", + "val" : "https://orcid.org/0000-0002-6601-2165" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", + "val" : "UBERON:cjm" + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", + "val" : "This relation holds between a thing with a 'conduit' (e.g. a bone foramen) and a 'conduee' (for example, a nerve) such that at the time the relationship holds, the conduee has two ends sticking out either end of the conduit. It should therefore note be used for objects that move through the conduit but whose spatial extent does not span the passage. For example, it would not be used for a mountain that contains a long tunnel through which trains pass. Nor would we use it for a digestive tract and objects such as food that pass through." + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "uberon" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#shorthand", + "val" : "conduit_for" + } ] + } }, { "id" : "http://purl.obolibrary.org/obo/RO_0002571", "lbl" : "lumen of", @@ -207089,7 +207553,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "GOC:cjm" @@ -207115,7 +207579,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -207138,7 +207602,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -207160,7 +207624,7 @@ "val" : "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://www.jbiomedsem.com/content/4/1/43" @@ -207180,7 +207644,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -207229,7 +207693,7 @@ "val" : "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" } ] } }, { @@ -207306,7 +207770,7 @@ "val" : "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Chris Mungall" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000119", "val" : "http://purl.obolibrary.org/obo/ro/docs/causal-relations" @@ -207499,7 +207963,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melissa Haendel" + "val" : "https://orcid.org/0000-0001-9114-8737" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -207528,7 +207992,7 @@ "val" : "http://purl.obolibrary.org/obo/IAO_0000125" }, { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Melissa Haendel" + "val" : "https://orcid.org/0000-0001-9114-8737" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "external" @@ -207554,7 +208018,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-12-13T11:26:17Z" @@ -207581,7 +208045,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-12-13T11:26:32Z" @@ -207608,7 +208072,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-12-13T11:26:56Z" @@ -207630,7 +208094,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-01-25T23:20:13Z" @@ -207647,7 +208111,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002264" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-01-26T23:49:30Z" @@ -207667,7 +208131,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002264" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-01-26T23:49:51Z" @@ -207687,7 +208151,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002263" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-01-26T23:53:14Z" @@ -207710,7 +208174,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002263" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-01-26T23:53:22Z" @@ -207729,7 +208193,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002418" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-03-13T23:55:05Z" @@ -207745,7 +208209,7 @@ "val" : "http://purl.obolibrary.org/obo/RO_0002418" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-03-13T23:55:19Z" @@ -207761,7 +208225,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000117", - "val" : "Vasundra Touré" + "val" : "https://orcid.org/0000-0003-4639-4431" } ] } }, { @@ -208064,7 +208528,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#created_by", - "val" : "cjm" + "val" : "https://orcid.org/0000-0002-6601-2165" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#creation_date", "val" : "2018-09-26T01:08:58Z" @@ -208341,8 +208805,6 @@ "val" : "TAO:0000142" }, { "val" : "UMLS:C0206417" - }, { - "val" : "UMLS:C0206417" }, { "val" : "UMLS:C1305921" }, { @@ -208444,8 +208906,6 @@ "val" : "TAO:0001575" }, { "val" : "UMLS:C0030510" - }, { - "val" : "UMLS:C0030510" }, { "val" : "UMLS:C1305770" }, { @@ -208576,8 +209036,6 @@ "val" : "TAO:0001576" }, { "val" : "UMLS:C0039044" - }, { - "val" : "UMLS:C0039044" }, { "val" : "UMLS:C1269646" }, { @@ -208983,8 +209441,6 @@ "val" : "TAO:0000107" }, { "val" : "UMLS:C0015392" - }, { - "val" : "UMLS:C0015392" }, { "val" : "UMLS:C1280202" }, { @@ -209470,8 +209926,6 @@ "val" : "TGMA:0000002" }, { "val" : "UMLS:C0018670" - }, { - "val" : "UMLS:C0018670" }, { "val" : "VHOG:0001644" }, { @@ -211918,15 +212372,11 @@ }, { "pred" : "hasRelatedSynonym", "val" : "anus" - }, { - "pred" : "hasRelatedSynonym", - "val" : "canalis analis", - "xrefs" : [ "BTO:0001978" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "canalis analis", - "xrefs" : [ "Wikipedia:Anal_canal" ] + "xrefs" : [ "BTO:0001978", "Wikipedia:Anal_canal" ] }, { "pred" : "hasRelatedSynonym", "val" : "cloaca" @@ -212214,14 +212664,10 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#major_organ", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { - "pred" : "hasExactSynonym", - "val" : "regio oralis", - "xrefs" : [ "BTO:0004698" ] - }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasExactSynonym", "val" : "regio oralis", - "xrefs" : [ "FMA:49184", "FMA:TA" ] + "xrefs" : [ "BTO:0004698", "FMA:49184", "FMA:TA" ] }, { "pred" : "hasNarrowSynonym", "val" : "adult mouth" @@ -213439,15 +213885,11 @@ "pred" : "hasRelatedSynonym", "val" : "region of mucosa", "xrefs" : [ "FMA:85358" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "tunica mucosa", - "xrefs" : [ "BTO:0000886" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "tunica mucosa", - "xrefs" : [ "Wikipedia:Mucous_membrane" ] + "xrefs" : [ "BTO:0000886", "Wikipedia:Mucous_membrane" ] } ], "xrefs" : [ { "val" : "AEO:0000199" @@ -213574,11 +214016,7 @@ }, { "pred" : "hasExactSynonym", "val" : "mucous membrane of pharynx", - "xrefs" : [ "FMA:55031" ] - }, { - "pred" : "hasExactSynonym", - "val" : "mucous membrane of pharynx", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "FMA:55031", "OBOL:automatic" ] }, { "pred" : "hasExactSynonym", "val" : "organ mucosa of pharynx", @@ -214070,11 +214508,7 @@ }, { "pred" : "hasExactSynonym", "val" : "mucous membrane of trachea", - "xrefs" : [ "FMA:7471" ] - }, { - "pred" : "hasExactSynonym", - "val" : "mucous membrane of trachea", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "FMA:7471", "OBOL:automatic" ] }, { "pred" : "hasExactSynonym", "val" : "mucous membrane of windpipe", @@ -214154,7 +214588,7 @@ "val" : "The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified].", "xrefs" : [ "VSAO:0000033" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "muscle system" @@ -214217,6 +214651,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002161", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_6040" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Anatomical system that consists of the muscles of the body.[VSAO]" @@ -214311,11 +214748,7 @@ }, { "pred" : "hasExactSynonym", "val" : "colon epithelium", - "xrefs" : [ "FMA:17302" ] - }, { - "pred" : "hasExactSynonym", - "val" : "colon epithelium", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "FMA:17302", "OBOL:automatic" ] }, { "pred" : "hasExactSynonym", "val" : "epithelial tissue of colon", @@ -214495,11 +214928,7 @@ }, { "pred" : "hasExactSynonym", "val" : "mucous membrane of bronchus", - "xrefs" : [ "FMA:62652" ] - }, { - "pred" : "hasExactSynonym", - "val" : "mucous membrane of bronchus", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "FMA:62652", "OBOL:automatic" ] }, { "pred" : "hasExactSynonym", "val" : "organ mucosa of bronchi", @@ -215525,43 +215954,16 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Anatomical group that has its parts adjacent to one another.", - "xrefs" : [ "http://orcid.org/0000-0001-9114-8737" ] + "val" : "Anatomical group whose component anatomical structures lie in close proximity to each other.", + "xrefs" : [ "FBbt:00007277" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#common_anatomy", "http://purl.obolibrary.org/obo/uberon/core#upper_level" ], "xrefs" : [ { - "val" : "AAO:0010009" - }, { - "val" : "AEO:0000041" - }, { - "val" : "BILA:0000041" - }, { - "val" : "CARO:0000041" - }, { - "val" : "EHDAA2:0003041" - }, { "val" : "FBbt:00007277" - }, { - "val" : "FMA:49443" - }, { - "val" : "HAO:0000041" - }, { - "val" : "TADS:0000605" - }, { - "val" : "TAO:0001478" - }, { - "val" : "TGMA:0001842" }, { "val" : "VHOG:0001737" - }, { - "val" : "XAO:0003160" - }, { - "val" : "ZFA:0001478" } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", - "val" : "Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3]" - }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002175", "val" : "http://purl.obolibrary.org/obo/NCBITaxon_33090" }, { @@ -217473,8 +217875,6 @@ "val" : "TAO:0000008" }, { "val" : "UMLS:C0006104" - }, { - "val" : "UMLS:C0006104" }, { "val" : "UMLS:C1269537" }, { @@ -217606,8 +218006,6 @@ "val" : "SCTID:362880003" }, { "val" : "UMLS:C0007776" - }, { - "val" : "UMLS:C0007776" }, { "val" : "VHOG:0000722" }, { @@ -217834,10 +218232,10 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Transparent part of camera-type eye that helps to refract light to be focused on the retina.", + "val" : "A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina.", "xrefs" : [ "Wikipedia:Lens_(anatomy)", "http://orcid.org/0000-0002-6601-2165" ] }, - "comments" : [ "The lens is avascular and nourished by diffusion from the aqueous and vitreous" ], + "comments" : [ "The lens is avascular and nourished by diffusion from the aqueous and vitreous humors." ], "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", @@ -217858,7 +218256,7 @@ }, { "pred" : "hasRelatedSynonym", "val" : "crystalline lens", - "xrefs" : [ "BTO:0000723" ] + "xrefs" : [ "BTO:0000723", "PMID:36055924" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#PLURAL", "pred" : "hasRelatedSynonym", @@ -218002,8 +218400,6 @@ "val" : "TAO:0000152" }, { "val" : "UMLS:C0035298" - }, { - "val" : "UMLS:C0035298" }, { "val" : "UMLS:C1278894" }, { @@ -218288,7 +218684,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO].", + "val" : "Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO].", "xrefs" : [ "GO_REF:0000034", "VSAO:0000101", "Wikipedia:Joint", "http://dx.plos.org/10.1371/journal.pone.0051070" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#organ_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], @@ -218433,8 +218829,6 @@ "val" : "SCTID:279103004" }, { "val" : "UMLS:C0032639" - }, { - "val" : "UMLS:C0032639" }, { "val" : "UMLS:C1280999" }, { @@ -219870,8 +220264,6 @@ "val" : "TAO:0000012" }, { "val" : "UMLS:C0927232" - }, { - "val" : "UMLS:C0927232" }, { "val" : "VHOG:0000293" }, { @@ -221293,15 +221685,11 @@ }, { "pred" : "hasRelatedSynonym", "val" : "postcava" - }, { - "pred" : "hasRelatedSynonym", - "val" : "vena cava inferior", - "xrefs" : [ "BTO:0002682" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "vena cava inferior", - "xrefs" : [ "Wikipedia:Inferior_vena_cava" ] + "xrefs" : [ "BTO:0002682", "Wikipedia:Inferior_vena_cava" ] } ], "xrefs" : [ { "val" : "AAO:0011083" @@ -223007,15 +223395,11 @@ }, { "pred" : "hasExactSynonym", "val" : "stomach body" - }, { - "pred" : "hasRelatedSynonym", - "val" : "corpus gastricum", - "xrefs" : [ "BTO:0000505" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "corpus gastricum", - "xrefs" : [ "Wikipedia:Body_of_stomach" ] + "xrefs" : [ "BTO:0000505", "Wikipedia:Body_of_stomach" ] }, { "pred" : "hasRelatedSynonym", "val" : "corpus ventriculare", @@ -223085,15 +223469,11 @@ "pred" : "hasRelatedSynonym", "val" : "antrum pylori", "xrefs" : [ "BTO:0001732" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "antrum pyloricum", - "xrefs" : [ "BTO:0001732" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "antrum pyloricum", - "xrefs" : [ "Wikipedia:Pyloric_antrum" ] + "xrefs" : [ "BTO:0001732", "Wikipedia:Pyloric_antrum" ] }, { "pred" : "hasRelatedSynonym", "val" : "gastric antrum", @@ -223762,14 +224142,10 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "cavitas peritonealis", - "xrefs" : [ "BTO:0001782" ] - }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "cavitas peritonealis", - "xrefs" : [ "Wikipedia:Peritoneal_cavity" ] + "xrefs" : [ "BTO:0001782", "Wikipedia:Peritoneal_cavity" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -224069,15 +224445,11 @@ "pred" : "hasRelatedSynonym", "val" : "Magenschleimhaut", "xrefs" : [ "BTO:0001308" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "tunica mucosa gastris", - "xrefs" : [ "BTO:0001308" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "tunica mucosa gastris", - "xrefs" : [ "Wikipedia:Gastric_mucosa" ] + "xrefs" : [ "BTO:0001308", "Wikipedia:Gastric_mucosa" ] } ], "xrefs" : [ { "val" : "BTO:0001308" @@ -227392,10 +227764,6 @@ "pred" : "hasExactSynonym", "val" : "pars descendens aortae", "xrefs" : [ "FMA:3784" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "aorta descendens", - "xrefs" : [ "Wikipedia:Descending_aorta" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -227524,24 +227892,16 @@ "pred" : "hasRelatedSynonym", "val" : "abdominal part of aorta", "xrefs" : [ "BTO:0002976" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "aorta abdominalis", - "xrefs" : [ "BTO:0002976" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "aorta abdominalis", - "xrefs" : [ "Wikipedia:Abdominal_aorta" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "pars abdominalis aortae", - "xrefs" : [ "BTO:0002976" ] + "xrefs" : [ "BTO:0002976", "Wikipedia:Abdominal_aorta" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "pars abdominalis aortae", - "xrefs" : [ "Wikipedia:Abdominal_aorta" ] + "xrefs" : [ "BTO:0002976", "Wikipedia:Abdominal_aorta" ] } ], "xrefs" : [ { "val" : "BTO:0002976" @@ -228208,7 +228568,7 @@ "val" : "The muscles associated with the larynx.", "xrefs" : [ "MP:0002263" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "laryngeal muscle" @@ -228249,6 +228609,9 @@ "val" : "Wikipedia:Muscles_of_larynx" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -228262,7 +228625,7 @@ "val" : "Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue.", "xrefs" : [ "VHOG:0000847", "Wikipedia:Genioglossus_muscle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "genioglossus" @@ -228297,6 +228660,9 @@ "val" : "Wikipedia:Genioglossus_muscle" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. [TFD][VHOG]" }, { @@ -228331,7 +228697,7 @@ "val" : "A muscle that attaches to the hyopid bone and to the tongue and is innervated by cranial nerve XII.", "xrefs" : [ "FEED:rd" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "hyoglossus", @@ -228360,6 +228726,9 @@ "val" : "Wikipedia:Hyoglossus_muscle" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Makes up part of the tongue in frogs and salamanders.[AAO]" }, { @@ -228385,6 +228754,7 @@ "val" : "A muscle organ that attaches the tongue to some other structure.", "xrefs" : [ "Wikipedia:Muscles_of_tongue", "https://github.com/obophenotype/uberon/issues/331" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "extrinsic lingual muscle" @@ -228408,6 +228778,9 @@ "val" : "VHOG:0000825" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000003", "val" : "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" }, { @@ -228430,6 +228803,7 @@ "val" : "The intrinsic tongue muscles are an integral part of the tongue and completely contained within the tongue that are innervated by Cranial Nerve XII.", "xrefs" : [ "http://www.feedexp.org/wiki/Mammalian_Muscle_Ontology_Workshop" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "intrinsic lingual muscle" @@ -228453,6 +228827,9 @@ "val" : "VHOG:0000748" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "The intrinsic tongue muscles are an integral part of the tongue that are innervated by Cranial Nerve XII.[FEED]" }, { @@ -228539,15 +228916,11 @@ }, { "pred" : "hasRelatedSynonym", "val" : "precava" - }, { - "pred" : "hasRelatedSynonym", - "val" : "vena cava superior", - "xrefs" : [ "BTO:0002683" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "vena cava superior", - "xrefs" : [ "Wikipedia:Superior_vena_cava" ] + "xrefs" : [ "BTO:0002683", "Wikipedia:Superior_vena_cava" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -228710,7 +229083,7 @@ "val" : "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted].", "xrefs" : [ "Wikipedia:Ciliary_muscle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "musculus ciliarus", @@ -228747,6 +229120,9 @@ "val" : "Wikipedia:Ciliary_muscle" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" }, { @@ -228918,7 +229294,7 @@ "val" : "A smooth muscle of the eye, running radially in the iris that functions as a dilator. [WP,unvetted].", "xrefs" : [ "Wikipedia:Iris_dilator_muscle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "dilator muscle of pupil" @@ -229009,6 +229385,9 @@ "val" : "Wikipedia:Iris_dilator_muscle" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000009", "val" : "It is innervated by the sympathetic system, which acts by releasing noradrenaline, which acts on alpha1-receptors. Thus, when presented with a threatening stimuli that activates the fight-or-flight response, this innervation dilates the iris, thus temporarily letting more light reach the retina" }, { @@ -229622,10 +230001,6 @@ "pred" : "hasRelatedSynonym", "val" : "coeliac trunk", "xrefs" : [ "Wikipedia:Celiac_artery" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "truncus coeliacus", - "xrefs" : [ "Wikipedia:Celiac_artery" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -229773,8 +230148,6 @@ "val" : "TAO:0000697" }, { "val" : "UMLS:C0040996" - }, { - "val" : "UMLS:C0040996" }, { "val" : "VHOG:0000704" }, { @@ -229899,8 +230272,6 @@ "val" : "TAO:0000668" }, { "val" : "UMLS:C0017679" - }, { - "val" : "UMLS:C0017679" }, { "val" : "UMLS:C1305752" }, { @@ -230030,8 +230401,6 @@ "val" : "SCTID:362471008" }, { "val" : "UMLS:C0020614" - }, { - "val" : "UMLS:C0020614" }, { "val" : "VHOG:0000693" }, { @@ -230358,15 +230727,11 @@ "pred" : "hasRelatedSynonym", "val" : "ganglion semilunare", "xrefs" : [ "Wikipedia:Trigeminal_ganglion" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "ganglion trigeminale", - "xrefs" : [ "BTO:0001231" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "ganglion trigeminale", - "xrefs" : [ "Wikipedia:Trigeminal_ganglion" ] + "xrefs" : [ "BTO:0001231", "Wikipedia:Trigeminal_ganglion" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#PLURAL", "pred" : "hasRelatedSynonym", @@ -230448,7 +230813,7 @@ "val" : "The bone at the lower, posterior part of the skull.", "xrefs" : [ "ISBN:0-683-40008-8", "MP:0005269" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "occipital complex", @@ -230482,6 +230847,9 @@ "val" : "Wikipedia:Occipital_bone" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000008", "val" : "formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII" }, { @@ -230504,7 +230872,7 @@ "val" : "The large, irregular bone located at the base and side of the skull; consists of three parts at birth: squamous, tympanic, and petrous.", "xrefs" : [ "ISBN:0-683-40008-8", "MP:0005272" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -230535,6 +230903,9 @@ "val" : "Wikipedia:Temporal_bone" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000008", "val" : "In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone + styloid process" }, { @@ -230563,7 +230934,7 @@ "val" : "A horseshoe shaped bone situated in the anterior midline of the neck between the chin and the thyroid cartilage. The hyoid bone provides attachment to the muscles of the floor of the mouth and the tongue above, the larynx below, and the epiglottis and pharynx behind. [WP,modified].", "xrefs" : [ "Wikipedia:Hyoid_bone" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "hyoid", @@ -230580,10 +230951,6 @@ "pred" : "hasRelatedSynonym", "val" : "lingual bone", "xrefs" : [ "Wikipedia:Hyoid_bone" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "os hyoideum", - "xrefs" : [ "Wikipedia:Hyoid_bone" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -230614,6 +230981,9 @@ "val" : "Wikipedia:Hyoid_bone" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO]" }, { @@ -230695,7 +231065,7 @@ "val" : "Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof.", "xrefs" : [ "PMID:11523816", "TAO:MAH", "Wikipedia:Neuroranium", "ZFA:0001580" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "brain box" @@ -230734,6 +231104,9 @@ "val" : "ZFA:0001580" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO]" }, { @@ -231145,8 +231518,6 @@ "val" : "SCTID:368728006" }, { "val" : "UMLS:C0226964" - }, { - "val" : "UMLS:C0226964" }, { "val" : "UMLS:C1289183" } ], @@ -231169,11 +231540,6 @@ "pred" : "hasExactSynonym", "val" : "tastebud", "xrefs" : [ "Wikipedia:Taste_bud" ] - }, { - "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", - "pred" : "hasRelatedSynonym", - "val" : "caliculus gustatorius", - "xrefs" : [ "Wikipedia:Taste_bud" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#PLURAL", "pred" : "hasRelatedSynonym", @@ -231220,8 +231586,6 @@ "val" : "TAO:0001074" }, { "val" : "UMLS:C0039337" - }, { - "val" : "UMLS:C0039337" }, { "val" : "VHOG:0000130" }, { @@ -231518,15 +231882,11 @@ "pred" : "hasRelatedSynonym", "val" : "nerve X", "xrefs" : [ "NeuroNames:702" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "nervus vagus", - "xrefs" : [ "BTO:0003472" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "nervus vagus", - "xrefs" : [ "Wikipedia:Vagus_nerve" ] + "xrefs" : [ "BTO:0003472", "Wikipedia:Vagus_nerve" ] }, { "pred" : "hasRelatedSynonym", "val" : "pneuomgastric nerve", @@ -231573,8 +231933,6 @@ "val" : "TAO:0000453" }, { "val" : "UMLS:C0042276" - }, { - "val" : "UMLS:C0042276" }, { "val" : "UMLS:C1305910" }, { @@ -231972,7 +232330,7 @@ "xrefs" : [ "Wikipedia:Sclera", "ZFIN:ZDB-PUB-050701-15" ] }, "comments" : [ "Disease notes: implicated in rheumatoid arthritis." ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "scleral capsule" @@ -232009,6 +232367,9 @@ "val" : "ZFA:0005563" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." }, { @@ -232125,10 +232486,6 @@ "pred" : "hasRelatedSynonym", "val" : "ciliary bodies", "xrefs" : [ "VHOG:0000102" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "corpus ciliare", - "xrefs" : [ "Wikipedia:Ciliary_body" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -232641,8 +232998,6 @@ "val" : "TAO:0000641" }, { "val" : "UMLS:C0010268" - }, { - "val" : "UMLS:C0010268" }, { "val" : "UMLS:C1269897" }, { @@ -233139,15 +233494,11 @@ "pred" : "hasExactSynonym", "val" : "sympathetic part of autonomic division of nervous system ganglion", "xrefs" : [ "OBOL:automatic" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "ganglion sympathicum", - "xrefs" : [ "BTO:0001333" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "ganglion sympathicum", - "xrefs" : [ "Wikipedia:Sympathetic_ganglion" ] + "xrefs" : [ "BTO:0001333", "Wikipedia:Sympathetic_ganglion" ] } ], "xrefs" : [ { "val" : "AAO:0010773" @@ -233193,14 +233544,10 @@ }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "ganglion parasympathicum", - "xrefs" : [ "BTO:0001256" ] - }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "ganglion parasympathicum", - "xrefs" : [ "Wikipedia:Parasympathetic_ganglion" ] + "xrefs" : [ "BTO:0001256", "Wikipedia:Parasympathetic_ganglion" ] } ], "xrefs" : [ { "val" : "BTO:0001256" @@ -233537,15 +233884,11 @@ "pred" : "hasRelatedSynonym", "val" : "diaphragmatic nerve", "xrefs" : [ "BTO:0001063" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "nervus phrenicus", - "xrefs" : [ "BTO:0001063" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "nervus phrenicus", - "xrefs" : [ "Wikipedia:Phrenic_nerve" ] + "xrefs" : [ "BTO:0001063", "Wikipedia:Phrenic_nerve" ] }, { "pred" : "hasRelatedSynonym", "val" : "phrenic", @@ -233653,8 +233996,6 @@ "val" : "TAO:0000109" }, { "val" : "UMLS:C0085140" - }, { - "val" : "UMLS:C0085140" }, { "val" : "VHOG:0000383" }, { @@ -233763,8 +234104,6 @@ "val" : "TAO:0000128" }, { "val" : "UMLS:C0025462" - }, { - "val" : "UMLS:C0025462" }, { "val" : "VHOG:0000069" }, { @@ -234135,8 +234474,6 @@ "val" : "TAO:0000101" }, { "val" : "UMLS:C0012144" - }, { - "val" : "UMLS:C0012144" }, { "val" : "VHOG:0000318" }, { @@ -234342,8 +234679,6 @@ "val" : "TAO:0000545" }, { "val" : "UMLS:C0025148" - }, { - "val" : "UMLS:C0025148" }, { "val" : "UMLS:C1269575" }, { @@ -234580,6 +234915,7 @@ "val" : "An endothelium that is part of an arteriole [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "arteriole endothelium" @@ -234596,6 +234932,9 @@ "val" : "UMLS:C1179024" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -234955,7 +235294,7 @@ "val" : "The hyaline cartilaginous structures that support the bronchi, present as irregular rings in the larger bronchi (and not as regular as in the trachea), and as small plates and islands in the smaller bronchi; as the branching continues through the bronchial tree, the amount of hyaline cartilage in the walls decreases until it is absent in the smallest bronchioles[MP].", "xrefs" : [ "MP:0010988" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "bronchi cartilage", @@ -235001,6 +235340,9 @@ "val" : "UMLS:C0225604" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -235788,7 +236130,7 @@ "val" : "A vessel through which blood circulates in the body.", "xrefs" : [ "BTO:0001102", "Wikipedia:Blood_vessel" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "vascular element", @@ -235859,6 +236201,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", "val" : "consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" @@ -236667,8 +237012,6 @@ "val" : "SCTID:362469008" }, { "val" : "UMLS:C0000905" - }, { - "val" : "UMLS:C0000905" }, { "val" : "UMLS:C1305777" }, { @@ -236967,8 +237310,6 @@ "val" : "TAO:0000029" }, { "val" : "UMLS:C0035507" - }, { - "val" : "UMLS:C0035507" }, { "val" : "UMLS:C1522180" }, { @@ -237855,15 +238196,11 @@ "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "vertebrate dermis" - }, { - "pred" : "hasRelatedSynonym", - "val" : "corium", - "xrefs" : [ "BTO:0000294" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "corium", - "xrefs" : [ "Wikipedia:Dermis" ] + "xrefs" : [ "BTO:0000294", "Wikipedia:Dermis" ] }, { "pred" : "hasRelatedSynonym", "val" : "cutis", @@ -238713,7 +239050,7 @@ "val" : "Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm].", "xrefs" : [ "UBERONREF:0000003", "Wikipedia:Appendicular_skeleton", "https://orcid.org/0000-0002-6601-2165" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "appendicular skeleton" @@ -238761,6 +239098,9 @@ "val" : "XAO:0003166" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO]" }, { @@ -239578,15 +239918,11 @@ }, { "pred" : "hasRelatedSynonym", "val" : "anterior intestine" - }, { - "pred" : "hasRelatedSynonym", - "val" : "intestinum tenue", - "xrefs" : [ "BTO:0000651" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "intestinum tenue", - "xrefs" : [ "Wikipedia:Small_intestine" ] + "xrefs" : [ "BTO:0000651", "Wikipedia:Small_intestine" ] }, { "pred" : "hasRelatedSynonym", "val" : "mid intestine" @@ -240263,8 +240599,6 @@ "val" : "TAO:0000539" }, { "val" : "UMLS:C0023951" - }, { - "val" : "UMLS:C0023951" }, { "val" : "Wikipedia:Locus_ceruleus" }, { @@ -241617,7 +241951,7 @@ "val" : "Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO).", "xrefs" : [ "BIRNLEX:1709" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#cumbo", "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#major_organ", "http://purl.obolibrary.org/obo/uberon/core#organ_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#cumbo", "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#major_organ", "http://purl.obolibrary.org/obo/uberon/core#organ_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#ABBREVIATION", "pred" : "hasRelatedSynonym", @@ -241640,15 +241974,11 @@ "pred" : "hasRelatedSynonym", "val" : "fissura cerebrocerebellaris", "xrefs" : [ "NeuroNames:22" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "medulla spinalis", - "xrefs" : [ "BTO:0001279" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "medulla spinalis", - "xrefs" : [ "Wikipedia:Spinal_cord" ] + "xrefs" : [ "BTO:0001279", "Wikipedia:Spinal_cord" ] }, { "pred" : "hasRelatedSynonym", "val" : "spinal cord structure", @@ -241706,8 +242036,6 @@ "val" : "TAO:0000075" }, { "val" : "UMLS:C0037925" - }, { - "val" : "UMLS:C0037925" }, { "val" : "VHOG:0000601" }, { @@ -241725,6 +242053,9 @@ }, { "pred" : "http://purl.obolibrary.org/obo/RO_0002171", "val" : "http://purl.obolibrary.org/obo/UBERON_0000955" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" @@ -241941,11 +242272,7 @@ }, { "pred" : "hasExactSynonym", "val" : "brainstem reticular formation", - "xrefs" : [ "MA:0003185" ] - }, { - "pred" : "hasExactSynonym", - "val" : "brainstem reticular formation", - "xrefs" : [ "NeuroNames:1223" ] + "xrefs" : [ "MA:0003185", "NeuroNames:1223" ] }, { "pred" : "hasExactSynonym", "val" : "reticular formation (classical)", @@ -242172,8 +242499,6 @@ "val" : "TAO:0002156" }, { "val" : "UMLS:C0006121" - }, { - "val" : "UMLS:C0006121" }, { "val" : "VHOG:0001457" }, { @@ -242669,6 +242994,7 @@ "val" : "Any muscle organ that is part of a back [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "back muscle" @@ -242689,6 +243015,9 @@ "val" : "MA:0000496" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -243486,11 +243815,7 @@ }, { "pred" : "hasRelatedSynonym", "val" : "heart muscle", - "xrefs" : [ "FMA:9462" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "heart muscle", - "xrefs" : [ "ZFA:0001319" ] + "xrefs" : [ "FMA:9462", "ZFA:0001319" ] } ], "xrefs" : [ { "val" : "AAO:0010410" @@ -244500,7 +244825,7 @@ "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] }, "comments" : [ "defined generically so could in theory encompass FBbt:00003260 'skeletal muscle of head', or the muscle of a starfish Aristotle's lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cephalic muscle", @@ -244563,6 +244888,9 @@ "val" : "ZFA:0001652" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasAlternativeId", "val" : "UBERON:0003899" }, { @@ -244579,7 +244907,7 @@ "val" : "Any muscle that is part of the cervical (neck) region.", "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "muscle organ of neck", @@ -244616,6 +244944,9 @@ "val" : "UMLS:C0027532" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -244629,7 +244960,7 @@ "val" : "Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis.", "xrefs" : [ "Wikipedia:Abdominal_muscle" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "abdomen muscle" @@ -244674,6 +245005,9 @@ "val" : "Wikipedia:Abdominal_muscle" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -245501,8 +245835,6 @@ "val" : "TAO:0001574" }, { "val" : "UMLS:C0004388" - }, { - "val" : "UMLS:C0004388" }, { "val" : "UMLS:C1305381" }, { @@ -246073,8 +246405,6 @@ "val" : "SCTID:361691006" }, { "val" : "UMLS:C0152295" - }, { - "val" : "UMLS:C0152295" }, { "val" : "UMLS:C1284115" }, { @@ -246201,11 +246531,7 @@ }, { "pred" : "hasRelatedSynonym", "val" : "maternal placenta", - "xrefs" : [ "EMAPA:35269" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "maternal placenta", - "xrefs" : [ "GOC:dph" ] + "xrefs" : [ "EMAPA:35269", "GOC:dph" ] }, { "pred" : "hasRelatedSynonym", "val" : "placenta maternal decidual layer" @@ -246852,14 +247178,10 @@ "comments" : [ "May be composed of smooth muscle and elastic tissue" ], "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { - "pred" : "hasRelatedSynonym", - "val" : "tunica media vasorum", - "xrefs" : [ "BTO:0002011" ] - }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "tunica media vasorum", - "xrefs" : [ "Wikipedia:Tunica_media" ] + "xrefs" : [ "BTO:0002011", "Wikipedia:Tunica_media" ] } ], "xrefs" : [ { "val" : "BTO:0002011" @@ -246971,15 +247293,11 @@ "pred" : "hasRelatedSynonym", "val" : "Druese", "xrefs" : [ "BTO:0000522" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "glandula", - "xrefs" : [ "BTO:0000522" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "glandula", - "xrefs" : [ "Wikipedia:Gland" ] + "xrefs" : [ "BTO:0000522", "Wikipedia:Gland" ] } ], "xrefs" : [ { "val" : "AAO:0000212" @@ -247434,6 +247752,7 @@ "val" : "A spinal cord segment that adjacent_to a cervical region.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cervical segment of spinal cord", @@ -247469,14 +247788,15 @@ "val" : "SCTID:180960003" }, { "val" : "UMLS:C0581619" - }, { - "val" : "UMLS:C0581619" }, { "val" : "UMLS:C1278837" }, { "val" : "neuronames:1654" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -247625,8 +247945,6 @@ "val" : "SCTID:47361005" }, { "val" : "UMLS:C0228802" - }, { - "val" : "UMLS:C0228802" }, { "val" : "VHOG:0001358" }, { @@ -247887,7 +248205,7 @@ "val" : "The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted].", "xrefs" : [ "Wikipedia:Thoracic_spinal_cord" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasExactSynonym", @@ -247927,14 +248245,15 @@ "val" : "SCTID:278750009" }, { "val" : "UMLS:C0581620" - }, { - "val" : "UMLS:C0581620" }, { "val" : "Wikipedia:Thoracic_spinal_cord" }, { "val" : "neuronames:1718" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" }, { @@ -251307,11 +251626,7 @@ "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "lower jaw", - "xrefs" : [ "MA:0001906" ] - }, { - "pred" : "hasBroadSynonym", - "val" : "lower jaw", - "xrefs" : [ "ZFA:0001273" ] + "xrefs" : [ "MA:0001906", "ZFA:0001273" ] }, { "pred" : "hasBroadSynonym", "val" : "mandible", @@ -252105,6 +252420,7 @@ "val" : "Mesenchyme that is part of a developing ovary [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "female reproductive system gonad mesenchyme", @@ -252150,6 +252466,9 @@ "val" : "VHOG:0001441" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -252523,6 +252842,7 @@ "val" : "A serous membrane that is part of a duodenum [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "doudenal serosa", @@ -252558,6 +252878,9 @@ "val" : "SCTID:1236009" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000010", "val" : "1st part serosa, 2nd - 4th adventitia" }, { @@ -253101,11 +253424,7 @@ }, { "pred" : "hasExactSynonym", "val" : "midgut epithelium", - "xrefs" : [ "BTO:0005053" ] - }, { - "pred" : "hasExactSynonym", - "val" : "midgut epithelium", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "BTO:0005053", "OBOL:automatic" ] } ], "xrefs" : [ { "val" : "BTO:0005053" @@ -253331,10 +253650,6 @@ "pred" : "hasNarrowSynonym", "val" : "hindlimb bud ectoderm", "xrefs" : [ "EMAPA:16780" ] - }, { - "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#SENSU", - "pred" : "hasNarrowSynonym", - "val" : "hindlimb bud ectoderm" }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#SENSU", "pred" : "hasNarrowSynonym", @@ -253383,10 +253698,6 @@ "pred" : "hasNarrowSynonym", "val" : "forelimb bud ectoderm", "xrefs" : [ "EMAPA:16407" ] - }, { - "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#SENSU", - "pred" : "hasNarrowSynonym", - "val" : "forelimb bud ectoderm" }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#SENSU", "pred" : "hasNarrowSynonym", @@ -253469,6 +253780,7 @@ "val" : "A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cardiac muscle of cardiac right atrium", @@ -253525,6 +253837,9 @@ "val" : "VHOG:0001227" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -253683,6 +253998,7 @@ "val" : "A portion of cardiac muscle tissue that is part of an interventricular septum [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cardiac muscle of interventricular septum" @@ -253717,6 +254033,9 @@ "val" : "VHOG:0000999" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -257791,6 +258110,7 @@ "val" : "An elastic tissue that is part of a trachea [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cartilaginous trachea elastic connective tissue", @@ -257868,6 +258188,9 @@ "val" : "MA:0001861" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -258021,15 +258344,11 @@ "pred" : "hasExactSynonym", "val" : "space of abdominal compartment", "xrefs" : [ "FMA:12266" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "cavitas abdominis", - "xrefs" : [ "GAID:17" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", "val" : "cavitas abdominis", - "xrefs" : [ "Wikipedia:Abdominal_cavity" ] + "xrefs" : [ "GAID:17", "Wikipedia:Abdominal_cavity" ] } ], "xrefs" : [ { "val" : "EFO:0000213" @@ -258408,19 +258727,11 @@ }, { "pred" : "hasRelatedSynonym", "val" : "innominate vein", - "xrefs" : [ "GAID:529" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "innominate vein", - "xrefs" : [ "Wikipedia:Brachiocephalic_vein" ] + "xrefs" : [ "GAID:529", "Wikipedia:Brachiocephalic_vein" ] }, { "pred" : "hasRelatedSynonym", "val" : "innominate veins", "xrefs" : [ "Wikipedia:Brachiocephalic_vein" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "vena brachiocephalica", - "xrefs" : [ "Wikipedia:Brachiocephalic_vein" ] }, { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -260216,7 +260527,7 @@ "val" : "The part of the retina that contains neurons and photoreceptor cells[GO].", "xrefs" : [ "GO:0003407" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "neural layer of retina", @@ -260275,6 +260586,9 @@ "val" : "ZFA:0000046" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000003", "val" : "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" }, { @@ -260744,6 +261058,8 @@ "val" : "EHDAA2:0004567" }, { "val" : "EMAPA:32928" + }, { + "val" : "FBbt:00047143" }, { "val" : "MA:0003201" }, { @@ -264290,7 +264606,7 @@ "val" : "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.", "xrefs" : [ "VSAO:0000026" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "set of all bones" @@ -264332,6 +264648,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/RO_0002171", "val" : "http://purl.obolibrary.org/obo/UBERON_0000383" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]" @@ -265931,14 +266250,10 @@ "val" : "A portion of smooth muscle tissue that is part of a bronchiole [Automatically generated definition].", "xrefs" : [ "OBOL:automatic" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "FMA:261045" } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002175", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -266726,11 +267041,7 @@ }, { "pred" : "hasExactSynonym", "val" : "raphe nuclei", - "xrefs" : [ "FMA:84017" ] - }, { - "pred" : "hasExactSynonym", - "val" : "raphe nuclei", - "xrefs" : [ "NLXANAT:20090205" ] + "xrefs" : [ "FMA:84017", "NLXANAT:20090205" ] }, { "pred" : "hasExactSynonym", "val" : "raphe nuclei set", @@ -267846,6 +268157,7 @@ "val" : "A bone that is part of a cranium.", "xrefs" : [ "UBERON:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cranium bone", @@ -267857,6 +268169,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "here cranium = skull - mandible" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" @@ -270039,7 +270354,7 @@ "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] }, "comments" : [ "for the vertebrate-specific structure, see UBERON:0000941 (cranial nerve II)" ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#grouping_class", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#grouping_class", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "synonyms" : [ { "pred" : "hasBroadSynonym", "val" : "optic nerve", @@ -270058,6 +270373,9 @@ "val" : "TADS:0000232" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -270068,7 +270386,7 @@ "type" : "CLASS", "meta" : { "definition" : { - "val" : "Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts.", + "val" : "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts.", "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#grouping_class" ], @@ -270513,6 +270831,10 @@ "pred" : "hasRelatedSynonym", "val" : "alimentary system subdivision", "xrefs" : [ "FMA:71131" ] + }, { + "pred" : "hasRelatedSynonym", + "val" : "gut section", + "xrefs" : [ "FBbt:00100315" ] }, { "pred" : "hasRelatedSynonym", "val" : "intestinal tract" @@ -270757,11 +271079,7 @@ }, { "pred" : "hasExactSynonym", "val" : "pylorus submucosa", - "xrefs" : [ "FMA:17462" ] - }, { - "pred" : "hasExactSynonym", - "val" : "pylorus submucosa", - "xrefs" : [ "OBOL:automatic" ] + "xrefs" : [ "FMA:17462", "OBOL:automatic" ] }, { "pred" : "hasExactSynonym", "val" : "stomach pyloric region submucosa", @@ -276095,11 +276413,7 @@ }, { "pred" : "hasExactSynonym", "val" : "peritoneal mesothelium", - "xrefs" : [ "BTO:0003156" ] - }, { - "pred" : "hasExactSynonym", - "val" : "peritoneal mesothelium", - "xrefs" : [ "EMAPA:16139" ] + "xrefs" : [ "BTO:0003156", "EMAPA:16139" ] }, { "pred" : "hasExactSynonym", "val" : "peritoneum mesothelium", @@ -277421,7 +277735,7 @@ "val" : "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified].", "xrefs" : [ "FMA:71221", "VSAO:0000056", "Wikipedia:Axial_skeleton", "https://github.com/obophenotype/uberon/issues/44", "https://github.com/obophenotype/uberon/wiki/The-axial-skeleton" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#uberon_slim" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#LATIN", "pred" : "hasRelatedSynonym", @@ -277450,6 +277764,9 @@ "val" : "XAO:0004011" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" }, { @@ -277510,11 +277827,7 @@ }, { "pred" : "hasExactSynonym", "val" : "infundibulum of right ventricle", - "xrefs" : [ "FMA:7216" ] - }, { - "pred" : "hasExactSynonym", - "val" : "infundibulum of right ventricle", - "xrefs" : [ "MP:0010428" ] + "xrefs" : [ "FMA:7216", "MP:0010428" ] }, { "pred" : "hasExactSynonym", "val" : "outflow tract of right ventricle", @@ -277586,11 +277899,7 @@ }, { "pred" : "hasExactSynonym", "val" : "aortic vestibule", - "xrefs" : [ "FMA:9473" ] - }, { - "pred" : "hasExactSynonym", - "val" : "aortic vestibule", - "xrefs" : [ "MP:0010429" ] + "xrefs" : [ "FMA:9473", "MP:0010429" ] }, { "pred" : "hasExactSynonym", "val" : "heart left ventricle outflow tract", @@ -279002,6 +279311,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000232", "val" : "currently this is an extremely generic class, encompassing both protostomes and deuterostomes." + }, { + "pred" : "http://purl.obolibrary.org/obo/IAO_0006012", + "val" : "2023-04-20" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000007", "val" : "branchial" @@ -279777,18 +280089,14 @@ "xrefs" : [ "MP:0013477" ] }, "comments" : [ "This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343" ], - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#efo_slim", "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "cornea limbus" }, { "pred" : "hasExactSynonym", "val" : "corneal limbus", - "xrefs" : [ "FMA:58342" ] - }, { - "pred" : "hasExactSynonym", - "val" : "corneal limbus", - "xrefs" : [ "GAID:896" ] + "xrefs" : [ "FMA:58342", "GAID:896" ] }, { "pred" : "hasExactSynonym", "val" : "corneal-scleral limbus", @@ -279834,6 +280142,9 @@ "val" : "ZFA:0005570" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" }, { @@ -279956,8 +280267,6 @@ "xrefs" : [ "FBbt:00004924" ] } ], "xrefs" : [ { - "val" : "FBbt:00004924" - }, { "val" : "TADS:0000421" }, { "val" : "WBbt:0006760" @@ -281839,7 +282148,6 @@ "val" : "The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis.", "xrefs" : [ "Wikipedia:Bone_marrow#Stroma" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "bone marrow stroma", @@ -281853,9 +282161,6 @@ "val" : "Wikipedia:Bone_marrow#Stroma" } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/RO_0002175", - "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" - }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -283441,6 +283746,7 @@ "val" : "An anatomical cavity that surrounded_by a synovial joint.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "articular cavity (synovial joint)", @@ -283466,6 +283772,9 @@ "val" : "FMA:11356" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -283927,7 +284236,7 @@ "val" : "Anatomical system that consists of all blood and lymph vessels.", "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "xrefs" : [ { "val" : "BTO:0001085" }, { @@ -283946,6 +284255,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", "val" : "consider merging with vasculature" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]." @@ -284153,7 +284465,7 @@ "val" : "A bone that is part of a pectoral girdle region.", "xrefs" : [ "OBOL:automatic" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "bone of pectoral girdle" @@ -284164,6 +284476,9 @@ "val" : "MA:0000292" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -284177,7 +284492,7 @@ "val" : "A bone element or fused bone that is part of pelvic girdle.", "xrefs" : [ "https://orcid.org/0000-0002-6601-2165" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim", "http://purl.obolibrary.org/obo/uberon/core#vertebrate_core" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "bone of pelvic girdle" @@ -284200,6 +284515,9 @@ "basicPropertyValues" : [ { "pred" : "http://purl.obolibrary.org/obo/IAO_0000116", "val" : "check sacrum, coccyx (MA does NOT include these)" + }, { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000008", "val" : "typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone" @@ -285563,6 +285881,7 @@ "val" : "Subdivision of endoskeleton derived from pharyngeal arches.", "xrefs" : [ "ISBN:0073040584", "Wikipedia:Facial_skeleton", "https://orcid.org/0000-0002-6601-2165" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "pharyngeal endoskeleton", @@ -285620,6 +285939,9 @@ "val" : "ZFA:0001216" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://purl.obolibrary.org/obo/UBPROP_0000001", "val" : "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" }, { @@ -287238,12 +287560,16 @@ "lbl" : "trachea non-cartilage connective tissue", "type" : "CLASS", "meta" : { + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "xrefs" : [ { "val" : "EMAPA:35878" }, { "val" : "MA:0001859" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -293518,11 +293844,7 @@ "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "cervical artery", - "xrefs" : [ "MA:0001936" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "cervical artery", - "xrefs" : [ "Wikipedia:Transverse_cervical_artery" ] + "xrefs" : [ "MA:0001936", "Wikipedia:Transverse_cervical_artery" ] }, { "pred" : "hasRelatedSynonym", "val" : "cervical transverse artery", @@ -295795,7 +296117,7 @@ "val" : "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum.", "xrefs" : [ "Wikipedia:Rib_cage", "https://orcid.org/0000-0002-6601-2165" ] }, - "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas", "http://purl.obolibrary.org/obo/uberon/core#pheno_slim" ], "synonyms" : [ { "pred" : "hasExactSynonym", "val" : "skeleton of thorax" @@ -295815,6 +296137,9 @@ "val" : "Wikipedia:Thoracic_skeleton" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -295894,6 +296219,7 @@ "val" : "A ventral horn of spinal cord that is part of a thoracic spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -295914,6 +296240,9 @@ "val" : "UMLS:C1288552" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -295927,6 +296256,7 @@ "val" : "A gray matter of spinal cord that is part of a cervical spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -295941,6 +296271,9 @@ "val" : "UMLS:C0228610" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -295954,6 +296287,7 @@ "val" : "A white matter of spinal cord that is part of a cervical spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -295968,6 +296302,9 @@ "val" : "UMLS:C0228616" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -295981,6 +296318,7 @@ "val" : "A ventral horn of spinal cord that is part of a cervical spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -296001,6 +296339,9 @@ "val" : "UMLS:C1278740" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -296014,6 +296355,7 @@ "val" : "A gray matter of spinal cord that is part of a thoracic spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -296028,6 +296370,9 @@ "val" : "UMLS:C0228627" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -296041,6 +296386,7 @@ "val" : "A white matter of spinal cord that is part of a thoracic spinal cord.", "xrefs" : [ "OBOL:automatic" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "synonymType" : "http://purl.obolibrary.org/obo/uberon/core#HUMAN_PREFERRED", "pred" : "hasExactSynonym", @@ -296057,6 +296403,9 @@ "val" : "UMLS:C1288557" } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -299364,6 +299713,7 @@ "val" : "Any of the cranial nerves, or their central nervous system analogs (the optic tract, the epiphyseal tract). These analogs are not true nerves, and are instead evaginated sensory afferents emanating from the brain.", "xrefs" : [ "ISBN:0471888893", "http://orcid.org/0000-0002-6601-2165" ] }, + "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#human_reference_atlas" ], "synonyms" : [ { "pred" : "hasRelatedSynonym", "val" : "cranial nerve fiber bundle", @@ -299382,6 +299732,9 @@ "xrefs" : [ "http://orcid.org/0000-0002-6601-2165" ] } ], "basicPropertyValues" : [ { + "pred" : "http://purl.obolibrary.org/obo/RO_0002175", + "val" : "http://purl.obolibrary.org/obo/NCBITaxon_9606" + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", "val" : "uberon" } ] @@ -300408,11 +300761,7 @@ }, { "pred" : "hasRelatedSynonym", "val" : "accessory visual structures", - "xrefs" : [ "FMA:76554" ] - }, { - "pred" : "hasRelatedSynonym", - "val" : "accessory visual structures", - "xrefs" : [ "Wikipedia:Accessory_visual_structures" ] + "xrefs" : [ "FMA:76554", "Wikipedia:Accessory_visual_structures" ] }, { "pred" : "hasRelatedSynonym", "val" : "accessory visual structures set", @@ -302011,7 +302360,7 @@ "meta" : { "definition" : { "val" : "Arteriole of villus of small intestine.", - "xrefs" : [ "http://orcid.org/0000-0003-4183-8865/" ] + "xrefs" : [ "http://orcid.org/0000-0003-4183-8865" ] }, "subsets" : [ "http://purl.obolibrary.org/obo/uberon/core#location_grouping" ], "synonyms" : [ { @@ -302081,7 +302430,7 @@ "meta" : { "definition" : { "val" : "An arteriole located in the colon.", - "xrefs" : [ "http://orcid.org/0000-0003-3440-1876", "http://orcid.org/0000-0003-4183-8865/" ] + "xrefs" : [ "http://orcid.org/0000-0003-3440-1876", "http://orcid.org/0000-0003-4183-8865" ] }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", @@ -302284,7 +302633,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-2825-0621" + "val" : "https://orcid.org/0000-0002-2825-0621" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-03-24T14:21:59Z" @@ -302382,7 +302731,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-1773-2692" + "val" : "https://orcid.org/0000-0002-1773-2692" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-04-04T11:06:09Z" @@ -302402,7 +302751,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-06-24T09:28:31Z" @@ -302422,7 +302771,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-06-24T09:30:54Z" @@ -302442,7 +302791,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-06-24T09:34:25Z" @@ -302462,7 +302811,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-06-24T11:25:24Z" @@ -302482,7 +302831,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-06-27T09:30:52Z" @@ -302502,7 +302851,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-08-29T14:17:12Z" @@ -302526,7 +302875,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-08-29T14:19:16Z" @@ -302546,7 +302895,7 @@ }, "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-08-30T06:55:06Z" @@ -302575,7 +302924,7 @@ } ], "basicPropertyValues" : [ { "pred" : "http://purl.org/dc/terms/contributor", - "val" : "http://orcid.org/0000-0002-0819-0473" + "val" : "https://orcid.org/0000-0002-0819-0473" }, { "pred" : "http://purl.org/dc/terms/date", "val" : "2022-10-21T08:55:11Z" @@ -302585,23 +302934,52 @@ } ] } }, { - "id" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "lbl" : "lacks_part", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UBERON_8600004", + "lbl" : "visceral muscle tissue", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A muscle tissue that is associated with soft internal organs (viscera).", + "xrefs" : [ "BTO:0002780", "CLAO:0001295" ] + }, + "comments" : [ "It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated." ], + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "visceral muscle" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", - "val" : "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-02-16T10:17:46Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "uberon" } ] } }, { - "id" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "lbl" : "lacks_plasma_membrane_part", - "type" : "PROPERTY", + "id" : "http://purl.obolibrary.org/obo/UBERON_8600006", + "lbl" : "visceral striated muscle tissue", + "type" : "CLASS", "meta" : { + "definition" : { + "val" : "A striated muscle tissue that is associated with soft internal organs (viscera).", + "xrefs" : [ "PMID:8720463", "https://pressbooks.pub/rbtallitsch/chapter/chapter-6-muscle-tissue/" ] + }, + "synonyms" : [ { + "pred" : "hasExactSynonym", + "val" : "striated visceral muscle tissue" + } ], "basicPropertyValues" : [ { - "pred" : "http://purl.obolibrary.org/obo/IAO_0000424", - "val" : "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" + "pred" : "http://purl.org/dc/terms/contributor", + "val" : "https://orcid.org/0000-0001-6677-8489" + }, { + "pred" : "http://purl.org/dc/terms/date", + "val" : "2023-02-16T10:34:43Z" + }, { + "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", + "val" : "uberon" } ] } }, { @@ -302982,19 +303360,6 @@ "val" : "uberon" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", - "lbl" : "conduit for", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "x is a conduit for y iff y passes through the lumen of x." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "uberon" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/uberon/core#distally_connected_to", "lbl" : "distally connected to", @@ -303119,19 +303484,6 @@ "val" : "uberon" } ] } - }, { - "id" : "http://purl.obolibrary.org/obo/uberon/core#synapsed_by", - "lbl" : "synapsed by", - "type" : "PROPERTY", - "meta" : { - "definition" : { - "val" : "Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it." - }, - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#hasOBONamespace", - "val" : "uberon" - } ] - } }, { "id" : "http://purl.obolibrary.org/obo/uberon/core#transitively_anteriorly_connected_to", "lbl" : "transitively anteriorly connected to", @@ -303566,6 +303918,30 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15841", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33839" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16733" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_15966", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_15986", "pred" : "is_a", @@ -303578,6 +303954,46 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_15986", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50319" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_18237" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24318" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_173085" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_25512" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_27027" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_50733" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_76971" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16015", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_16134", "pred" : "is_a", @@ -303702,6 +304118,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_166902", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33569" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_83925" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_60895" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16733", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_59871" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_167559", "pred" : "is_a", @@ -303766,6 +304194,26 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_16990", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_57977" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33696" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33793" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_50298" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75771" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_16991", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17087", "pred" : "is_a", @@ -303786,6 +304234,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_17234", "pred" : "http://purl.obolibrary.org/obo/RO_0000087", "obj" : "http://purl.obolibrary.org/obo/CHEBI_78675" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_173085", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_52206" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_17544", "pred" : "is_a", @@ -304046,6 +304498,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_24318", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_83813" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_24319", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_76823" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_24384", "pred" : "is_a", @@ -304734,6 +305190,54 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29793", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_15379" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_62031" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24319" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75772" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/RO_0000087", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_77746" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16015" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29985", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_acid_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_15966" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29986", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", "pred" : "is_a", @@ -304746,6 +305250,34 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_29987", "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_14321" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_59814" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29988", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29989" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29987" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29986" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_29989", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_enantiomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29988" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_30089", "pred" : "is_a", @@ -305370,6 +305902,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_33792", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33791" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_33793", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33791" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_33822", "pred" : "is_a", @@ -306218,6 +306754,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50297", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_50319" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50298", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_50297" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50299", "pred" : "is_a", @@ -306250,6 +306790,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_50514", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35554" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_50733", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_23888" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_50860", "pred" : "is_a", @@ -306454,6 +306998,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_59869", "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_15705" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_59871", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_35238" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_59871", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16733" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_59999", "pred" : "is_a", @@ -306490,6 +307042,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_60466", "pred" : "http://purl.obolibrary.org/obo/chebi#is_tautomer_of", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16670" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_60895", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33558" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_60895", + "pred" : "http://purl.obolibrary.org/obo/chebi#is_conjugate_base_of", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16733" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_61120", "pred" : "is_a", @@ -306670,6 +307230,14 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_73541", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_52845" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_75600", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75603" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_75603", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_23924" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_75763", "pred" : "is_a", @@ -306710,6 +307278,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_76807", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_76764" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_76823", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_75600" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_76924", "pred" : "is_a", @@ -306810,6 +307382,18 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_83813", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_35352" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_83820", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33709" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_83925", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_33704" + }, { + "sub" : "http://purl.obolibrary.org/obo/CHEBI_83925", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_83820" }, { "sub" : "http://purl.obolibrary.org/obo/CHEBI_84729", "pred" : "is_a", @@ -306822,6 +307406,10 @@ "sub" : "http://purl.obolibrary.org/obo/CHEBI_84735", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CHEBI_75763" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000000", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000000", "pred" : "http://purl.obolibrary.org/obo/RO_0002160", @@ -306940,6 +307528,10 @@ "val" : "true" } ] } + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000024", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000024", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", @@ -306948,6 +307540,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000024", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0000278" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000025", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000025", "pred" : "is_a", @@ -306998,6 +307594,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000030", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000055" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000030", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000030", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", @@ -307056,60 +307656,60 @@ "obj" : "http://purl.obolibrary.org/obo/CL_0011026" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/RO_0002202", - "obj" : "http://purl.obolibrary.org/obo/CL_0000566" - }, { - "sub" : 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"http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001020" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001083" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001289" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001839" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001889" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002978" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000037", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000037", + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0000566" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000037", + "pred" : "http://purl.obolibrary.org/obo/RO_0002215", + "obj" : "http://purl.obolibrary.org/obo/GO_0002244" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000038", "pred" : "is_a", @@ -307128,10 +307728,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000038", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000039", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000039", "pred" : "is_a", @@ 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"http://purl.obolibrary.org/obo/CL_0000079", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000357" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000080", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000080", "pred" : "is_a", @@ -307436,10 +308024,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000080", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000179" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000081", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000081", "pred" : "is_a", @@ -307586,32 +308170,32 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0030141" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001012" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001002" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001332" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001020" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001969" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001002" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001020" + "pred" : "http://purl.obolibrary.org/obo/RO_0002104", + "obj" : "http://purl.obolibrary.org/obo/PR_000001012" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001024" + "pred" : "http://purl.obolibrary.org/obo/RO_0002104", + "obj" : "http://purl.obolibrary.org/obo/PR_000001332" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000094", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001084" + "pred" : "http://purl.obolibrary.org/obo/RO_0002104", + "obj" : "http://purl.obolibrary.org/obo/PR_000001969" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000095", "pred" : "is_a", @@ -307824,10 +308408,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000147", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000325" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000148", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000148", "pred" : "is_a", @@ -307854,6 +308434,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000149", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000147" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000149", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000150", "pred" : "is_a", @@ -307870,10 +308454,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000150", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0006799" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000151", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000151", "pred" : "is_a", @@ -307886,6 +308466,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000152", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000151" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000152", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000152", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -307966,12 +308550,12 @@ "obj" : "http://purl.obolibrary.org/obo/CL_0000151" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000163", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0002368" + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000163", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0060986" + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000949" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000164", "pred" : "is_a", @@ -308012,20 +308596,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000168", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0030073" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000169", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000083" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000169", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000164", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#is_inferred", - "val" : "true" - } ] - } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000169", "pred" : "is_a", @@ -308056,10 +308626,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000170", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0070091" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000171", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000083" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000171", "pred" : "is_a", @@ -308084,10 +308650,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000172", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0070253" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000173", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000083" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000173", "pred" : "is_a", @@ -308107,15 +308669,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000174", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000163" + "obj" : "http://purl.obolibrary.org/obo/CL_0000151" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000174", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0035929" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000182", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000182", "pred" : "is_a", @@ -308148,10 +308706,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000183", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000003" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000187", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000187", "pred" : "is_a", @@ -308160,10 +308714,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000187", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000393" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000187", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000187", "pred" : "is_a", @@ -308172,10 +308722,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000187", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000056" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000188", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000188", "pred" : "is_a", @@ -308196,10 +308742,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000192", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000514" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000197", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000197", "pred" : "is_a", @@ -308312,10 +308854,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000218", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0002377" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000219", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000219", "pred" : "is_a", @@ -308324,10 +308862,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000219", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0048870" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000221", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000221", "pred" : "is_a", @@ -308336,10 +308870,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000221", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000924" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000222", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000222", "pred" : "is_a", @@ -308348,10 +308878,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000222", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000926" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000223", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000223", "pred" : "is_a", @@ -308412,20 +308938,20 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000232", - "pred" : "http://purl.obolibrary.org/obo/RO_0000053", - "obj" : "http://purl.obolibrary.org/obo/PATO_0002039" + "pred" : "http://purl.obolibrary.org/obo/CL_4030045", + "obj" : "http://purl.obolibrary.org/obo/GO_0005840" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000232", - "pred" : "http://purl.obolibrary.org/obo/RO_0002202", - "obj" : "http://purl.obolibrary.org/obo/CL_0000558" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001945" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000232", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "obj" : "http://purl.obolibrary.org/obo/GO_0005840" + "pred" : "http://purl.obolibrary.org/obo/RO_0000053", + "obj" : "http://purl.obolibrary.org/obo/PATO_0002039" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000232", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001945" + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0000558" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000234", "pred" : "is_a", @@ -308438,6 +308964,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000234", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000473" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000234", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000234", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", @@ -308585,10 +309115,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000311", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000325" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000312", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000312", "pred" : "is_a", @@ -308645,10 +309171,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000327", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000499" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000329", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000329", "pred" : "is_a", @@ -308692,11 +309214,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000347", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" + "obj" : "http://purl.obolibrary.org/obo/CL_0000293" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000347", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000293" + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000347", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -308708,11 +309230,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000348", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" + "obj" : "http://purl.obolibrary.org/obo/CL_0000293" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000348", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000293" + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000348", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -308721,14 +309243,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000348", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000008" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000349", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000349", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000349", "pred" : "is_a", @@ -308911,32 +309425,32 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0042613" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0001816" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0045580" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001002" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001003" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001020" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000451", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001289" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000451", + "pred" : "http://purl.obolibrary.org/obo/RO_0002215", + "obj" : "http://purl.obolibrary.org/obo/GO_0001816" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000451", + "pred" : "http://purl.obolibrary.org/obo/RO_0002215", + "obj" : "http://purl.obolibrary.org/obo/GO_0045580" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000457", "pred" : "is_a", @@ -309101,10 +309615,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000531", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000530" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000540", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000540", "pred" : "is_a", @@ -309141,6 +309651,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000842" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000542", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000542", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -309171,6 +309685,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002242" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000547", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", @@ -309185,56 +309703,56 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0005730" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/RO_0002104", - "obj" : "http://purl.obolibrary.org/obo/PR_000001945" - }, { - "sub" : 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"http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001020" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001083" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001289" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001839" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001889" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000547", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002978" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000547", + "pred" : "http://purl.obolibrary.org/obo/RO_0002104", + "obj" : "http://purl.obolibrary.org/obo/PR_000001945" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000547", + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0000038" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000548", "pred" : "is_a", @@ -309337,64 +309855,64 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/RO_0002202", - "obj" : "http://purl.obolibrary.org/obo/CL_0000050" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0007113" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/RO_0002215", - "obj" : "http://purl.obolibrary.org/obo/GO_0030219" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001002" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001012" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001020" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001083" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001289" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001839" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001889" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002978" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000553", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000553", + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0000050" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000553", + "pred" : "http://purl.obolibrary.org/obo/RO_0002215", + "obj" : "http://purl.obolibrary.org/obo/GO_0007113" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0000553", + "pred" : "http://purl.obolibrary.org/obo/RO_0002215", + "obj" : "http://purl.obolibrary.org/obo/GO_0030219" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000556", "pred" : "is_a", @@ -309405,10 +309923,6 @@ "val" : "true" } ] } - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0000556", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_1001610" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0000556", "pred" : "http://purl.obolibrary.org/obo/RO_0000053", @@ -309445,6 +309959,14 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0000557", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : 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"http://purl.obolibrary.org/obo/PR_000001869" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000002979" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002015", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002065" + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0002014" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002015", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002979" + "pred" : "http://purl.obolibrary.org/obo/RO_0015015", + "obj" : "http://purl.obolibrary.org/obo/PR_000002981" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", "pred" : "is_a", @@ -311401,28 +311935,28 @@ "obj" : "http://purl.obolibrary.org/obo/PR_000050567" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/RO_0002202", - "obj" : "http://purl.obolibrary.org/obo/CL_0002015" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001869" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/RO_0015015", - "obj" : "http://purl.obolibrary.org/obo/PR_000002981" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000002065" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/RO_0015016", - "obj" : "http://purl.obolibrary.org/obo/PR_000001945" + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000002979" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001869" + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0002015" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002065" + "pred" : "http://purl.obolibrary.org/obo/RO_0015015", + "obj" : "http://purl.obolibrary.org/obo/PR_000002981" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002017", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002979" + "pred" : "http://purl.obolibrary.org/obo/RO_0015016", + "obj" : "http://purl.obolibrary.org/obo/PR_000001945" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002019", "pred" : "is_a", @@ -311463,10 +311997,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002022", "pred" : "http://purl.obolibrary.org/obo/RO_0015015", "obj" : "http://purl.obolibrary.org/obo/PR_000002981" - }, { - "sub" : 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"http://purl.obolibrary.org/obo/CL_0002033", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0002034" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002033", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002001" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002034", "pred" : "is_a", @@ -311529,16 +312055,16 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002034", - "pred" : "http://purl.obolibrary.org/obo/RO_0015016", - "obj" : "http://purl.obolibrary.org/obo/PR_000001843" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002034", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001003" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002034", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000002001" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0002034", + "pred" : "http://purl.obolibrary.org/obo/RO_0015016", + "obj" : "http://purl.obolibrary.org/obo/PR_000001843" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002035", "pred" : "is_a", @@ -311549,6 +312075,14 @@ "val" : "true" } ] } + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0002035", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000001833" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0002035", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", + "obj" : "http://purl.obolibrary.org/obo/PR_000002001" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002035", "pred" : "http://purl.obolibrary.org/obo/RO_0002104", @@ -311561,14 +312095,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002035", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0002036" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002035", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000001833" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002035", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "obj" : "http://purl.obolibrary.org/obo/PR_000002001" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002036", "pred" : "is_a", @@ -311607,20 +312133,20 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002043", - "pred" : "http://purl.obolibrary.org/obo/RO_0002202", - "obj" : "http://purl.obolibrary.org/obo/CL_0001024" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002043", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001015" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002043", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001408" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002043", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001843" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0002043", + "pred" : "http://purl.obolibrary.org/obo/RO_0002202", + "obj" : "http://purl.obolibrary.org/obo/CL_0001024" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002064", "pred" : "is_a", @@ -311707,10 +312233,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002078", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", "obj" : "http://purl.obolibrary.org/obo/CL_0000222" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002079", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002079", "pred" : "is_a", @@ -311727,10 +312249,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002079", "pred" : "http://purl.obolibrary.org/obo/RO_0002215", "obj" : "http://purl.obolibrary.org/obo/GO_0015106" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002080", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002080", "pred" : "is_a", @@ -311759,12 +312277,8 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002087", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030045", "obj" : "http://purl.obolibrary.org/obo/GO_0030141" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002088", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002088", "pred" : "is_a", @@ -312189,10 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"http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001016" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002320", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002320", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002320", "pred" : "is_a", @@ -312291,6 +312785,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0002350", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002165" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0002351", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002351", "pred" : "is_a", @@ -312336,7 +312834,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002371", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000003" + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002372", "pred" : "is_a", @@ -312421,11 +312919,11 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002454", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002454", - "pred" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "pred" : "http://purl.obolibrary.org/obo/CL_4030046", "obj" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002465", @@ -312475,16 +312973,12 @@ } }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002485", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000966" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002494", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" + "obj" : "http://purl.obolibrary.org/obo/CL_0009004" }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0002494", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000548" + "sub" : "http://purl.obolibrary.org/obo/CL_0002485", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0000966" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0002494", "pred" : "is_a", @@ -313103,6 +313597,18 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0005012", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000067" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0005024", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000100" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0005024", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000108" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0005024", + "pred" : "http://purl.obolibrary.org/obo/RO_0002120", + "obj" : "http://purl.obolibrary.org/obo/CL_0008002" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0005026", "pred" : "is_a", @@ -313127,6 +313633,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0007009", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000055" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0007009", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0008000", "pred" : "is_a", @@ -313151,6 +313661,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0008007", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000187" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0008007", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_8600004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0008008", "pred" : "is_a", @@ 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{ "sub" : "http://purl.obolibrary.org/obo/CL_0009001", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0009001", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0002371" + "obj" : "http://purl.obolibrary.org/obo/CL_0009004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0009004", "pred" : "is_a", @@ -313490,11 +314012,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_0010007", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0010007", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000003" + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0010007", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -313661,10 +314179,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0011108", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000397" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_0011115", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0011115", "pred" : "is_a", @@ -313751,6 +314265,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_0019001", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000313" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_0019001", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_0019001", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -313815,6 +314333,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000042", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001890" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_1000222", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000164" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000222", "pred" : "is_a", @@ -313822,7 +314344,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000222", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0002178" + "obj" : "http://purl.obolibrary.org/obo/CL_0002659" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000223", "pred" : "is_a", @@ -313835,6 +314357,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000223", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_1000272" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_1000271", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000271", "pred" : "is_a", @@ -313847,6 +314373,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000272", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000151" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_1000272", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000272", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -314111,6 +314641,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000409", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002072" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_1000409", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0008009" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000409", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -314119,6 +314653,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000410", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0002072" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_1000410", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0008009" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000410", "pred" : "is_a", @@ -314313,10 +314851,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_1000482", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002094" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_1000488", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000040" }, { "sub" : "http://purl.obolibrary.org/obo/CL_1000488", "pred" : "is_a", @@ -314655,10 +315189,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_2000019", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000018" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_2000020", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_2000020", "pred" : "is_a", @@ -314670,11 +315200,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/CL_2000022", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_2000022", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/CL_0000003" + "obj" : "http://purl.obolibrary.org/obo/CL_0000548" }, { "sub" : "http://purl.obolibrary.org/obo/CL_2000022", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -315007,10 +315533,6 @@ "sub" : "http://purl.obolibrary.org/obo/CL_4023068", "pred" : "http://purl.obolibrary.org/obo/RO_0002100", "obj" : "http://purl.obolibrary.org/obo/UBERON_0010225" - }, { - "sub" : "http://purl.obolibrary.org/obo/CL_4023072", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/BFO_0000004" }, { "sub" : "http://purl.obolibrary.org/obo/CL_4023072", "pred" : "is_a", @@ -315031,6 +315553,10 @@ "sub" : "http://purl.obolibrary.org/obo/CL_4023079", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/CL_0000540" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4023079", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0004121" }, { "sub" : "http://purl.obolibrary.org/obo/CL_4023079", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", @@ -315147,10 +315673,6 @@ "sub" : 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"http://purl.obolibrary.org/obo/CL_4033020", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000152" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4033020", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000319" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4033020", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0005203" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4033022", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000152" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4033022", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/CL_0000319" + }, { + "sub" : "http://purl.obolibrary.org/obo/CL_4033022", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/UBERON_8410043" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0000003", "pred" : "is_a", @@ -315211,14 +315769,6 @@ "sub" : 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"http://purl.obolibrary.org/obo/GO_0030182" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0003357", + "pred" : "http://purl.obolibrary.org/obo/RO_0002315", + "obj" : "http://purl.obolibrary.org/obo/CL_0008025" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0003358", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0048666" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0003358", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_0003357" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0003358", + "pred" : "http://purl.obolibrary.org/obo/RO_0002296", + "obj" : "http://purl.obolibrary.org/obo/CL_0008025" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0003360", "pred" : "is_a", @@ -319399,6 +319953,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0003360", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002298" + }, { + "sub" : 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"http://purl.obolibrary.org/obo/GO_0009251" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0005980", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044247" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005980", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", @@ -320184,7 +320642,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005981", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043471" + "obj" : "http://purl.obolibrary.org/obo/GO_0043470" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0005981", "pred" : "is_a", @@ -320305,14 +320763,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0006027", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_18085" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0006073", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044042" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0006073", - "pred" : "is_a", - "obj" : 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"http://purl.obolibrary.org/obo/GO_0034655" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006308", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/GO_0004536" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006308", + "pred" : "http://purl.obolibrary.org/obo/RO_0004009", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16991" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006309", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006308" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006309", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_0030262" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006325", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0016043" + "obj" : "http://purl.obolibrary.org/obo/GO_0071824" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006325", "pred" : "http://purl.obolibrary.org/obo/RO_0002592", @@ 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"http://purl.obolibrary.org/obo/GO_0034645" + "obj" : "http://purl.obolibrary.org/obo/GO_0019538" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006412", "pred" : "is_a", @@ -320476,7 +320962,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006414", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0034645" + "obj" : "http://purl.obolibrary.org/obo/GO_0009059" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006414", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -320489,6 +320975,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0006415", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0006412" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006417", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0010556" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006417", "pred" : "is_a", @@ -320496,15 +320986,15 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006417", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0034248" + "obj" : "http://purl.obolibrary.org/obo/GO_0031326" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006417", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0051246" + "obj" : "http://purl.obolibrary.org/obo/GO_0034248" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006417", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_2000112" + "obj" : "http://purl.obolibrary.org/obo/GO_0051246" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006417", "pred" : "http://purl.obolibrary.org/obo/RO_0002211", @@ -320545,10 +321035,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0006516", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0030163" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0006516", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044265" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006516", "pred" : "is_a", @@ -320932,7 +321418,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006879", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0055072" + "obj" : "http://purl.obolibrary.org/obo/GO_0098771" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006879", + "pred" : "http://purl.obolibrary.org/obo/RO_0002332", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24875" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006883", "pred" : "is_a", @@ -321013,6 +321503,38 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0006896", "pred" : "http://purl.obolibrary.org/obo/RO_0002339", "obj" : "http://purl.obolibrary.org/obo/GO_0005773" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006897", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0016192" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006897", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0098657" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006897", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/GO_0006900" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006897", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", + "obj" : "http://purl.obolibrary.org/obo/GO_0010324" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006897", + "pred" : "http://purl.obolibrary.org/obo/RO_0002339", + "obj" : "http://purl.obolibrary.org/obo/GO_0031410" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006900", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0016050" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006900", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0061024" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0006900", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_0016192" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006903", "pred" : "is_a", @@ -321044,7 +321566,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006909", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0016192" + "obj" : "http://purl.obolibrary.org/obo/GO_0006897" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0006915", "pred" : "is_a", @@ -322097,14 +322619,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008016", "pred" : "http://purl.obolibrary.org/obo/RO_0002211", "obj" : "http://purl.obolibrary.org/obo/GO_0060047" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008017", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0015631" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008017", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/GO_0005874" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008028", "pred" : "is_a", @@ -322117,18 +322631,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008028", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_25384" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008047", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0030234" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008047", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0140677" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008047", - "pred" : "http://purl.obolibrary.org/obo/RO_0002629", - "obj" : "http://purl.obolibrary.org/obo/GO_0003824" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008078", "pred" : "is_a", @@ -322169,10 +322671,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008090", "pred" : "http://purl.obolibrary.org/obo/RO_0002338", "obj" : "http://purl.obolibrary.org/obo/GO_0098793" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008092", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005515" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008104", "pred" : "is_a", @@ -322181,10 +322679,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008104", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/PR_000000001" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008134", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005515" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008150", "pred" : "is_a", @@ -322265,14 +322759,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0008285", "pred" : "http://purl.obolibrary.org/obo/RO_0002212", "obj" : "http://purl.obolibrary.org/obo/GO_0008283" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008289", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005488" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0008289", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_18059" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0008291", "pred" : "is_a", @@ -322603,10 +323089,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0009100", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0019538" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0009100", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044260" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009100", "pred" : "is_a", @@ -322618,11 +323100,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009101", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0009100" + "obj" : "http://purl.obolibrary.org/obo/GO_0009059" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009101", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0034645" + "obj" : "http://purl.obolibrary.org/obo/GO_0009100" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009101", "pred" : "is_a", @@ -322650,11 +323132,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009250", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0006073" + "obj" : "http://purl.obolibrary.org/obo/GO_0000271" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009250", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0033692" + "obj" : "http://purl.obolibrary.org/obo/GO_0044042" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0009250", "pred" : "http://purl.obolibrary.org/obo/RO_0004008", @@ -323315,6 +323797,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0010256", "pred" : "http://purl.obolibrary.org/obo/RO_0002592", "obj" : "http://purl.obolibrary.org/obo/GO_0012505" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0010324", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0061024" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0010453", "pred" : "is_a", @@ -323482,11 +323968,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0010559", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_1903018" + "obj" : "http://purl.obolibrary.org/obo/GO_0010556" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0010559", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_2000112" + "obj" : 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"http://purl.obolibrary.org/obo/GO_2000113" + "obj" : "http://purl.obolibrary.org/obo/GO_1903019" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0010561", "pred" : "http://purl.obolibrary.org/obo/RO_0002212", @@ -324035,50 +324517,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0010668", "pred" : "http://purl.obolibrary.org/obo/RO_0002315", "obj" : "http://purl.obolibrary.org/obo/CL_0000221" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0010675", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0006109" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0010675", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0031323" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0010675", - "pred" : "http://purl.obolibrary.org/obo/RO_0002211", - "obj" : "http://purl.obolibrary.org/obo/GO_0044262" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0010676", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0010675" - }, { - "sub" : 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"http://purl.obolibrary.org/obo/GO_0015172", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_0015800" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0015179", "pred" : "is_a", @@ -325947,10 +326365,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0015630", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0005856" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0015631", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008092" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0015669", "pred" : "is_a", @@ -326063,6 +326477,18 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0015807", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_59869" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015813", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0003333" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015813", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0051938" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015813", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_1905039" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0015833", "pred" : "is_a", @@ -326127,6 +326553,22 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0015851", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_18282" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015869", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006886" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015869", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0015931" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015869", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0031503" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0015869", + "pred" : "http://purl.obolibrary.org/obo/RO_0004009", + "obj" : 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"http://purl.obolibrary.org/obo/GO_0017148", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0010558" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0017148", "pred" : "is_a", @@ -326478,15 +326904,15 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0017148", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0034249" + "obj" : "http://purl.obolibrary.org/obo/GO_0031327" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0017148", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0051248" + "obj" : "http://purl.obolibrary.org/obo/GO_0034249" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0017148", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_2000113" + "obj" : "http://purl.obolibrary.org/obo/GO_0051248" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0017148", "pred" : "http://purl.obolibrary.org/obo/RO_0002212", @@ -326543,38 +326969,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0019098", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0032504" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019207", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0030234" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019207", - "pred" : "http://purl.obolibrary.org/obo/RO_0002578", - "obj" : "http://purl.obolibrary.org/obo/GO_0016301" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019209", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008047" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019209", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0019207" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019209", - "pred" : "http://purl.obolibrary.org/obo/RO_0002629", - "obj" : "http://purl.obolibrary.org/obo/GO_0016301" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019210", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0004857" - }, { - "sub" : 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"sub" : "http://purl.obolibrary.org/obo/GO_0019538", "pred" : "is_a", @@ -326811,14 +327217,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0019755", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_64708" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019825", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0036094" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0019825", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_15379" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0019867", "pred" : "is_a", @@ -326911,6 +327309,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0021522", "pred" : "http://purl.obolibrary.org/obo/RO_0002315", "obj" : "http://purl.obolibrary.org/obo/CL_0011001" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0021523", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0021522" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0021523", + "pred" : "http://purl.obolibrary.org/obo/RO_0002315", + "obj" : "http://purl.obolibrary.org/obo/CL_0005024" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0021532", "pred" : "is_a", @@ -328367,22 +328773,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0023019", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0010468" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0023023", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044877" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0023023", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/GO_0042611" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0023026", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0023023" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0023026", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : 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"http://purl.obolibrary.org/obo/GO_0005798" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0048194", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006900" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0048194", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", + "obj" : "http://purl.obolibrary.org/obo/GO_0048193" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0048194", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", + "obj" : "http://purl.obolibrary.org/obo/GO_0000139" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0048194", + "pred" : "http://purl.obolibrary.org/obo/RO_0002234", + "obj" : "http://purl.obolibrary.org/obo/GO_0005798" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0048199", "pred" : "is_a", @@ -340542,7 +340648,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0050764", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0060627" + "obj" : "http://purl.obolibrary.org/obo/GO_0030100" }, { "sub" : 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"http://purl.obolibrary.org/obo/GO_0051346", + "pred" : "http://purl.obolibrary.org/obo/RO_0002212", + "obj" : "http://purl.obolibrary.org/obo/GO_0016787" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051347", "pred" : "is_a", @@ -342007,26 +342161,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0051348", "pred" : "http://purl.obolibrary.org/obo/RO_0002212", "obj" : "http://purl.obolibrary.org/obo/GO_0016740" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051378", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043169" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051378", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043176" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051378", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_350546" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051380", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043169" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0051380", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_72587" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051402", "pred" : "is_a", @@ -342273,8 +342407,12 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0015870" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051630", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098657" + "pred" : "http://purl.obolibrary.org/obo/RO_0002338", + "obj" : "http://purl.obolibrary.org/obo/GO_0005576" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0051630", + "pred" : "http://purl.obolibrary.org/obo/RO_0002339", + "obj" : "http://purl.obolibrary.org/obo/GO_0005622" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051631", "pred" : "is_a", @@ -342603,6 +342741,18 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0051937", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_33567" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0051938", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0015800" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0051938", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0046942" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0051938", + "pred" : "http://purl.obolibrary.org/obo/RO_0004009", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0051952", "pred" : "is_a", @@ -343167,18 +343317,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0055063", "pred" : "http://purl.obolibrary.org/obo/RO_0002332", "obj" : "http://purl.obolibrary.org/obo/CHEBI_16189" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0055072", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0055080" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0055072", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098771" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0055072", - "pred" : "http://purl.obolibrary.org/obo/RO_0002332", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_24875" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0055078", "pred" : "is_a", @@ -343495,6 +343633,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0060079", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/GO_0099565" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0060096", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0001820" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0060096", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0007269" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0060135", "pred" : "is_a", @@ -344775,18 +344921,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0060541", "pred" : "http://purl.obolibrary.org/obo/RO_0002296", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001004" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0060548", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0010941" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0060548", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0048523" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0060548", - "pred" : "http://purl.obolibrary.org/obo/RO_0002212", - "obj" : "http://purl.obolibrary.org/obo/GO_0008219" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0060560", "pred" : "is_a", @@ -344902,11 +345036,19 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0060586", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0055072" + "obj" : "http://purl.obolibrary.org/obo/GO_0055080" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0060586", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0098771" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0060586", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0140962" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0060586", + "pred" : "http://purl.obolibrary.org/obo/RO_0002332", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_24875" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0060591", "pred" : "is_a", @@ -346167,6 +346309,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0061101", "pred" : "http://purl.obolibrary.org/obo/RO_0002315", "obj" : "http://purl.obolibrary.org/obo/CL_0000165" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0061102", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0035883" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0061102", "pred" : "is_a", @@ -346771,6 +346917,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0061526", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0023061" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0061533", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0048243" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0061533", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0160043" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0061535", "pred" : "is_a", @@ -346779,6 +346933,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0061535", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0014047" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0061535", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0051938" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0061535", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -346999,10 +347157,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0061626", "pred" : "http://purl.obolibrary.org/obo/RO_0002298", "obj" : "http://purl.obolibrary.org/obo/UBERON_0004363" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0061629", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0140297" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0061687", "pred" : "is_a", @@ -347231,6 +347385,18 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0065003", "pred" : "http://purl.obolibrary.org/obo/RO_0002588", "obj" : "http://purl.obolibrary.org/obo/GO_0032991" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0065004", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0065003" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0065004", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0071824" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0065004", + "pred" : "http://purl.obolibrary.org/obo/RO_0002588", + "obj" : "http://purl.obolibrary.org/obo/GO_0032993" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0065007", "pred" : "is_a", @@ -347267,14 +347433,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0070050", "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/CL_0000540" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070051", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0044877" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070051", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/GO_0005577" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070062", "pred" : "is_a", @@ -347619,14 +347777,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0070382", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0099503" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070405", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043169" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070405", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_28938" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070444", "pred" : "is_a", @@ -347775,10 +347925,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0070831", "pred" : "http://purl.obolibrary.org/obo/RO_0002588", "obj" : "http://purl.obolibrary.org/obo/GO_0005604" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070851", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005102" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070857", "pred" : "is_a", @@ -347839,10 +347985,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0070859", "pred" : "http://purl.obolibrary.org/obo/RO_0002213", "obj" : "http://purl.obolibrary.org/obo/GO_0006699" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0070873", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0010675" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070873", "pred" : "is_a", @@ -347862,7 +348004,11 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070874", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0010677" + "obj" : "http://purl.obolibrary.org/obo/GO_0031324" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0070874", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0045912" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070874", "pred" : "is_a", @@ -347879,6 +348025,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0070875", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0010907" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0070875", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0031325" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0070875", "pred" : "is_a", @@ -348387,6 +348537,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0071806", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/GO_0055085" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0071824", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0043933" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0071824", + "pred" : "http://purl.obolibrary.org/obo/RO_0002592", + "obj" : "http://purl.obolibrary.org/obo/GO_0032993" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0071826", "pred" : "is_a", @@ -348496,13 +348654,21 @@ "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/CL_0000235" }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0071890", + "sub" : "http://purl.obolibrary.org/obo/GO_0071897", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0043168" + "obj" : "http://purl.obolibrary.org/obo/GO_0006259" }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0071890", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_17544" + "sub" : "http://purl.obolibrary.org/obo/GO_0071897", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0009059" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0071897", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0034654" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0071897", + "pred" : "http://purl.obolibrary.org/obo/RO_0004008", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_16991" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0071944", "pred" : "is_a", @@ -349453,8 +349619,12 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0051937" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0090493", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098657" + "pred" : "http://purl.obolibrary.org/obo/RO_0002338", + "obj" : "http://purl.obolibrary.org/obo/GO_0005576" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0090493", + "pred" : "http://purl.obolibrary.org/obo/RO_0002339", + "obj" : "http://purl.obolibrary.org/obo/GO_0005622" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0090497", "pred" : "is_a", @@ -349559,6 +349729,14 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0097050", "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/CL_0000169" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0097054", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006537" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0097054", + "pred" : "http://purl.obolibrary.org/obo/RO_0004007", + "obj" : "http://purl.obolibrary.org/obo/CHEBI_29985" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0097060", "pred" : "is_a", @@ -349627,14 +349805,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0097152", "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", "obj" : "http://purl.obolibrary.org/obo/CL_0008019" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097159", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005488" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097159", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_33832" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0097164", "pred" : "is_a", @@ -349747,14 +349917,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0097360", "pred" : "http://purl.obolibrary.org/obo/RO_0012003", "obj" : "http://purl.obolibrary.org/obo/CL_0011101" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097367", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0005488" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097367", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_63299" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0097386", "pred" : "is_a", @@ -349907,14 +350069,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0097576", "pred" : "http://purl.obolibrary.org/obo/RO_0012008", "obj" : "http://purl.obolibrary.org/obo/GO_0005773" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097690", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0140678" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0097690", - "pred" : "http://purl.obolibrary.org/obo/RO_0002630", - "obj" : "http://purl.obolibrary.org/obo/GO_0005381" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0097708", "pred" : "is_a", @@ -350023,30 +350177,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098609", "pred" : "is_a", "obj" : 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"http://purl.obolibrary.org/obo/GO_0098635", "pred" : "is_a", @@ -350063,14 +350193,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0098636", "pred" : "http://purl.obolibrary.org/obo/RO_0002216", "obj" : "http://purl.obolibrary.org/obo/GO_0007155" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098641", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0045296" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0098641", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098632" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098642", "pred" : "is_a", @@ -350138,7 +350260,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098657", "pred" : "http://purl.obolibrary.org/obo/RO_0002339", - "obj" : "http://purl.obolibrary.org/obo/GO_0005622" + "obj" : "http://purl.obolibrary.org/obo/GO_0005737" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0098657", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", @@ -350219,18 +350341,6 @@ "sub" : 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"obj" : "http://purl.obolibrary.org/obo/GO_0007268" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140238", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006897" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140238", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0051649" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140238", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0099003" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140238", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", + "obj" : "http://purl.obolibrary.org/obo/GO_0098793" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140239", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0006897" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140239", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0051649" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140239", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/GO_0099003" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140239", + "pred" : "http://purl.obolibrary.org/obo/BFO_0000066", + "obj" : "http://purl.obolibrary.org/obo/GO_0098794" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0140241", "pred" : "is_a", @@ -352131,10 +352277,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0140253", "pred" : "http://purl.obolibrary.org/obo/BFO_0000051", "obj" : "http://purl.obolibrary.org/obo/GO_0045026" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0140297", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0008134" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0140318", "pred" : "is_a", @@ -352173,8 +352315,12 @@ "obj" : "http://purl.obolibrary.org/obo/GO_0006869" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0140354", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098657" + "pred" : "http://purl.obolibrary.org/obo/RO_0002338", + "obj" : "http://purl.obolibrary.org/obo/GO_0005576" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0140354", + "pred" : "http://purl.obolibrary.org/obo/RO_0002339", + "obj" : "http://purl.obolibrary.org/obo/GO_0005622" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0140513", "pred" : "is_a", @@ -352207,22 +352353,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0140650", "pred" : "http://purl.obolibrary.org/obo/RO_0002565", "obj" : "http://purl.obolibrary.org/obo/CL_0000598" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0140677", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098772" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0140677", - "pred" : "http://purl.obolibrary.org/obo/RO_0002629", - "obj" : "http://purl.obolibrary.org/obo/GO_0003674" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0140678", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0098772" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_0140678", - "pred" : 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"http://purl.obolibrary.org/obo/GO_1901215", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0060548" + "obj" : "http://purl.obolibrary.org/obo/GO_0048523" }, { "sub" : "http://purl.obolibrary.org/obo/GO_1901215", "pred" : "is_a", @@ -353322,7 +353380,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/GO_1901216", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0010942" + "obj" : "http://purl.obolibrary.org/obo/GO_0048522" }, { "sub" : "http://purl.obolibrary.org/obo/GO_1901216", "pred" : "is_a", @@ -353411,14 +353469,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_1901264", "pred" : "http://purl.obolibrary.org/obo/RO_0004009", "obj" : "http://purl.obolibrary.org/obo/CHEBI_63299" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_1901338", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0097159" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_1901338", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : 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"http://purl.obolibrary.org/obo/GO_0071897" }, { "sub" : "http://purl.obolibrary.org/obo/GO_2000647", "pred" : "is_a", @@ -362209,14 +362283,6 @@ "sub" : "http://purl.obolibrary.org/obo/GO_2001055", "pred" : "http://purl.obolibrary.org/obo/RO_0002213", "obj" : "http://purl.obolibrary.org/obo/GO_0097152" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_2001069", - "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/GO_0030247" - }, { - "sub" : "http://purl.obolibrary.org/obo/GO_2001069", - "pred" : "http://purl.obolibrary.org/obo/RO_0002233", - "obj" : "http://purl.obolibrary.org/obo/CHEBI_28087" }, { "sub" : "http://purl.obolibrary.org/obo/GO_2001141", "pred" : "is_a", @@ -373525,7 +373591,7 @@ "obj" : "http://purl.obolibrary.org/obo/PATO_0002299" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000058", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000463" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000059", @@ -373790,7 +373856,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000086", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000476" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0005764" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0000086", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -376882,7 +376948,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001133", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0002036" + "obj" : "http://purl.obolibrary.org/obo/UBERON_8600006" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0001133", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -385236,26 +385302,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0003061", "pred" : "is_a", "obj" : "http://purl.obolibrary.org/obo/UBERON_0006598" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0003061", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000067", - "obj" : "http://purl.obolibrary.org/obo/GO_0001525", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#source", - "val" : "ISBN:0073040584" - } ] - } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0003061", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000067", - "obj" : "http://purl.obolibrary.org/obo/GO_0030097", - "meta" : { - "basicPropertyValues" : [ { - "pred" : "http://www.geneontology.org/formats/oboInOwl#source", - "val" : "ISBN:0073040584" - } ] - } }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003061", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", @@ -387758,7 +387804,7 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0001676" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003687", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001896" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0003697", @@ -389044,7 +389090,7 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0013686" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004111", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0000061" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0004117", @@ -392304,7 +392350,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005203", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0002202" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0003126" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005204", "pred" : "is_a", @@ -392814,15 +392860,15 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0001678" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005456", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001586" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005456", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001759" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005456", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0002019" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0005460", @@ -394753,7 +394799,7 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0001678" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006668", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001532" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006670", @@ -394813,7 +394859,7 @@ "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_7776" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006682", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001650" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0006756", @@ -396958,14 +397004,7 @@ "basicPropertyValues" : [ { "pred" : "http://www.geneontology.org/formats/oboInOwl#source", "val" : "FMA" - } ] - } - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0008231", - "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000915", - "meta" : { - "basicPropertyValues" : [ { + }, { "pred" : "http://www.geneontology.org/formats/oboInOwl#source", "val" : "MA" } ] @@ -397071,7 +397110,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0008814", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000477" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0034921" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0008814", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -403146,6 +403185,10 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0014892", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0018254" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_0014892", + "pred" : "http://purl.obolibrary.org/obo/RO_0002103", + "obj" : "http://purl.obolibrary.org/obo/CL_0000100" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0014892", "pred" : "http://purl.obolibrary.org/obo/RO_0002202", @@ -403158,10 +403201,6 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_0014892", "pred" : "http://purl.obolibrary.org/obo/RO_0002473", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001134" - }, { - "sub" : "http://purl.obolibrary.org/obo/UBERON_0014892", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#synapsed_by", - "obj" : "http://purl.obolibrary.org/obo/CL_0000100" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0014903", "pred" : "is_a", @@ -403562,7 +403601,7 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0001103" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0016458", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001043" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0016478", @@ -403950,7 +403989,7 @@ "obj" : "http://purl.obolibrary.org/obo/UBERON_0003128" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0018321", - "pred" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "pred" : "http://purl.obolibrary.org/obo/RO_0002570", "obj" : "http://purl.obolibrary.org/obo/UBERON_0001649" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0018543", @@ -404847,7 +404886,7 @@ }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0035639", "pred" : "is_a", - "obj" : "http://purl.obolibrary.org/obo/UBERON_0000477" + "obj" : "http://purl.obolibrary.org/obo/UBERON_0034921" }, { "sub" : "http://purl.obolibrary.org/obo/UBERON_0035639", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", @@ -406097,6 +406136,22 @@ "sub" : "http://purl.obolibrary.org/obo/UBERON_8480037", "pred" : "http://purl.obolibrary.org/obo/BFO_0000050", "obj" : "http://purl.obolibrary.org/obo/UBERON_0003889" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8600004", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0002385" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8600004", + "pred" : "http://purl.obolibrary.org/obo/RO_0002473", + "obj" : "http://purl.obolibrary.org/obo/CL_0008007" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8600006", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_0002036" + }, { + "sub" : "http://purl.obolibrary.org/obo/UBERON_8600006", + "pred" : "is_a", + "obj" : "http://purl.obolibrary.org/obo/UBERON_8600004" }, { "sub" : "http://purl.obolibrary.org/obo/BFO_0000050", "pred" : "subPropertyOf", @@ -406229,14 +406284,6 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002082", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002081" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002082", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002223" - }, { - "sub" : "http://purl.obolibrary.org/obo/RO_0002082", - "pred" : "subPropertyOf", - "obj" : "http://purl.obolibrary.org/obo/RO_0002229" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002086", "pred" : "subPropertyOf", @@ -406257,6 +406304,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002102", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002113" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002103", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002485" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002104", "pred" : "subPropertyOf", @@ -406269,6 +406320,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002113", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002130" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002120", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002486" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002130", "pred" : "subPropertyOf", @@ -406861,6 +406916,14 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002481", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002564" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002485", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002170" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002486", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002170" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002488", "pred" : "subPropertyOf", @@ -406973,6 +407036,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002569", "pred" : "subPropertyOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002375" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002570", + "pred" : "subPropertyOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002131" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002571", "pred" : "subPropertyOf", @@ -407297,6 +407364,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002087", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002090" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002103", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002120" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002110", "pred" : "inverseOf", @@ -407381,6 +407452,10 @@ "sub" : "http://purl.obolibrary.org/obo/RO_0002418", "pred" : "inverseOf", "obj" : "http://purl.obolibrary.org/obo/RO_0002427" + }, { + "sub" : "http://purl.obolibrary.org/obo/RO_0002485", + "pred" : "inverseOf", + "obj" : "http://purl.obolibrary.org/obo/RO_0002486" }, { "sub" : "http://purl.obolibrary.org/obo/RO_0002500", "pred" : "inverseOf", @@ -407486,47 +407561,47 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000037", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000988" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0002244" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0048103" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0002244" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0048103" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000040", @@ -407696,6 +407771,18 @@ "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030141" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" @@ -407708,18 +407795,6 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0008015" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000098", @@ -407840,11 +407915,7 @@ } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000163", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000151" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0060986" - } ] + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000003" ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000165", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], @@ -407988,6 +408059,12 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000232", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000764" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005840" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002039" }, { @@ -407996,12 +408073,6 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0015671" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005840" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000234", @@ -408175,6 +408246,21 @@ "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0042613" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001407" @@ -408190,21 +408276,6 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0045580" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000458", @@ -408297,44 +408368,44 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005730" }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002505" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", + "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002505" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000548", @@ -408383,57 +408454,47 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000553", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000839" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0007113" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0030219" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000556", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000763" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002371" }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001393" + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0007113" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0030219" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000557", @@ -408447,6 +408508,12 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/PR_000005307" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000007857" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000007858" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" @@ -408456,55 +408523,49 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030851" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000007857" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000007858" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000558", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000764" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0071971" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0071971" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000559", @@ -408544,12 +408605,12 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/PR_000014362" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000009978" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030223" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000009978" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000566", @@ -408710,6 +408771,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002100", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0000966" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000752", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000748" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002103", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0000573" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000763", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000988" ], @@ -408724,44 +408792,44 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005634" }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0030218" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005730" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0030218" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000766", @@ -408805,11 +408873,11 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000782", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000990" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002202", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000763" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000827", @@ -408838,7 +408906,7 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0000791" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", "fillerId" : "http://purl.obolibrary.org/obo/GO_0042582" } ] }, { @@ -408857,69 +408925,69 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0042582" }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001456" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001892" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001483" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001932" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001456" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001892" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000837", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000988" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001402" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", + "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001402" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000838", @@ -408942,6 +409010,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001407" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000850", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0060096" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0000864", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000235" ], @@ -408983,38 +409058,38 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001008", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000037" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001014" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001308" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001896" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002977" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001021", @@ -409046,6 +409121,21 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001024", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000037" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001483" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001892" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" }, { @@ -409057,118 +409147,103 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001843" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001483" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001892" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001026", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001059" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001836" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001867" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001898" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001027", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000051" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001836" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001028", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000051" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001836" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001029", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0002031" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002062" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002062" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001035", @@ -409181,17 +409256,17 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001054", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000576" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001059", @@ -409222,136 +409297,136 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001060", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0002032" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001401" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001061", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000000" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", + "fillerId" : "http://purl.obolibrary.org/obo/PATO_0000460" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001063", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001061" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", + "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002011" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001064", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001063" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", + "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002097" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001066", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000038" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001061", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000000" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0000460" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001063", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001061" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002011" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001064", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001063" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", - "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002097" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0001066", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000038" ], - "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030218" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001002" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001012" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001020" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001024" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001083" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001289" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001839" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001889" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002978" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002000", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001066" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001345" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/GO_0033001" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000009127" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001345" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002001", @@ -409370,42 +409445,42 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002005", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000050" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001865" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002006", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000050" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0033001" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001479" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001843" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0033001" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002009", @@ -409421,6 +409496,12 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002012", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000547" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" }, { @@ -409429,63 +409510,57 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002014", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000549" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002015", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000550" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002017", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000552" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001869" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015015", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002981" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001945" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002019", @@ -409519,46 +409594,46 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002033", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001008" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002034", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0001008" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0015016", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001843" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002035", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000837" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", "fillerId" : "http://purl.obolibrary.org/obo/PR_000002979" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001833" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002001" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002036", @@ -409577,17 +409652,17 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002043", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000837" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001015" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001408" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001843" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002104", + "fillerId" : "http://purl.obolibrary.org/obo/PR_000001003" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002064", @@ -409641,7 +409716,7 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002087", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000738" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030045", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030141" } ] }, { @@ -409968,10 +410043,10 @@ "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002454", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0002465" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001004" }, { - "propertyId" : "http://purl.obolibrary.org/obo/cl#lacks_plasma_membrane_part", + "propertyId" : "http://purl.obolibrary.org/obo/CL_4030046", "fillerId" : "http://purl.obolibrary.org/obo/PR_000001084" } ] }, { @@ -410121,13 +410196,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002107" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002573", - "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000125" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0000010" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0002574", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000499" ], @@ -410334,6 +410402,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002100", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002240" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0005024", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000100" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002120", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0008002" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0008002", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000187" ], @@ -410350,6 +410425,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0000053", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0002478" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0008007", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000187" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_8600004" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0008017", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000056" ], @@ -410374,6 +410456,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001264" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_0008025", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0061533" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/CL_0008028", "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000540" ], @@ -411742,6 +411831,27 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0010402" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_4033017", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000192" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002186" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_4033020", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000319" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0005203" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/CL_4033022", + "genusIds" : [ "http://purl.obolibrary.org/obo/CL_0000319" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_8410043" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0000011", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048308" ], @@ -411749,13 +411859,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/GOREL_0002003", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005773" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0000035", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_22221" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0000041", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], @@ -412350,13 +412453,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0010463" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0002054", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_18282" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0002062", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030154" ], @@ -414109,6 +414205,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", "fillerId" : "http://purl.obolibrary.org/obo/GO_0003341" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003357", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030154" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0008025" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003358", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0032502" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002296", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0008025" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003360", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048856" ], @@ -414116,6 +414226,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002296", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002298" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003361", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003357" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0003360" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003365", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030010" ], @@ -414214,48 +414331,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0060350" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003676", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33696" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003682", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000785" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0003723", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33697" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0004857", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002630", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003824" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005172", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001971" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005173", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002065" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005275", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -414277,6 +414352,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_35692" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005313", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005319", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005215" ], @@ -414305,55 +414387,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24875" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005496", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_35341" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005506", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24875" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005515", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005518", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005581" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005536", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_17234" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005539", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_18085" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005540", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16336" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0005583", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005581" ], @@ -414564,6 +414597,27 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004007", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_61120" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0006259", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004007", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0006308", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009056" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0006309", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006308" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0030262" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0006325", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016043" ], @@ -415341,13 +415395,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", "fillerId" : "http://purl.obolibrary.org/obo/GO_0060047" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008017", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005874" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008028", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -415355,13 +415402,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_25384" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008047", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002629", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003824" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008078", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016477" ], @@ -415447,13 +415487,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", "fillerId" : "http://purl.obolibrary.org/obo/GO_0008283" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008289", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_18059" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0008291", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], @@ -416414,27 +416447,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000221" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010675", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0044262" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010676", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0044262" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010677", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0044262" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010700", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -416785,20 +416797,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005737" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010941", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008219" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010942", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008219" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0010948", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -417579,6 +417577,16 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59869" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015813", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0015800" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002342", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016020" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015833", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], @@ -417621,6 +417629,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_18282" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015869", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0032993" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0015870", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], @@ -417771,27 +417786,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000187" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0016595", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_14321" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0016597", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33709" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0017046", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_25905" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0017126", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0044085" ], @@ -417841,27 +417835,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0032504" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019207", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002578", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0016301" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019209", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002629", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0016301" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019210", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002630", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0016301" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019216", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -417953,6 +417926,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33655" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019478", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009056" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59871" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019538", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], @@ -417988,13 +417968,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_64708" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0019825", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15379" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0021501", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048646" ], @@ -418040,6 +418013,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0011001" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0021523", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030154" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0005024" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0021533", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030154" ], @@ -418837,20 +418817,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0010468" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0023023", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0042611" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0023026", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0042613" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0023051", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -418980,6 +418946,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000763" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030100", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006897" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030154", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048869" ], @@ -419099,13 +419072,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000235" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030234", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003824" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030239", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022607" ], @@ -419113,20 +419079,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030016" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030246", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16646" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030247", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_18154" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0030264", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0071763" ], @@ -419750,20 +419702,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0006952" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0031402", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29101" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0031406", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29067" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0031410", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0031982" ], @@ -419778,13 +419716,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0019000", "fillerId" : "http://purl.obolibrary.org/obo/PATO_0001420" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0031420", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33504" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0031503", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0051179" ], @@ -419875,13 +419806,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030073" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032052", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_36235" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032057", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -419910,18 +419834,46 @@ "fillerId" : "http://purl.obolibrary.org/obo/GO_0032059" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032091", + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032069", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004518" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032070", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004536" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032074", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005515" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004518" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032092", + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032075", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005515" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004518" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032076", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004536" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032077", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0004536" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032101", @@ -420507,6 +420459,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002590", "fillerId" : "http://purl.obolibrary.org/obo/GO_0032991" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032986", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022411" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002590", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0032993" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0032988", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022411" ], @@ -420654,6 +420613,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", "fillerId" : "http://purl.obolibrary.org/obo/GO_0000070" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033054", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004007", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29986" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033157", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -420681,13 +420647,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24875" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033218", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_32988" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033238", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -420737,34 +420696,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001891" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033293", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_35757" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033341", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005518" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033342", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005518" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033343", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005518" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0033363", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016043" ], @@ -421377,27 +421308,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005622" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0035561", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003682" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0035562", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003682" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0035563", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003682" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0035577", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016020" ], @@ -421950,13 +421860,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", "fillerId" : "http://purl.obolibrary.org/obo/GO_0042098" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042166", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15355" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042176", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -422006,20 +421909,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005840" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042277", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16670" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042301", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_35780" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042325", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -422223,6 +422112,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_32988" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042940", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59871" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042943", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59871" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0042981", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -422285,20 +422188,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000782" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043021", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_1990904" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043022", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005840" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043025", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0044297" ], @@ -422425,27 +422314,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0006412" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043167", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24870" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043168", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_22563" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043169", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_36916" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043170", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], @@ -422460,34 +422328,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16670" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043176", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_32952" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043177", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_64709" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043184", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000002112" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043199", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16189" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043200", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050896" ], @@ -422642,13 +422482,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000562" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043393", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005515" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043434", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050896" ], @@ -422684,13 +422517,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", "fillerId" : "http://purl.obolibrary.org/obo/GO_0016052" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043471", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0044275" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043501", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0043500" ], @@ -422768,13 +422594,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", "fillerId" : "http://purl.obolibrary.org/obo/GO_0016301" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043559", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000009054" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0043576", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -423041,20 +422860,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002592", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005929" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0044815", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0032991" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0051276" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0044877", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0032991" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045026", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009987" ], @@ -423083,13 +422888,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0045165" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045182", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003674" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0006417" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045184", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0051234" ], @@ -423153,13 +422951,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002592", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030312" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045296", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001327" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045321", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0001775" ], @@ -423762,6 +423553,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007049" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045806", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006897" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045807", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006897" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0045818", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -424140,6 +423945,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29067" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046416", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004007", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59871" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046437", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009058" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004008", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_59871" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046483", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], @@ -424308,13 +424127,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005874" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046848", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_52255" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046850", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -424336,13 +424148,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0046849" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046872", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_25213" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046873", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -424385,13 +424190,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", "fillerId" : "http://purl.obolibrary.org/obo/GO_0008610" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046906", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_26932" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046907", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], @@ -424399,13 +424197,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005622" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046914", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33515" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0046915", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -424451,13 +424242,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/GO_0031982" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0048029", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_35381" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0048070", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -424528,6 +424312,16 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002344", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005798" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0048194", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006900" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0000139" + }, { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002234", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005798" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0048199", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006903" ], @@ -425734,13 +425528,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", "fillerId" : "http://purl.obolibrary.org/obo/NCBITaxon_4751" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050840", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0031012" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0050863", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -425916,6 +425703,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", "fillerId" : "http://purl.obolibrary.org/obo/GO_0032432" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051027", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051032", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -425930,6 +425724,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33697" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051035", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051046", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -425973,18 +425774,32 @@ "fillerId" : "http://purl.obolibrary.org/obo/GO_0006810" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051055", + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051052", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006259" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051053", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008610" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006259" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051059", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051054", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/PR_000001753" + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006259" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051055", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0008610" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051078", @@ -426014,27 +425829,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0032502" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051098", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005488" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051099", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005488" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051100", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005488" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051128", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -426325,6 +426119,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/GO_0140013" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051336", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016787" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051338", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -426333,32 +426134,32 @@ "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051347", + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051345", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016787" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051348", + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051346", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016787" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051378", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051347", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_350546" + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051380", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051348", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_72587" + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051402", @@ -426725,6 +426526,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33567" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051938", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0051952", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -427033,13 +426841,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002332", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16189" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0055072", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048878" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002332", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24875" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0055078", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048878" ], @@ -427216,6 +427017,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0098976" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0060096", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0007269" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_350546" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0060136", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022414" ], @@ -427901,13 +427709,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002296", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001004" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0060548", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008219" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0060560", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048589" ], @@ -429098,6 +428899,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_15355" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0061533", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0007269" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_72587" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0061535", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0007269" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0061548", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048856" ], @@ -429387,6 +429202,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", "fillerId" : "http://purl.obolibrary.org/obo/GO_0032991" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0065004", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022607" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002588", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0032993" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0065009", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -429415,13 +429237,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000540" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0070051", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005577" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0070091", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0046903" ], @@ -429639,13 +429454,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0099500" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0070405", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_28938" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0070444", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008283" ], @@ -430097,6 +429905,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_36080" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0071824", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016043" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002592", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0032993" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0071826", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016043" ], @@ -430161,11 +429976,11 @@ "fillerId" : "http://purl.obolibrary.org/obo/CL_0000235" } ] }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0071890", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0071897", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009058" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_17544" + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004008", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0071971", @@ -430847,6 +430662,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000169" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097054", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0004007", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097060", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098590" ], @@ -430889,13 +430711,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", "fillerId" : "http://purl.obolibrary.org/obo/CL_0008019" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097159", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33832" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097164", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0008152" ], @@ -430966,13 +430781,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0012003", "fillerId" : "http://purl.obolibrary.org/obo/CL_0011101" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097367", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_63299" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097386", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0120025" ], @@ -431071,13 +430879,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0012008", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005773" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097690", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002630", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005381" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0097708", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0031982" ], @@ -431143,27 +430944,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/GO_0005886" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098631", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0007155" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098632", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005515" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0098609" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098633", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0098643" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098635", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0032991" ], @@ -431178,13 +430958,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002216", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007155" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098641", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0045296" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0098609" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098642", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005581" ], @@ -431217,7 +430990,7 @@ "fillerId" : "http://purl.obolibrary.org/obo/GO_0005576" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005622" + "fillerId" : "http://purl.obolibrary.org/obo/GO_0005737" }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24431" @@ -431287,13 +431060,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002332", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_36914" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098772", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003674" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002578", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003674" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0098773", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048856" ], @@ -432380,13 +432146,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_1905962" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120023", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_64628" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0120025", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0042995" ], @@ -432597,6 +432356,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", "fillerId" : "http://purl.obolibrary.org/obo/PR_000000001" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140097", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003824" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_16991" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140098", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0003824" ], @@ -432635,6 +432401,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007268" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140238", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006897" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0098793" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140239", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006897" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000066", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0098794" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140241", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006412" ], @@ -432819,20 +432599,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002565", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000598" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140677", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002629", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003674" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140678", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0098772" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002630", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003674" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0140694", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022607" ], @@ -432861,13 +432627,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002332", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_24431" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_0150005", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0032991" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008047" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_0150031", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -433098,27 +432857,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0097194" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900120", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005102" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900121", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005102" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900122", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0005102" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900125", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -433140,27 +432878,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0030213" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900130", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008289" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900131", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008289" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900132", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008289" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1900141", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -433546,13 +433263,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_63299" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901338", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33567" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901342", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -433588,13 +433298,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004008", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_33832" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901363", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_5686" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901374", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0006810" ], @@ -433952,13 +433655,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_17087" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901681", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_26835" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1901682", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0022857" ], @@ -434176,6 +433872,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0060218" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902065", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050896" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902074", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050896" ], @@ -434449,6 +434152,27 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0022857" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902510", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006309" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902511", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006309" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902512", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006309" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1902513", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -435240,6 +434964,27 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_1903441" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1903624", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006308" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1903625", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006308" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1903626", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0006308" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1903697", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -435964,6 +435709,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_1990778" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904390", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0030154" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002315", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0000752" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904396", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -436055,27 +435807,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002339", "fillerId" : "http://purl.obolibrary.org/obo/GO_0035869" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904526", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008017" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904527", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008017" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904528", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0008017" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904587", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0050896" ], @@ -436320,27 +436051,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0072697" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904793", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_1990188" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904794", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_1990188" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904795", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_1990188" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1904817", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0048856" ], @@ -436652,6 +436362,27 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0014895" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905153", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0010324" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905154", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0010324" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905155", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0010324" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905165", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -436701,27 +436432,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", "fillerId" : "http://purl.obolibrary.org/obo/GO_0007076" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905214", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003723" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905215", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003723" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905216", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0003723" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905223", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0009653" ], @@ -436729,6 +436439,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002298", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002348" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905232", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0070887" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", + "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_29985" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1905268", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -437632,13 +437349,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0004009", "fillerId" : "http://purl.obolibrary.org/obo/GO_0070062" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1990188", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0000791" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1990234", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_1902494" ], @@ -437646,13 +437356,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002215", "fillerId" : "http://purl.obolibrary.org/obo/GO_0016740" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_1990239", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_26764" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_1990266", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0016477" ], @@ -437849,20 +437552,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0071888" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000112", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0034645" - } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000113", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", - "fillerId" : "http://purl.obolibrary.org/obo/GO_0034645" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000114", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -438122,6 +437811,20 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0044346" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000278", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002211", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0071897" + } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000279", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002212", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0071897" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000282", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -438444,6 +438147,13 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0097026" } ] + }, { + "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000573", + "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], + "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", + "fillerId" : "http://purl.obolibrary.org/obo/GO_0071897" + } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_2000647", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -438829,13 +438539,6 @@ "propertyId" : "http://purl.obolibrary.org/obo/RO_0002213", "fillerId" : "http://purl.obolibrary.org/obo/GO_0097152" } ] - }, { - "definedClassId" : "http://purl.obolibrary.org/obo/GO_2001069", - "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0005488" ], - "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/RO_0002233", - "fillerId" : "http://purl.obolibrary.org/obo/CHEBI_28087" - } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/GO_2001141", "genusIds" : [ "http://purl.obolibrary.org/obo/GO_0065007" ], @@ -445023,7 +444726,7 @@ "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0003687", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0013685" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001896" } ] }, { @@ -445426,7 +445129,7 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0013686" }, { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0000061" } ] }, { @@ -446833,7 +446536,7 @@ "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0011148" ], "restrictions" : [ { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", - "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0002202" + "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0003126" }, { "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000051", "fillerId" : "http://purl.obolibrary.org/obo/CL_0000159" @@ -447043,7 +446746,7 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001678" }, { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001586" } ] }, { @@ -447632,7 +447335,7 @@ "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0006668", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0013685" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001532" } ] }, { @@ -447646,7 +447349,7 @@ "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0006682", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0004111" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001650" } ] }, { @@ -450761,6 +450464,9 @@ "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0014892", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0001630" ], "restrictions" : [ { + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002103", + "fillerId" : "http://purl.obolibrary.org/obo/CL_0000100" + }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002202", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0003082" }, { @@ -450769,9 +450475,6 @@ }, { "propertyId" : "http://purl.obolibrary.org/obo/RO_0002473", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001134" - }, { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#synapsed_by", - "fillerId" : "http://purl.obolibrary.org/obo/CL_0000100" } ] }, { "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0014903", @@ -450953,7 +450656,7 @@ "propertyId" : "http://purl.obolibrary.org/obo/BFO_0000050", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001103" }, { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001043" } ] }, { @@ -451190,7 +450893,7 @@ "definedClassId" : "http://purl.obolibrary.org/obo/UBERON_0018321", "genusIds" : [ "http://purl.obolibrary.org/obo/UBERON_0013685" ], "restrictions" : [ { - "propertyId" : "http://purl.obolibrary.org/obo/uberon/core#conduit_for", + "propertyId" : "http://purl.obolibrary.org/obo/RO_0002570", "fillerId" : "http://purl.obolibrary.org/obo/UBERON_0001649" } ] }, { @@ -452667,6 +452370,10 @@ "sub" : "http://purl.obolibrary.org/obo/GO_0099003", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" + }, { + "sub" : "http://purl.obolibrary.org/obo/GO_0099536", + "pred" : "http://purl.obolibrary.org/obo/RO_0002162", + "obj" : "http://purl.obolibrary.org/obo/NCBITaxon_33208" }, { "sub" : "http://purl.obolibrary.org/obo/GO_0099546", "pred" : "http://purl.obolibrary.org/obo/RO_0002162", @@ -452901,6 +452608,10 @@ "predicateId" : "http://purl.obolibrary.org/obo/RO_0002566", "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ], "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000002" ] + }, { + "predicateId" : "http://purl.obolibrary.org/obo/RO_0002570", + "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ], + "rangeClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000040" ] }, { "predicateId" : "http://purl.obolibrary.org/obo/RO_0002572", "domainClassIds" : [ "http://purl.obolibrary.org/obo/BFO_0000141" ] diff --git a/pato-full.obo b/pato-full.obo index 7e63796..7d0ba93 100644 --- a/pato-full.obo +++ b/pato-full.obo @@ -1,5 +1,5 @@ format-version: 1.2 -data-version: pato/releases/2023-02-17/pato-full.owl +data-version: pato/releases/2023-05-18/pato-full.owl subsetdef: 1_STAR "" subsetdef: 2_STAR "" subsetdef: 3_STAR "" @@ -8,6 +8,7 @@ subsetdef: absent_slim "Absent/present slim" subsetdef: added_for_HCA "" subsetdef: attribute_slim "Attribute slim" subsetdef: BDS_subset "" +subsetdef: blood_and_immune_upper_slim "" subsetdef: cell_quality "cell_quality" subsetdef: common_anatomy "" subsetdef: cumbo "" @@ -53,6 +54,7 @@ subsetdef: relational_slim "Relational slim: types of quality that require an ad subsetdef: ro-eco "" subsetdef: RO:0002259 "" subsetdef: scalar_slim "Scalar slim" +subsetdef: term_scheduled_for_obsoletion "" subsetdef: uberon_slim "" subsetdef: ubprop:upper_level "" subsetdef: unverified_taxonomic_grouping "" @@ -89,7 +91,7 @@ property_value: dc-description "An ontology of phenotypic qualities (properties, property_value: dc-title "PATO - the Phenotype And Trait Ontology" xsd:string property_value: dcterms-license https://creativecommons.org/licenses/by/3.0/ property_value: has_ontology_root_term PATO:0000001 -property_value: owl:versionInfo "2023-02-17" xsd:string +property_value: owl:versionInfo "2023-05-18" xsd:string [Term] id: BFO:0000002 @@ -595,6 +597,49 @@ is_a: CHEBI:16670 ! peptide is_a: CHEBI:33839 ! macromolecule property_value: http://purl.obolibrary.org/obo/chebi/formula "C4H6N2O3R2(C2H2NOR)n" xsd:string +[Term] +id: CHEBI:15966 +name: D-glutamic acid +namespace: chebi_ontology +alt_id: CHEBI:21023 +alt_id: CHEBI:4183 +def: "An optically active form of glutamic acid having D-configuration." [] +subset: 3_STAR +synonym: "(2R)-2-aminopentanedioic acid" EXACT IUPAC_NAME [IUPAC] +synonym: "(R)-2-aminopentanedioic acid" RELATED [ChEBI] +synonym: "D-2-Aminoglutaric acid" RELATED [KEGG_COMPOUND] +synonym: "D-Glutamic acid" EXACT [KEGG_COMPOUND] +synonym: "D-glutamic acid" EXACT IUPAC_NAME [IUPAC] +synonym: "D-Glutaminic acid" RELATED [KEGG_COMPOUND] +synonym: "D-Glutaminsaeure" RELATED [ChEBI] +synonym: "DGL" RELATED [PDBeChem] +synonym: "glutamic acid D-form" RELATED [ChemIDplus] +xref: Beilstein:1723800 {source="Beilstein"} +xref: CAS:6893-26-1 {source="NIST Chemistry WebBook"} +xref: CAS:6893-26-1 {source="ChemIDplus"} +xref: CAS:6893-26-1 {source="KEGG COMPOUND"} +xref: DrugBank:DB02517 +xref: Gmelin:201189 {source="Gmelin"} +xref: HMDB:HMDB0003339 +xref: KEGG:C00217 +xref: KNApSAcK:C00019577 +xref: MetaCyc:D-GLT +xref: PDBeChem:DGL +xref: Reaxys:1723800 {source="Reaxys"} +is_a: CHEBI:16733 ! D-alpha-amino acid +is_a: CHEBI:18237 ! glutamic acid +relationship: is_conjugate_acid_of CHEBI:29986 ! D-glutamate(1-) +relationship: is_enantiomer_of CHEBI:16015 ! L-glutamic acid +relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m1/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-GSVOUGTGSA-N" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "147.12930" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "147.05316" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[C@H](CCC(O)=O)C(O)=O" xsd:string + [Term] id: CHEBI:15986 name: polynucleotide @@ -613,6 +658,73 @@ relationship: has_part CHEBI:50319 ! nucleotide residue property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "(C5H8O6PR)n.C10H17O10PR2" xsd:string +[Term] +id: CHEBI:16015 +name: L-glutamic acid +namespace: chebi_ontology +alt_id: CHEBI:21304 +alt_id: CHEBI:42825 +alt_id: CHEBI:6224 +def: "An optically active form of glutamic acid having L-configuration." [] +subset: 3_STAR +synonym: "(2S)-2-aminopentanedioic acid" EXACT IUPAC_NAME [IUPAC] +synonym: "(S)-2-aminopentanedioic acid" RELATED [ChEBI] +synonym: "(S)-glutamic acid" RELATED [NIST_Chemistry_WebBook] +synonym: "acide glutamique" RELATED INN [ChEBI] +synonym: "acido glutamico" RELATED INN [ChEBI] +synonym: "acidum glutamicum" RELATED INN [ChEBI] +synonym: "E" RELATED [ChEBI] +synonym: "Glu" RELATED [ChEBI] +synonym: "Glutamate" RELATED [KEGG_COMPOUND] +synonym: "GLUTAMIC ACID" RELATED [PDBeChem] +synonym: "glutamic acid" RELATED INN [ChEBI] +synonym: "L-Glu" RELATED [ChEBI] +synonym: "L-Glutamic acid" EXACT [KEGG_COMPOUND] +synonym: "L-glutamic acid" EXACT IUPAC_NAME [IUPAC] +synonym: "L-Glutaminic acid" RELATED [KEGG_COMPOUND] +synonym: "L-Glutaminsaeure" RELATED [ChEBI] +xref: Beilstein:1723801 {source="Beilstein"} +xref: BPDB:2297 +xref: CAS:56-86-0 {source="NIST Chemistry WebBook"} +xref: CAS:56-86-0 {source="ChemIDplus"} +xref: CAS:56-86-0 {source="KEGG COMPOUND"} +xref: Drug_Central:1310 {source="DrugCentral"} +xref: DrugBank:DB00142 +xref: Gmelin:3502 {source="Gmelin"} +xref: HMDB:HMDB0000148 +xref: KEGG:C00025 +xref: KEGG:D00007 +xref: KNApSAcK:C00001358 +xref: LINCS:LSM-36375 +xref: MetaCyc:GLT +xref: PDBeChem:GLU_LFOH +xref: PMID:15739367 {source="Europe PMC"} +xref: PMID:15930465 {source="Europe PMC"} +xref: PMID:16719819 {source="Europe PMC"} +xref: PMID:16892196 {source="Europe PMC"} +xref: PMID:19581495 {source="Europe PMC"} +xref: PMID:22219301 {source="Europe PMC"} +xref: PMID:22735334 {source="Europe PMC"} +xref: Reaxys:1723801 {source="Reaxys"} +xref: Wikipedia:L-Glutamic_Acid +is_a: CHEBI:18237 ! glutamic acid +is_a: CHEBI:24318 ! glutamine family amino acid +relationship: is_conjugate_acid_of CHEBI:29985 ! L-glutamate(1-) +relationship: is_enantiomer_of CHEBI:15966 ! D-glutamic acid +relationship: RO:0000087 CHEBI:173085 ! has role ferroptosis inducer +relationship: RO:0000087 CHEBI:25512 ! has role neurotransmitter +relationship: RO:0000087 CHEBI:27027 ! has role micronutrient +relationship: RO:0000087 CHEBI:50733 ! has role nutraceutical +relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0000087 CHEBI:76971 ! has role Escherichia coli metabolite +property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H9NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m0/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-VKHMYHEASA-N" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "147.12930" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "147.05316" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[C@@H](CCC(O)=O)C(O)=O" xsd:string + [Term] id: CHEBI:16134 name: ammonia @@ -907,6 +1019,29 @@ property_value: http://purl.obolibrary.org/obo/chebi/mass "170.187" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "170.08117" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "C1=CC(=CC(=C1O)O)C(C[NH3+])O" xsd:string +[Term] +id: CHEBI:16733 +name: D-alpha-amino acid +namespace: chebi_ontology +alt_id: CHEBI:12909 +alt_id: CHEBI:13625 +alt_id: CHEBI:20906 +alt_id: CHEBI:4097 +subset: 3_STAR +synonym: "D-alpha-amino acid" EXACT [ChEBI] +synonym: "D-alpha-amino acids" EXACT IUPAC_NAME [IUPAC] +synonym: "D-alpha-amino acids" RELATED [ChEBI] +synonym: "D-Amino acid" RELATED [KEGG_COMPOUND] +xref: KEGG:C00405 +is_a: CHEBI:83925 ! non-proteinogenic alpha-amino acid +relationship: is_conjugate_acid_of CHEBI:60895 ! D-alpha-amino acid anion +relationship: is_tautomer_of CHEBI:59871 ! D-alpha-amino acid zwitterion +property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "74.05870" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[C@H]([*])C(O)=O" xsd:string + [Term] id: CHEBI:167559 name: glycan @@ -1016,6 +1151,40 @@ property_value: http://purl.obolibrary.org/obo/chebi/mass "584.673" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "584.26348" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "CC1=C(C=C)\\C(NC1=O)=C\\C1=C(C)C(CCC(O)=O)=C(CC2=C(CCC(O)=O)C(C)=C(N2)\\C=C2/NC(=O)C(C=C)=C2C)N1" xsd:string +[Term] +id: CHEBI:16991 +name: deoxyribonucleic acid +namespace: chebi_ontology +alt_id: CHEBI:13302 +alt_id: CHEBI:21123 +alt_id: CHEBI:33698 +alt_id: CHEBI:4291 +def: "High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms." [] +subset: 3_STAR +synonym: "(Deoxyribonucleotide)m" RELATED [KEGG_COMPOUND] +synonym: "(Deoxyribonucleotide)n" RELATED [KEGG_COMPOUND] +synonym: "(Deoxyribonucleotide)n+m" RELATED [KEGG_COMPOUND] +synonym: "Deoxyribonucleic acid" EXACT [KEGG_COMPOUND] +synonym: "deoxyribonucleic acids" EXACT IUPAC_NAME [IUPAC] +synonym: "deoxyribonucleic acids" RELATED [ChEBI] +synonym: "Desoxyribonukleinsaeure" RELATED [ChEBI] +synonym: "desoxyribose nucleic acid" RELATED [ChemIDplus] +synonym: "DNA" RELATED [UniProt] +synonym: "DNA" RELATED [KEGG_COMPOUND] +synonym: "DNA" RELATED [IUPAC] +synonym: "DNAn" RELATED [KEGG_COMPOUND] +synonym: "DNAn+1" RELATED [KEGG_COMPOUND] +synonym: "DNS" RELATED [ChEBI] +synonym: "thymus nucleic acid" RELATED [ChEBI] +xref: CAS:9007-49-2 {source="ChemIDplus"} +xref: CAS:9007-49-2 {source="KEGG COMPOUND"} +xref: KEGG:C00039 +is_a: CHEBI:33696 ! nucleic acid +relationship: has_part CHEBI:33793 ! canonical deoxyribonucleoside residue +relationship: has_part CHEBI:50298 ! canonical deoxyribonucleotide residue +relationship: RO:0000087 CHEBI:75771 ! has role mouse metabolite +relationship: RO:0000087 CHEBI:77746 ! has role human metabolite + [Term] id: CHEBI:17087 name: ketone @@ -1091,6 +1260,20 @@ property_value: http://purl.obolibrary.org/obo/chebi/formula "C6H12O6" xsd:strin property_value: http://purl.obolibrary.org/obo/chebi/mass "180.15588" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "180.06339" xsd:string +[Term] +id: CHEBI:173085 +name: ferroptosis inducer +namespace: chebi_ontology +def: "Any substance that induces or promotes ferroptosis (a type of programmed cell death dependent on iron and characterized by the accumulation of lipid peroxides) in organisms." [] +subset: 3_STAR +synonym: "ferroptosis inducers" RELATED [ChEBI] +xref: PMID:31899616 {source="Europe PMC"} +xref: PMID:32015325 {source="SUBMITTER"} +xref: PMID:33167414 {source="Europe PMC"} +xref: PMID:34012798 {source="Europe PMC"} +xref: Wikipedia:Ferroptosis +is_a: CHEBI:52206 ! biochemical role + [Term] id: CHEBI:17544 name: hydrogencarbonate @@ -1682,6 +1865,30 @@ xref: PMID:20716061 {source="Europe PMC"} is_a: CHEBI:15705 ! L-alpha-amino acid is_a: CHEBI:83813 ! proteinogenic amino acid +[Term] +id: CHEBI:24319 +name: EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor +namespace: chebi_ontology +def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2)." [] +subset: 3_STAR +synonym: "EC 6.3.1.2 (glutamate--ammonia ligase) inhibitors" RELATED [ChEBI] +synonym: "EC 6.3.1.2 inhibitor" RELATED [ChEBI] +synonym: "EC 6.3.1.2 inhibitors" RELATED [ChEBI] +synonym: "glutamate--ammonia ligase (EC 6.3.1.2) inhibitor" RELATED [ChEBI] +synonym: "glutamate--ammonia ligase (EC 6.3.1.2) inhibitors" RELATED [ChEBI] +synonym: "glutamate--ammonia ligase inhibitor" RELATED [ChEBI] +synonym: "glutamate--ammonia ligase inhibitors" RELATED [ChEBI] +synonym: "glutamine synthetase inhibitor" RELATED [ChEBI] +synonym: "glutamine synthetase inhibitors" RELATED [ChEBI] +synonym: "glutamylhydroxamic synthetase inhibitor" RELATED [ChEBI] +synonym: "glutamylhydroxamic synthetase inhibitors" RELATED [ChEBI] +synonym: "L-glutamate:ammonia ligase (ADP-forming) inhibitor" RELATED [ChEBI] +synonym: "L-glutamate:ammonia ligase (ADP-forming) inhibitors" RELATED [ChEBI] +synonym: "L-glutamine synthetase inhibitor" RELATED [ChEBI] +synonym: "L-glutamine synthetase inhibitors" RELATED [ChEBI] +xref: Wikipedia:Glutamine_synthetase +is_a: CHEBI:76823 ! EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor + [Term] id: CHEBI:24384 name: glycogens @@ -2941,6 +3148,67 @@ property_value: http://purl.obolibrary.org/obo/chebi/mass "33.00674" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "32.99711" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[H][O+]=O" xsd:string +[Term] +id: CHEBI:29985 +name: L-glutamate(1-) +namespace: chebi_ontology +alt_id: CHEBI:13107 +alt_id: CHEBI:21301 +def: "An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +subset: 3_STAR +synonym: "(2S)-2-ammoniopentanedioate" RELATED [IUPAC] +synonym: "hydrogen L-glutamate" EXACT IUPAC_NAME [IUPAC] +synonym: "L-glutamate" RELATED [ChEBI] +synonym: "L-glutamate" RELATED [UniProt] +synonym: "L-glutamate(1-)" EXACT [JCBN] +synonym: "L-glutamic acid monoanion" RELATED [JCBN] +synonym: "L-glutamic acid, ion(1-)" RELATED [ChemIDplus] +xref: CAS:11070-68-1 {source="ChemIDplus"} +xref: Gmelin:936654 {source="Gmelin"} +xref: MetaCyc:GLT +is_a: CHEBI:14321 ! glutamate(1-) +is_a: CHEBI:62031 ! polar amino acid zwitterion +relationship: is_conjugate_acid_of CHEBI:29988 ! L-glutamate(2-) +relationship: is_conjugate_base_of CHEBI:16015 ! L-glutamic acid +relationship: is_enantiomer_of CHEBI:29986 ! D-glutamate(1-) +relationship: RO:0000087 CHEBI:24319 ! has role EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor +relationship: RO:0000087 CHEBI:75772 ! has role Saccharomyces cerevisiae metabolite +relationship: RO:0000087 CHEBI:77746 ! has role human metabolite +property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m0/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-VKHMYHEASA-M" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "146.12136" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "146.04588" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][C@@H](CCC([O-])=O)C([O-])=O" xsd:string + +[Term] +id: CHEBI:29986 +name: D-glutamate(1-) +namespace: chebi_ontology +alt_id: CHEBI:12979 +alt_id: CHEBI:21022 +def: "An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group" [] +subset: 3_STAR +synonym: "(2R)-2-ammoniopentanedioate" RELATED [IUPAC] +synonym: "D-glutamate" RELATED [UniProt] +synonym: "D-glutamate(1-)" EXACT [JCBN] +synonym: "D-glutamic acid monoanion" RELATED [JCBN] +synonym: "hydrogen D-glutamate" EXACT IUPAC_NAME [IUPAC] +xref: Beilstein:8319427 {source="Beilstein"} +xref: MetaCyc:D-GLT +is_a: CHEBI:14321 ! glutamate(1-) +relationship: is_conjugate_acid_of CHEBI:29989 ! D-glutamate(2-) +relationship: is_conjugate_base_of CHEBI:15966 ! D-glutamic acid +relationship: is_enantiomer_of CHEBI:29985 ! L-glutamate(1-) +property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H8NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m1/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-GSVOUGTGSA-M" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "146.12136" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "146.04588" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][C@H](CCC([O-])=O)C([O-])=O" xsd:string + [Term] id: CHEBI:29987 name: glutamate(2-) @@ -2965,6 +3233,51 @@ property_value: http://purl.obolibrary.org/obo/chebi/mass "145.11342" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "145.03860" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "NC(CCC([O-])=O)C([O-])=O" xsd:string +[Term] +id: CHEBI:29988 +name: L-glutamate(2-) +namespace: chebi_ontology +def: "An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid." [] +subset: 3_STAR +synonym: "(2S)-2-aminopentanedioate" EXACT IUPAC_NAME [IUPAC] +synonym: "L-glutamate" EXACT IUPAC_NAME [IUPAC] +synonym: "L-glutamate(2-)" EXACT [JCBN] +synonym: "L-glutamic acid dianion" RELATED [JCBN] +xref: Gmelin:327905 {source="Gmelin"} +is_a: CHEBI:29987 ! glutamate(2-) +is_a: CHEBI:59814 ! L-alpha-amino acid anion +relationship: is_conjugate_base_of CHEBI:29985 ! L-glutamate(1-) +relationship: is_enantiomer_of CHEBI:29989 ! D-glutamate(2-) +property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H7NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m0/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-VKHMYHEASA-L" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "145.11342" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "145.03860" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[C@@H](CCC([O-])=O)C([O-])=O" xsd:string + +[Term] +id: CHEBI:29989 +name: D-glutamate(2-) +namespace: chebi_ontology +subset: 3_STAR +synonym: "(2R)-2-aminopentanedioate" EXACT IUPAC_NAME [IUPAC] +synonym: "D-glutamate" EXACT IUPAC_NAME [IUPAC] +synonym: "D-glutamate(2-)" EXACT [JCBN] +synonym: "D-glutamic acid dianion" RELATED [JCBN] +xref: Beilstein:8143000 {source="Beilstein"} +xref: Gmelin:327904 {source="Gmelin"} +is_a: CHEBI:29987 ! glutamate(2-) +relationship: is_conjugate_base_of CHEBI:29986 ! D-glutamate(1-) +relationship: is_enantiomer_of CHEBI:29988 ! L-glutamate(2-) +property_value: http://purl.obolibrary.org/obo/chebi/charge "-2" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C5H7NO4" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchi "InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m1/s1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/inchikey "WHUUTDBJXJRKMK-GSVOUGTGSA-L" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "145.11342" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "145.03860" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "N[C@H](CCC([O-])=O)C([O-])=O" xsd:string + [Term] id: CHEBI:30089 name: acetate @@ -4143,6 +4456,19 @@ synonym: "Nuc" RELATED [CBN] synonym: "standard ribonucleoside residues" RELATED [ChEBI] is_a: CHEBI:33791 ! canonical nucleoside residue +[Term] +id: CHEBI:33793 +name: canonical deoxyribonucleoside residue +namespace: chebi_ontology +subset: 3_STAR +synonym: "canonical deoxyribonucleoside residues" RELATED [ChEBI] +synonym: "common 2'-deoxyribonucleoside residue" RELATED [CBN] +synonym: "common 2'-deoxyribonucleoside residues" RELATED [CBN] +synonym: "dN" RELATED [CBN] +synonym: "dNuc" RELATED [CBN] +synonym: "standard deoxyribonucleoside residues" RELATED [ChEBI] +is_a: CHEBI:33791 ! canonical nucleoside residue + [Term] id: CHEBI:33822 name: organic hydroxy compound @@ -5740,6 +6066,14 @@ subset: 3_STAR synonym: "canonical nucleotide residues" RELATED [ChEBI] is_a: CHEBI:50319 ! nucleotide residue +[Term] +id: CHEBI:50298 +name: canonical deoxyribonucleotide residue +namespace: chebi_ontology +subset: 3_STAR +synonym: "canonical deoxyribonucleotide residues" RELATED [ChEBI] +is_a: CHEBI:50297 ! canonical nucleotide residue + [Term] id: CHEBI:50299 name: canonical ribonucleotide residue @@ -5818,6 +6152,17 @@ def: "Drug used to cause constriction of the blood vessels." [] subset: 3_STAR is_a: CHEBI:35554 ! cardiovascular drug +[Term] +id: CHEBI:50733 +name: nutraceutical +namespace: chebi_ontology +def: "A product in capsule, tablet or liquid form that provide essential nutrients, such as a vitamin, an essential mineral, a protein, an herb, or similar nutritional substance." [] +subset: 3_STAR +synonym: "Dietary Supplement" RELATED [ChEBI] +synonym: "Food Supplementation" RELATED [ChEBI] +synonym: "Nutritional supplement" RELATED [ChEBI] +is_a: CHEBI:23888 ! drug + [Term] id: CHEBI:50860 name: organic molecular entity @@ -6224,6 +6569,22 @@ property_value: http://purl.obolibrary.org/obo/chebi/mass "74.059" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][C@@H]([*])C([O-])=O" xsd:string +[Term] +id: CHEBI:59871 +name: D-alpha-amino acid zwitterion +namespace: chebi_ontology +def: "Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group." [] +subset: 3_STAR +synonym: "a D-alpha-amino acid" RELATED [UniProt] +synonym: "D-alpha-amino acid zwitterions" RELATED [ChEBI] +is_a: CHEBI:35238 ! amino acid zwitterion +relationship: is_tautomer_of CHEBI:16733 ! D-alpha-amino acid +property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "74.059" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "74.02420" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "[NH3+][C@H]([*])C([O-])=O" xsd:string + [Term] id: CHEBI:59999 name: chemical substance @@ -6286,6 +6647,22 @@ relationship: is_tautomer_of CHEBI:16670 ! peptide property_value: http://purl.obolibrary.org/obo/chebi/charge "0" xsd:string property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H4NO2R(C2H2NOR)n" xsd:string +[Term] +id: CHEBI:60895 +name: D-alpha-amino acid anion +namespace: chebi_ontology +def: "Any alpha-amino acid anion in which the parent amino acid has D-configuration." [] +subset: 3_STAR +synonym: "D-alpha-amino acid anions" RELATED [ChEBI] +synonym: "D-alpha-amino carboxylate" RELATED [ChEBI] +is_a: CHEBI:33558 ! alpha-amino-acid anion +relationship: is_conjugate_base_of CHEBI:16733 ! D-alpha-amino acid +property_value: http://purl.obolibrary.org/obo/chebi/charge "-1" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/formula "C2H3NO2R" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/mass "73.051" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/monoisotopicmass "73.01638" xsd:string +property_value: http://purl.obolibrary.org/obo/chebi/smiles "[C@@H](C(=O)[O-])(N)*" xsd:string + [Term] id: CHEBI:61120 name: nucleobase-containing molecular entity @@ -6657,6 +7034,41 @@ subset: 3_STAR synonym: "organic heterobicyclic rings" RELATED [ChEBI] is_a: CHEBI:52845 ! cyclic organic group +[Term] +id: CHEBI:75600 +name: EC 6.3.* (C-N bond-forming ligase) inhibitor +namespace: chebi_ontology +def: "A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*)." [] +subset: 3_STAR +synonym: "C--N bond-forming ligase inhibitor" RELATED [ChEBI] +synonym: "C--N bond-forming ligase inhibitors" RELATED [ChEBI] +synonym: "C-N bond-forming ligase (EC 6.3.*) inhibitor" RELATED [ChEBI] +synonym: "C-N bond-forming ligase (EC 6.3.*) inhibitors" RELATED [ChEBI] +synonym: "C-N bond-forming ligase inhibitor" RELATED [ChEBI] +synonym: "C-N bond-forming ligase inhibitors" RELATED [ChEBI] +synonym: "EC 6.3.* (C-N bond-forming ligase) inhibitorS" RELATED [ChEBI] +synonym: "EC 6.3.* inhibitor" RELATED [ChEBI] +synonym: "EC 6.3.* inhibitors" RELATED [ChEBI] +synonym: "EC 6.3.*.* inhibitor" RELATED [ChEBI] +synonym: "EC 6.3.*.* inhibitors" RELATED [ChEBI] +is_a: CHEBI:75603 ! EC 6.* (ligase) inhibitor + +[Term] +id: CHEBI:75603 +name: EC 6.* (ligase) inhibitor +namespace: chebi_ontology +def: "Any enzyme inhibitor that interferes with the action of a ligase (EC 6.*.*.*). Ligases are enzymes that catalyse the joining of two molecules with concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate." [] +subset: 3_STAR +synonym: "EC 6.* (ligase) inhibitors" RELATED [ChEBI] +synonym: "EC 6.* inhibitor" RELATED [ChEBI] +synonym: "EC 6.* inhibitors" RELATED [ChEBI] +synonym: "EC 6.*.*.* inhibitor" RELATED [ChEBI] +synonym: "EC 6.*.*.* inhibitors" RELATED [ChEBI] +synonym: "ligase inhibitor" RELATED [ChEBI] +synonym: "ligase inhibitors" RELATED [ChEBI] +xref: Wikipedia:Ligase +is_a: CHEBI:23924 ! enzyme inhibitor + [Term] id: CHEBI:75763 name: eukaryotic metabolite @@ -6783,6 +7195,19 @@ synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitor" RELATED synonym: "non-peptide linear amide C-N hydrolase (EC 3.5.1.*) inhibitors" RELATED [ChEBI] is_a: CHEBI:76764 ! EC 3.5.* (hydrolases acting on non-peptide C-N bonds) inhibitor +[Term] +id: CHEBI:76823 +name: EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor +namespace: chebi_ontology +def: "An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*)." [] +subset: 3_STAR +synonym: "acid-ammonia (or amine) ligase inhibitor" RELATED [ChEBI] +synonym: "acid-ammonia (or amine) ligase inhibitors" RELATED [ChEBI] +synonym: "EC 6.3.1.* (acid-ammonia/amine ligase) inhibitors" RELATED [ChEBI] +synonym: "EC 6.3.1.* inhibitor" RELATED [ChEBI] +synonym: "EC 6.3.1.* inhibitors" RELATED [ChEBI] +is_a: CHEBI:75600 ! EC 6.3.* (C-N bond-forming ligase) inhibitor + [Term] id: CHEBI:76924 name: plant metabolite @@ -7025,6 +7450,38 @@ xref: Wikipedia:Proteinogenic_amino_acid is_a: CHEBI:33575 ! carboxylic acid is_a: CHEBI:35352 ! organonitrogen compound +[Term] +id: CHEBI:83820 +name: non-proteinogenic amino acid +namespace: chebi_ontology +def: "Any amino-acid that is not naturally encoded in the genetic code of any organism." [] +subset: 3_STAR +synonym: "non-canonical amino acid" RELATED [ChEBI] +synonym: "non-canonical amino acids" RELATED [ChEBI] +synonym: "non-canonical amino-acid" RELATED [ChEBI] +synonym: "non-canonical amino-acids" RELATED [ChEBI] +synonym: "non-coded amino acid" RELATED [ChEBI] +synonym: "non-coded amino acids" RELATED [ChEBI] +synonym: "non-coded amino-acid" RELATED [ChEBI] +synonym: "non-coded amino-acids" RELATED [ChEBI] +synonym: "non-proteinogenic amino acids" RELATED [ChEBI] +synonym: "non-proteinogenic amino-acid" RELATED [ChEBI] +synonym: "non-proteinogenic amino-acids" RELATED [ChEBI] +xref: Wikipedia:Non-proteinogenic_amino_acids +is_a: CHEBI:33709 ! amino acid + +[Term] +id: CHEBI:83925 +name: non-proteinogenic alpha-amino acid +namespace: chebi_ontology +def: "Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids." [] +subset: 3_STAR +synonym: "non-proteinogenic alpha-amino acids" RELATED [ChEBI] +synonym: "non-proteinogenic alpha-amino-acid" RELATED [ChEBI] +synonym: "non-proteinogenic alpha-amino-acids" RELATED [ChEBI] +is_a: CHEBI:33704 ! alpha-amino acid +is_a: CHEBI:83820 ! non-proteinogenic amino acid + [Term] id: CHEBI:84729 name: hydroxyindoles @@ -7058,6 +7515,7 @@ xref: MESH:D002477 xref: VHOG:0001533 xref: WBbt:0004017 xref: XAO:0003012 +is_a: UBERON:0000061 ! anatomical structure disjoint_from: GO:0031012 ! extracellular matrix disjoint_from: GO:0032991 ! protein-containing complex disjoint_from: GO:0043226 ! organelle @@ -7115,6 +7573,7 @@ is_a: CL:0000333 ! migratory neural crest cell [Term] id: CL:0000014 name: germ line stem cell +def: "A stem cell that is the precursor of gametes." [doi:10.1016/j.stem.2012.05.016] synonym: "germline stem cell" EXACT [] is_a: CL:0000034 {is_inferred="true"} ! stem cell is_a: CL:0000039 {is_inferred="true"} ! germ line cell @@ -7136,6 +7595,7 @@ relationship: capable_of GO:0048477 ! oogenesis [Term] id: CL:0000022 name: female germ line stem cell +def: "A stem cell that is the precursor of female gametes." [doi:10.1016/j.stem.2012.05.016] xref: FBbt:00004873 is_a: CL:0000014 {is_inferred="true"} ! germ line stem cell is_a: CL:0000021 {is_inferred="true"} ! female germ cell @@ -7163,6 +7623,7 @@ name: oogonial cell def: "An undifferentiated germ cell that proliferates rapidly and gives rise to oocytes." [GOC:tfm, ISBN:0721662544] xref: FMA:83673 is_a: CL:0000021 {is_inferred="true"} ! female germ cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000021 ! female germ cell intersection_of: capable_of GO:0000278 ! mitotic cell cycle relationship: capable_of GO:0000278 ! mitotic cell cycle @@ -7181,6 +7642,7 @@ xref: FBbt:00057012 xref: FMA:67343 xref: MA:0000388 xref: MESH:D010063 +is_a: CL:0000548 ! animal cell is_a: CL:0000675 {is_inferred="true"} ! female gamete relationship: develops_from CL:0000023 ! oocyte relationship: participates_in GO:0007143 ! female meiotic nuclear division @@ -7207,12 +7669,12 @@ relationship: develops_from CL:0002676 ! neural crest derived neuroblast id: CL:0000030 name: glioblast is_a: CL:0000055 ! non-terminally differentiated cell +is_a: CL:0000548 ! animal cell relationship: develops_from CL:0000133 ! neurectodermal cell [Term] id: CL:0000031 name: neuroblast (sensu Vertebrata) -alt_id: CL:0000337 def: "A cell that will develop into a neuron often after a migration phase." [GOC:NV, http://en.wikipedia.org/wiki/Neuroblast] synonym: "neuroblast" EXACT [] xref: BTO:0000930 @@ -7264,6 +7726,7 @@ id: CL:0000037 name: hematopoietic stem cell def: "A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119." [GOC:add, GOC:dsd, GOC:tfm, http://en.wikipedia.org/wiki/Hematopoietic_stem_cell, PMID:19022770] comment: Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative. +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "blood forming stem cell" EXACT [] synonym: "colony forming unit hematopoietic" RELATED [] @@ -7281,38 +7744,39 @@ is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0002244 ! hematopoietic progenitor cell differentiation intersection_of: capable_of GO:0048103 ! somatic stem cell division -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: capable_of GO:0002244 ! hematopoietic progenitor cell differentiation +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +relationship: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: develops_from CL:0000566 ! angioblastic mesenchymal cell -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000038 name: erythroid progenitor cell def: "A progenitor cell committed to the erythroid lineage." [GOC:add, ISBN:0721601464] +subset: blood_and_immune_upper_slim synonym: "BFU-E" RELATED [] synonym: "blast forming unit erythroid" RELATED [] synonym: "burst forming unit erythroid" RELATED [] @@ -7330,7 +7794,6 @@ name: germ line cell def: "A cell that is within the developmental lineage of gametes and is able to pass along its genetic material to offspring." [GOC:tfm, ISBN:0721662544] comment: Originally this term had some plant germ line cell children. subset: ubprop:upper_level -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell disjoint_from: CL:0002371 ! somatic cell relationship: capable_of GO:0022414 ! reproductive process @@ -7369,7 +7832,6 @@ comment: These cells are CD11b-negative, CD15-negative, CD16-negative, CD35-nega synonym: "neutrophilic granuloblast" RELATED [] is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000835 {is_inferred="true"} ! myeloblast -is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000835 ! myeloblast intersection_of: capable_of GO:0030223 ! neutrophil differentiation intersection_of: has_part PR:000001944 ! transcription factor PU.1 @@ -7449,7 +7911,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000051 name: common lymphoid progenitor -alt_id: CL:0000044 def: "A oligopotent progenitor cell committed to the lymphoid lineage." [GOC:add, GOC:dsd, GOC:tfm, PMID:10407577, PMID:16551251] comment: CLP are CD7-positive, CD10-positive, CD19-negative, CD34-positive, CD45RA-positive, CD79a-negative, CD127-positive, AA4.1-positive, RAG-negative, Sca-1-low, sIgM-negative, sIgD-negative, TdT-negative, Vpre-B-negative, and pre-BCR-negative. Expression of transcription factors include E2A-positive, EBF-positive, Ikaros-negative, PU.1-negative, and Pax5-negative. subset: human_reference_atlas @@ -7532,6 +7993,7 @@ def: "A cell that has a filiform extrusion of the cell surface." [GOC:tfm] xref: VHOG:0001532 xref: XAO:0000031 is_a: CL:0000003 ! native cell +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000003 ! native cell intersection_of: has_part GO:0005929 ! cilium relationship: has_part GO:0005929 ! cilium @@ -7548,7 +8010,6 @@ xref: CARO:0000077 xref: FBbt:00000124 xref: FMA:66768 xref: WBbt:0003672 -is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 ! animal cell disjoint_from: CL:0000738 ! leukocyte relationship: part_of UBERON:0000483 ! epithelium @@ -7631,7 +8092,6 @@ relationship: develops_from CL:0000357 ! stratified epithelial stem cell id: CL:0000080 name: circulating cell def: "A cell which moves among different tissues of the body, via blood, lymph, or other medium." [GOC:add] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0000179 ! haemolymphatic fluid @@ -7643,7 +8103,6 @@ name: blood cell def: "A cell found predominately in the blood." [GOC:add, GOC:tfm] xref: FMA:62844 xref: MESH:D001773 -is_a: BFO:0000040 ! material entity is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: capable_of GO:0008015 ! blood circulation @@ -7677,8 +8136,6 @@ relationship: part_of UBERON:0001264 ! pancreas [Term] id: CL:0000084 name: T cell -alt_id: CL:0000804 -alt_id: CL:0000812 def: "A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex." [GOC:add, GOC:tfm, ISBN:0781735149] subset: human_reference_atlas synonym: "immature T cell" RELATED [] @@ -7750,19 +8207,19 @@ is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte intersection_of: capable_of GO:0008015 ! blood circulation +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain intersection_of: has_part GO:0030141 ! secretory granule -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain intersection_of: RO:0002104 PR:000001012 ! has plasma membrane part integrin alpha-M intersection_of: RO:0002104 PR:000001332 ! has plasma membrane part carcinoembryonic antigen-related cell adhesion molecule 8 intersection_of: RO:0002104 PR:000001969 ! has plasma membrane part urokinase plasminogen activator surface receptor +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain relationship: has_part GO:0030141 ! secretory granule -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain relationship: RO:0002104 PR:000001012 ! has plasma membrane part integrin alpha-M relationship: RO:0002104 PR:000001332 ! has plasma membrane part carcinoembryonic antigen-related cell adhesion molecule 8 relationship: RO:0002104 PR:000001969 ! has plasma membrane part urokinase plasminogen activator surface receptor @@ -7968,7 +8425,6 @@ is_a: CL:0000221 ! ectodermal cell [Term] id: CL:0000134 name: mesenchymal stem cell -alt_id: CL:0002452 def: "A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs." [FB:ma, GOC:dsd, http://en.wikipedia.org/wiki/Mesenchymal_stem_cell, http://www.copewithcytokines.de/cope.cgi?key=mesenchymal%20stem%20cells, PMCID:PMC2613570, PMID:10102814, PMID:16923606, PMID:17986482, PMID:19960544] comment: Many but not all mesenchymal cells derive from the mesoderm. MSCs are reportedly CD3-negative, CD4-negative, CD5-negative, CD8-negative, CD11a-negative, CD11b-negative, CD14-negative, CD19-negative, CD29-positive, CD31-negative, CD34-negative, CD38-negative, CD40-negative, CD44-positive, CD45-negative, CD49-positive, CD54-positive, CD66b-negative, CD79a-negative, CD80-negative, CD102-positive, CD106-positive, CD117-positive, CD121a-positive, CD121b-positive, CD123-positive, CD124-positive, CD133-negative, CD146-positive, CD166-positive, CD271-positive, B220-negative, Gr1-negative, MHCI-positive, MHCII-negative, SSEA4-negative, sca1-positive, Ter119-negative, and glycophorin A-negative. Cultured MSCs are capable of producing stem cell factor, IL7, IL8, IL11, TGF-beta, cofilin, galectin-1, laminin-receptor 1, cyclophilin A, and MMP-2. synonym: "BMSC" NARROW [] @@ -7993,7 +8449,6 @@ property_value: seeAlso "https://github.com/obophenotype/cell-ontology/issues/47 [Term] id: CL:0000136 name: fat cell -alt_id: CL:0000450 def: "A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides." [MESH:D017667] subset: human_reference_atlas synonym: "adipocyte" EXACT [] @@ -8024,6 +8479,7 @@ id: CL:0000145 name: professional antigen presenting cell def: "A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response." [GOC:add, ISBN:0781735149] comment: Note change of name; nearly all somatic cells can present antigens to T cells via MHC Class I complexes leading to effector responses, but professional antigen presenting cells constitutively express MHC Class II as well as costimulatory molecules, and thus can initiate immune responses via T cells. +subset: blood_and_immune_upper_slim synonym: "APC" BROAD [] is_a: CL:0000738 ! leukocyte intersection_of: CL:0000738 ! leukocyte @@ -8042,7 +8498,6 @@ is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000148 name: melanocyte -alt_id: CL:0000572 def: "A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance." [SANBI:mhl] subset: human_reference_atlas synonym: "melanophore" NARROW [] @@ -8051,7 +8506,6 @@ xref: CALOHA:TS-0613 xref: FMA:70545 xref: MESH:D008544 xref: VHOG:0001679 -is_a: BFO:0000004 ! independent continuant is_a: CL:0000147 {is_inferred="true"} ! pigment cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000147 ! pigment cell @@ -8066,6 +8520,7 @@ id: CL:0000149 name: visual pigment cell synonym: "pigment cell" BROAD [] is_a: CL:0000147 ! pigment cell +is_a: CL:0000548 ! animal cell [Term] id: CL:0000150 @@ -8085,7 +8540,6 @@ def: "A cell that specializes in controlled release of one or more substances." subset: human_reference_atlas xref: BTO:0003659 xref: FMA:86916 -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0032940 ! secretion by cell @@ -8098,6 +8552,7 @@ name: exocrine cell def: "A cell of an exocrine gland; i.e. a gland that discharges its secretion via a duct." [ISBN:0198547684] xref: FMA:16014 is_a: CL:0000151 ! secretory cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002365 ! exocrine gland relationship: part_of UBERON:0002365 ! exocrine gland @@ -8170,10 +8625,11 @@ subset: human_reference_atlas synonym: "endocrinocyte" EXACT [] xref: FMA:83809 is_a: CL:0000151 ! secretory cell -intersection_of: CL:0000151 ! secretory cell -intersection_of: capable_of GO:0060986 ! endocrine hormone secretion -relationship: capable_of GO:0060986 ! endocrine hormone secretion -relationship: part_of UBERON:0002368 ! endocrine gland +is_a: CL:0000164 {gci_relation="part_of", gci_filler="UBERON:0000945"} ! enteroendocrine cell +is_a: CL:0000164 {gci_filler="UBERON:0000160", gci_relation="part_of"} ! enteroendocrine cell +is_a: CL:0000164 {gci_filler="UBERON:0001264", gci_relation="part_of"} ! enteroendocrine cell +is_a: CL:0000548 ! animal cell +relationship: part_of UBERON:0000949 ! endocrine system property_value: RO:0002175 NCBITaxon:9606 [Term] @@ -8189,7 +8645,6 @@ is_a: CL:0000163 ! endocrine cell [Term] id: CL:0000165 name: neuroendocrine cell -alt_id: CL:0000381 def: "A neuron that is capable of some hormone secretion in response to neuronal signals." [MESH:D055099] comment: The neurosecretory cell is neither an ordinary neuron nor an endocrine cell, but a combination of both. Its neuronal features resemble those of ordinary neurons concerning both structure and function. The production of a visible secretory material marks the neurosecretory neuron as a gland cell, and the fact that extractable cellular products act in the manner of hormones places it in the realm of endocrine elements. \n\nThe modern definition of neurosecretion has evolved to include the release of any neuronal secretory product from a neuron. {xref="https://www.clinicalkey.com/#!/content/book/3-s2.0-B9780323555968000073", xref="PMID:5342440"} subset: human_reference_atlas @@ -8244,8 +8699,6 @@ xref: EV:0200009 xref: FMA:70586 xref: MA:0002419 xref: ncithesaurus:Beta_Cell -is_a: CL:0000083 ! epithelial cell of pancreas -is_a: CL:0000164 {is_inferred="true"} ! enteroendocrine cell is_a: CL:0000168 {is_inferred="true"} ! insulin secreting cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000164 ! enteroendocrine cell @@ -8276,7 +8729,6 @@ synonym: "pancreatic alpha cell" EXACT [] xref: BTO:0000990 xref: FMA:70585 xref: MESH:D050416 -is_a: CL:0000083 ! epithelial cell of pancreas is_a: CL:0002067 ! type A enteroendocrine cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0002067 ! type A enteroendocrine cell @@ -8306,7 +8758,6 @@ synonym: "pancreatic delta cell" EXACT [] synonym: "somatostatin-secreting pancreatic cell" EXACT [] xref: BTO:0000803 xref: FMA:70587 -is_a: CL:0000083 ! epithelial cell of pancreas is_a: CL:0000502 ! type D enteroendocrine cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000502 ! type D enteroendocrine cell @@ -8318,7 +8769,7 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000174 name: steroid hormone secreting cell -is_a: CL:0000163 ! endocrine cell +is_a: CL:0000151 ! secretory cell intersection_of: CL:0000151 ! secretory cell intersection_of: capable_of GO:0035929 ! steroid hormone secretion relationship: capable_of GO:0035929 ! steroid hormone secretion @@ -8332,7 +8783,6 @@ subset: human_reference_atlas xref: BTO:0000575 xref: CALOHA:TS-0454 xref: FMA:14515 -is_a: BFO:0000040 ! material entity is_a: CL:0000066 ! epithelial cell is_a: CL:0000417 ! endopolyploid cell is_a: CL:0002371 ! somatic cell @@ -8360,10 +8810,8 @@ xref: CALOHA:TS-2032 xref: FBbt:00005074 xref: FMA:67328 xref: WBbt:0003675 -is_a: BFO:0000004 ! independent continuant is_a: CL:0000183 ! contractile cell is_a: CL:0000393 ! electrically responsive cell -is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell relationship: develops_from CL:0000056 ! myoblast @@ -8376,7 +8824,6 @@ synonym: "skeletal muscle cell" EXACT [] xref: BTO:0004392 xref: CALOHA:TS-2158 xref: FMA:9727 -is_a: BFO:0000004 ! independent continuant is_a: CL:0002371 ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0001134 ! skeletal muscle tissue @@ -8386,7 +8833,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000192 name: smooth muscle cell -alt_id: CL:0000191 def: "A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast)." [http://en.wikipedia.org/wiki/Smooth_muscle_cell, MESH:D032389, PMID:9315361] subset: human_reference_atlas synonym: "myocytes, smooth muscle" EXACT [MESH:D032389] @@ -8407,7 +8853,6 @@ name: sensory receptor cell def: "A cell that is capable of detection of a stimulus involved in sensory perception." [] synonym: "receptor cell" EXACT [] xref: MESH:D011984 -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000000 ! cell intersection_of: capable_of GO:0050906 ! detection of stimulus involved in sensory perception @@ -8504,7 +8949,6 @@ relationship: develops_from CL:0002377 ! immature Schwann cell id: CL:0000219 name: motile cell def: "A cell that moves by its own activities." [FB:ma] -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0048870 ! cell motility @@ -8516,7 +8960,6 @@ name: ectodermal cell def: "A cell of the outer of the three germ layers of the embryo." [MESH:D004475] synonym: "ectoderm cell" EXACT [] xref: FMA:72549 -is_a: BFO:0000004 ! independent continuant is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000924 ! ectoderm @@ -8527,7 +8970,6 @@ def: "A cell of the middle germ layer of the embryo." [MESH:D008648] synonym: "mesoblast" EXACT [] synonym: "mesoderm cell" EXACT [] xref: FMA:72554 -is_a: BFO:0000004 ! independent continuant is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000926 ! mesoderm @@ -8537,7 +8979,6 @@ name: endodermal cell def: "A cell of the inner of the three germ layers of the embryo." [MESH:D004707] synonym: "endoderm cell" EXACT [] xref: FMA:72555 -is_a: BFO:0000004 ! independent continuant is_a: CL:0002321 ! embryonic cell (metazoa) relationship: part_of UBERON:0000925 ! endoderm @@ -8588,6 +9029,7 @@ relationship: bearer_of PATO:0001908 ! multinucleate id: CL:0000232 name: erythrocyte def: "A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen." [GOC:tfm, MESH:D004912] +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "RBC" EXACT [] synonym: "red blood cell" EXACT [] @@ -8601,12 +9043,12 @@ intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002039 ! biconcave intersection_of: capable_of GO:0008015 ! blood circulation intersection_of: capable_of GO:0015671 ! oxygen transport -intersection_of: lacks_part GO:0005840 ! ribosome -intersection_of: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 +intersection_of: CL:4030045 GO:0005840 ! lacks_part ribosome +intersection_of: CL:4030046 PR:000001945 ! lacks_plasma_membrane_part transferrin receptor protein 1 relationship: bearer_of PATO:0002039 ! biconcave +relationship: CL:4030045 GO:0005840 ! lacks_part ribosome +relationship: CL:4030046 PR:000001945 ! lacks_plasma_membrane_part transferrin receptor protein 1 relationship: develops_from CL:0000558 ! reticulocyte -relationship: lacks_part GO:0005840 ! ribosome -relationship: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 property_value: RO:0002175 NCBITaxon:9606 [Term] @@ -8619,6 +9061,7 @@ xref: MESH:D010586 is_a: CL:0000219 ! motile cell is_a: CL:0000325 ! stuff accumulating cell is_a: CL:0000473 ! defensive cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0006909 ! phagocytosis relationship: capable_of GO:0006909 ! phagocytosis @@ -8628,6 +9071,7 @@ id: CL:0000235 name: macrophage def: "A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells." [GO_REF:0000031, GOC:add, GOC:tfm, PMID:16213494, PMID:1919437] comment: Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid. +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "histiocyte" EXACT [] xref: BTO:0000801 @@ -8733,7 +9177,6 @@ is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000307 name: tracheal epithelial cell -alt_id: CL:1000474 def: "An epithelial cell found in the trachea." [GOC:tfm] comment: This class is for the vertebrate tracheal structure. For the analagous insect cell type, see 'respiratory tube epithelial cell' synonym: "tracheocyte" EXACT [] @@ -8753,7 +9196,6 @@ is_a: CL:0000325 ! stuff accumulating cell [Term] id: CL:0000312 name: keratinocyte -alt_id: CL:0002185 def: "An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell." [GOC:dsd, http://en.wikipedia.org/wiki/Keratinocyte, MESH:D015603, PMID:15582983, PMID:15749908, PMID:19727116] comment: Keratinocytes are reportedly CDw210a-negative, CDw210b-positive, CD281-positive, CD282-positive, CD285-positive, IL22Ra1-positive, Human keratinocytes are reportedly capable of secreting BD-2, BD-3, hCAP-18, CXCL1, CXCL5, CXCL8, elafin, MMP-3, NGAL, PDGF-A, S100A7, S100A8, and S100A9. Transcription factors: STAT3-positive. subset: human_reference_atlas @@ -8762,7 +9204,6 @@ synonym: "malpighian cell" EXACT [] xref: BTO:0000667 xref: CALOHA:TS-0500 xref: FMA:62879 -is_a: BFO:0000040 ! material entity is_a: CL:0000237 {is_inferred="true"} ! keratinizing barrier epithelial cell is_a: CL:0000362 {is_inferred="true"} ! epidermal cell intersection_of: CL:0000237 ! keratinizing barrier epithelial cell @@ -8809,7 +9250,6 @@ is_a: CL:0000499 ! stromal cell [Term] id: CL:0000329 name: oxygen accumulating cell -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0015671 ! oxygen transport @@ -8845,8 +9285,8 @@ is_a: CL:0011026 ! progenitor cell id: CL:0000347 name: scleral cell def: "A cell of the sclera of the eye." [GOC:add] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000293 ! structural cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001773 ! sclera relationship: develops_from CL:0000008 ! migratory cranial neural crest cell @@ -8856,8 +9296,8 @@ relationship: part_of UBERON:0001773 ! sclera id: CL:0000348 name: choroidal cell of the eye def: "A cell of the choroid of the eye." [GOC:add] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000293 ! structural cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000293 ! structural cell intersection_of: part_of UBERON:0001776 ! optic choroid relationship: develops_from CL:0000008 ! migratory cranial neural crest cell @@ -8866,8 +9306,6 @@ relationship: part_of UBERON:0001776 ! optic choroid [Term] id: CL:0000349 name: extraembryonic cell -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0000478 ! extraembryonic structure @@ -8938,7 +9376,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000362 name: epidermal cell -alt_id: CL:1000396 def: "An epithelial cell of the integument (the outer layer of an organism)." [Flybase:dsj, MA:ma] synonym: "cell of epidermis" EXACT [FMA:62411] synonym: "epithelial cell of skin" NARROW [FMA:62411] @@ -9054,21 +9491,21 @@ intersection_of: capable_of GO:0001816 ! cytokine production intersection_of: capable_of GO:0002504 ! antigen processing and presentation of peptide or polysaccharide antigen via MHC class II intersection_of: capable_of GO:0019882 ! antigen processing and presentation intersection_of: capable_of GO:0045580 ! regulation of T cell differentiation +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 intersection_of: has_part GO:0042613 ! MHC class II protein complex -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 disjoint_from: CL:0000542 ! lymphocyte relationship: capable_of GO:0001816 ! cytokine production relationship: capable_of GO:0045580 ! regulation of T cell differentiation +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 relationship: has_part GO:0042613 ! MHC class II protein complex -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 property_value: RO:0002175 NCBITaxon:9606 [Term] @@ -9170,7 +9607,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000513 name: cardiac muscle myoblast -alt_id: CL:0000714 def: "A precursor cell destined to differentiate into cardiac muscle cell." [GOC:tfm, MESH:D032386] synonym: "cardiac muscle progenitor cell" EXACT [] synonym: "cardiomyocyte progenitor cell" EXACT [] @@ -9274,7 +9710,6 @@ xref: FBbt:00005106 xref: FMA:54527 xref: VHOG:0001483 xref: WBbt:0003679 -is_a: BFO:0000040 ! material entity is_a: CL:0000393 ! electrically responsive cell is_a: CL:0000404 ! electrically signaling cell is_a: CL:0002319 ! neural cell @@ -9306,6 +9741,7 @@ xref: FMA:62863 xref: MESH:D008214 xref: VHOG:0001535 is_a: CL:0000842 ! mononuclear cell +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate intersection_of: has_part CL:0017500 ! neutrophillic cytoplasm @@ -9322,43 +9758,45 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000547 name: proerythroblast def: "An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers." [ISBN:0721601464, MESH:A11.118.290.350.200, PMID:1638021] +subset: blood_and_immune_upper_slim synonym: "pronormoblast" RELATED [] synonym: "rubriblast" EXACT [ISBN:0721601464] xref: FMA:83518 is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0002242 ! nucleate cell +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: bearer_of PATO:0002505 ! nucleated +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part CL:0017505 ! increased nucleus size intersection_of: has_part GO:0005730 ! nucleolus -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G relationship: develops_from CL:0000038 ! erythroid progenitor cell relationship: has_part CL:0017503 ! basophilic cytoplasm relationship: has_part CL:0017505 ! increased nucleus size relationship: has_part GO:0005730 ! nucleolus -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] @@ -9456,40 +9894,41 @@ is_a: CL:0000839 {is_inferred="true"} ! myeloid lineage restricted progenitor ce intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell intersection_of: capable_of GO:0007113 ! endomitotic cell cycle intersection_of: capable_of GO:0030219 ! megakaryocyte differentiation -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: capable_of GO:0007113 ! endomitotic cell cycle relationship: capable_of GO:0030219 ! megakaryocyte differentiation +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +relationship: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: develops_from CL:0000050 ! megakaryocyte-erythroid progenitor cell -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000556 name: megakaryocyte -def: "A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm." [http://en.wikipedia.org/wiki/Megakaryocyte, ISBN:0721601464, MESH:D008533] +def: "A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release." [http://en.wikipedia.org/wiki/Megakaryocyte, ISBN:0721601464, MESH:D008533, PMID:31043076] comment: Megakaryocytes are reportedly CD181-positive and CD182-positive. +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "megacaryocyte" EXACT [] synonym: "megalocaryocyte" EXACT [] @@ -9498,10 +9937,7 @@ xref: BTO:0000843 xref: CALOHA:TS-0611 xref: FMA:83555 is_a: CL:0000763 {is_inferred="true"} ! myeloid cell -is_a: CL:1001610 ! bone marrow hematopoietic cell -intersection_of: CL:0000763 ! myeloid cell -intersection_of: bearer_of PATO:0001393 ! euploid -intersection_of: part_of UBERON:0002371 ! bone marrow +is_a: CL:4033018 {gci_relation="part_of", gci_filler="UBERON:0000114"} ! lung megakaryocyte disjoint_from: CL:0000764 ! erythroid lineage cell relationship: bearer_of PATO:0001393 ! euploid relationship: develops_from CL:0000553 ! megakaryocyte progenitor cell @@ -9528,18 +9964,18 @@ is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: capable_of GO:0030225 ! macrophage differentiation intersection_of: capable_of GO:0030851 ! granulocyte differentiation +intersection_of: CL:4030045 PR:000007857 ! lacks_part erythroid transcription factor +intersection_of: CL:4030045 PR:000007858 ! lacks_part endothelial transcription factor GATA-2 intersection_of: has_part PR:000001944 ! transcription factor PU.1 intersection_of: has_part PR:000005307 ! CCAAT/enhancer-binding protein alpha -intersection_of: lacks_part PR:000007857 ! erythroid transcription factor -intersection_of: lacks_part PR:000007858 ! endothelial transcription factor GATA-2 intersection_of: part_of UBERON:0002371 ! bone marrow intersection_of: RO:0002104 PR:000001865 ! has plasma membrane part interleukin-3 receptor class 2 alpha chain relationship: capable_of GO:0030225 ! macrophage differentiation relationship: capable_of GO:0030851 ! granulocyte differentiation +relationship: CL:4030045 PR:000007857 ! lacks_part erythroid transcription factor +relationship: CL:4030045 PR:000007858 ! lacks_part endothelial transcription factor GATA-2 relationship: has_part PR:000001944 ! transcription factor PU.1 relationship: has_part PR:000005307 ! CCAAT/enhancer-binding protein alpha -relationship: lacks_part PR:000007857 ! erythroid transcription factor -relationship: lacks_part PR:000007858 ! endothelial transcription factor GATA-2 relationship: RO:0002104 PR:000001865 ! has plasma membrane part interleukin-3 receptor class 2 alpha chain property_value: RO:0002175 NCBITaxon:9606 @@ -9547,6 +9983,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000558 name: reticulocyte def: "An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds." [GOC:add, GOC:tfm, PMID:15946868, PMID:2037622] +subset: blood_and_immune_upper_slim xref: BTO:0001173 xref: CALOHA:TS-0864 xref: MESH:D012156 @@ -9554,31 +9991,31 @@ is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0071971 ! extracellular exosome assembly -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: capable_of GO:0071971 ! extracellular exosome assembly +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G relationship: develops_from CL:0000552 ! orthochromatic erythroblast -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] @@ -9625,19 +10062,19 @@ is_a: CL:0000834 ! neutrophil progenitor cell is_a: CL:0000836 {is_inferred="true"} ! promyelocyte intersection_of: CL:0000836 ! promyelocyte intersection_of: capable_of GO:0030223 ! neutrophil differentiation +intersection_of: CL:4030045 PR:000009978 ! lacks_part lactotransferrin intersection_of: has_part PR:000001944 ! transcription factor PU.1 intersection_of: has_part PR:000005307 ! CCAAT/enhancer-binding protein alpha intersection_of: has_part PR:000007857 ! erythroid transcription factor intersection_of: has_part PR:000010543 ! myeloperoxidase intersection_of: has_part PR:000014362 ! runt-related transcription factor 1 -intersection_of: lacks_part PR:000009978 ! lactotransferrin +relationship: CL:4030045 PR:000009978 ! lacks_part lactotransferrin relationship: develops_from CL:0000042 ! neutrophilic myeloblast relationship: has_part PR:000001944 ! transcription factor PU.1 relationship: has_part PR:000005307 ! CCAAT/enhancer-binding protein alpha relationship: has_part PR:000007857 ! erythroid transcription factor relationship: has_part PR:000010543 ! myeloperoxidase relationship: has_part PR:000014362 ! runt-related transcription factor 1 -relationship: lacks_part PR:000009978 ! lactotransferrin [Term] id: CL:0000566 @@ -9683,7 +10120,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000575 name: corneal epithelial cell -alt_id: CL:1000431 def: "An epithelial cell of the cornea." [GOC:tfm] subset: human_reference_atlas synonym: "epithelial cell of cornea" EXACT [FMA:70551] @@ -9702,6 +10138,7 @@ id: CL:0000576 name: monocyte def: "Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells." [GO_REF:0000031, MESH:D009000] comment: Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid. +subset: blood_and_immune_upper_slim subset: human_reference_atlas xref: BTO:0000876 xref: CALOHA:TS-0638 @@ -9825,6 +10262,7 @@ synonym: "primitive germ cell" EXACT [] xref: FMA:70567 is_a: CL:0000039 {is_inferred="true"} ! germ line cell is_a: CL:0000219 {is_inferred="true"} ! motile cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000039 ! germ line cell intersection_of: capable_of GO:0048870 ! cell motility intersection_of: part_of UBERON:0000922 ! embryo @@ -10015,6 +10453,15 @@ intersection_of: RO:0002100 UBERON:0000966 ! has soma location retina relationship: RO:0002100 UBERON:0000966 ! has soma location retina property_value: RO:0002175 NCBITaxon:9606 +[Term] +id: CL:0000752 +name: cone retinal bipolar cell +def: "A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer." [PMID:14689473] +is_a: CL:0000748 ! retinal bipolar neuron +intersection_of: CL:0000748 ! retinal bipolar neuron +intersection_of: synapsed_by CL:0000573 ! retinal cone cell +relationship: synapsed_by CL:0000573 ! retinal cone cell + [Term] id: CL:0000763 name: myeloid cell @@ -10023,7 +10470,6 @@ subset: human_reference_atlas xref: BTO:0001441 xref: CALOHA:TS-0647 xref: MESH:D022423 -is_a: BFO:0000004 ! independent continuant is_a: CL:0000988 {is_inferred="true"} ! hematopoietic cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: develops_from CL:0000049 ! common myeloid progenitor @@ -10033,7 +10479,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:0000764 name: erythroid lineage cell -alt_id: CL:0002156 def: "A immature or mature cell in the lineage leading to and including erythrocytes." [GOC:add, GOC:tfm] comment: Note that in FMA erythropoietic cells are types of nucleated erythrocytes and thus don't include erythrocytes. subset: human_reference_atlas @@ -10048,6 +10493,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:0000765 name: erythroblast def: "A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers." [GOC:add, ISBN:0721601464, PMID:18174176] +subset: blood_and_immune_upper_slim synonym: "normoblast" EXACT [] xref: BTO:0001571 xref: CALOHA:TS-0289 @@ -10057,34 +10503,34 @@ is_a: CL:0000764 {is_inferred="true"} ! erythroid lineage cell is_a: CL:0011026 ! progenitor cell intersection_of: CL:0000764 ! erythroid lineage cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation +intersection_of: CL:4030045 GO:0005730 ! lacks_part nucleolus +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G intersection_of: has_part GO:0005634 ! nucleus -intersection_of: lacks_part GO:0005730 ! nucleolus -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G relationship: capable_of GO:0030218 ! erythrocyte differentiation +relationship: CL:4030045 GO:0005730 ! lacks_part nucleolus +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G relationship: develops_from CL:0000547 ! proerythroblast relationship: has_part GO:0005634 ! nucleus -relationship: lacks_part GO:0005730 ! nucleolus -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G [Term] id: CL:0000766 @@ -10099,6 +10545,7 @@ intersection_of: develops_from CL:0000049 ! common myeloid progenitor id: CL:0000775 name: neutrophil def: "Any of the immature or mature forms of a granular leukocyte that in its mature form has a nucleus with three to five lobes connected by slender threads of chromatin, and cytoplasm containing fine inconspicuous granules and stainable by neutral dyes." [GOC:add, GOC:amm, GOC:tfm, ISBN:0721601464] +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "neutrocyte" EXACT [] synonym: "neutrophil leucocyte" EXACT [] @@ -10178,10 +10625,10 @@ xref: BTO:0004721 is_a: CL:0000766 ! myeloid leukocyte is_a: CL:0000990 {is_inferred="true"} ! conventional dendritic cell intersection_of: CL:0000990 ! conventional dendritic cell +intersection_of: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain intersection_of: develops_from CL:0000763 ! myeloid cell -intersection_of: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain +relationship: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain relationship: develops_from CL:0000763 ! myeloid cell -relationship: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain [Term] id: CL:0000827 @@ -10218,16 +10665,17 @@ xref: BTO:0000187 xref: FMA:83524 is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 {is_inferred="true"} ! granulocytopoietic cell +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002191 ! granulocytopoietic cell +intersection_of: CL:4030045 GO:0042582 ! lacks_part azurophil granule intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part CL:0017505 ! increased nucleus size intersection_of: has_part GO:0000791 ! euchromatin -intersection_of: lacks_part GO:0042582 ! azurophil granule +relationship: CL:4030045 GO:0042582 ! lacks_part azurophil granule relationship: develops_from CL:0000557 ! granulocyte monocyte progenitor cell relationship: has_part CL:0017503 ! basophilic cytoplasm relationship: has_part CL:0017505 ! increased nucleus size relationship: has_part GO:0000791 ! euchromatin -relationship: lacks_part GO:0042582 ! azurophil granule [Term] id: CL:0000836 @@ -10240,23 +10688,23 @@ is_a: CL:0000763 ! myeloid cell is_a: CL:0002191 ! granulocytopoietic cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000839 ! myeloid lineage restricted progenitor cell +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001483 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor III +intersection_of: CL:4030046 PR:000001932 ! lacks_plasma_membrane_part signal transducer CD24 intersection_of: has_part CL:0017503 ! basophilic cytoplasm intersection_of: has_part CL:0017505 ! increased nucleus size intersection_of: has_part GO:0005730 ! nucleolus intersection_of: has_part GO:0042582 ! azurophil granule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001483 ! low affinity immunoglobulin gamma Fc region receptor III -intersection_of: lacks_plasma_membrane_part PR:000001932 ! signal transducer CD24 intersection_of: RO:0002104 PR:000001456 ! has plasma membrane part alpha-(1,3)-fucosyltransferase 4 intersection_of: RO:0002104 PR:000001892 ! has plasma membrane part CD33 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001483 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor III +relationship: CL:4030046 PR:000001932 ! lacks_plasma_membrane_part signal transducer CD24 relationship: develops_from CL:0000835 ! myeloblast relationship: has_part CL:0017503 ! basophilic cytoplasm relationship: has_part CL:0017505 ! increased nucleus size relationship: has_part GO:0005730 ! nucleolus relationship: has_part GO:0042582 ! azurophil granule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001483 ! low affinity immunoglobulin gamma Fc region receptor III -relationship: lacks_plasma_membrane_part PR:000001932 ! signal transducer CD24 relationship: RO:0002104 PR:000001456 ! has plasma membrane part alpha-(1,3)-fucosyltransferase 4 relationship: RO:0002104 PR:000001892 ! has plasma membrane part CD33 molecule property_value: RO:0002175 NCBITaxon:9606 @@ -10266,45 +10714,46 @@ id: CL:0000837 name: hematopoietic multipotent progenitor cell def: "A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans." [GOC:add, GOC:tfm, PMID:19022770] comment: Markers differ between mouse and human. +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "hemopoietic progenitor cell" EXACT [] synonym: "MPP" EXACT [] xref: BTO:0000725 xref: CALOHA:TS-0448 -is_a: BFO:0000004 ! independent continuant is_a: CL:0008001 ! hematopoietic precursor cell +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001402 ! multipotent -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule disjoint_from: CL:0002032 ! hematopoietic oligopotent progenitor cell relationship: bearer_of PATO:0001402 ! multipotent +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +relationship: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: develops_from CL:0000037 ! hematopoietic stem cell -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule property_value: RO:0002175 NCBITaxon:9606 @@ -10343,6 +10792,7 @@ relationship: capable_of GO:0030099 ! myeloid cell differentiation id: CL:0000842 name: mononuclear cell def: "A leukocyte with a single non-segmented nucleus in the mature form." [GOC:add] +subset: blood_and_immune_upper_slim synonym: "mononuclear leukocyte" EXACT [] synonym: "peripheral blood mononuclear cell" NARROW [] xref: BTO:0000878 @@ -10353,6 +10803,22 @@ is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte intersection_of: bearer_of PATO:0001407 ! mononucleate +[Term] +id: CL:0000850 +name: serotonergic neuron +def: "A neuron that releases serotonin as a neurotransmitter." [SANBI:mhl] +synonym: "5-HT neuron" EXACT [] +synonym: "5-hydroxytryptamine neuron" EXACT [] +synonym: "serotinergic neuron" RELATED [] +xref: FBbt:00005133 +xref: MESH:D059326 +xref: WBbt:0006837 +is_a: CL:0000458 ! serotonin secreting cell +is_a: CL:0000540 ! neuron +intersection_of: CL:0000540 ! neuron +intersection_of: capable_of GO:0060096 ! serotonin secretion, neurotransmission +relationship: capable_of GO:0060096 ! serotonin secretion, neurotransmission + [Term] id: CL:0000864 name: tissue-resident macrophage @@ -10382,6 +10848,7 @@ id: CL:0000889 name: myeloid suppressor cell def: "An immature myeloid leukocyte of heterogeneous phenotype found particularly in cancer and sepsis patients that is capable of suppressing activity of T cells in ex vivo assays. This cell type is CD45-positive, CD11b-positive." [GO_REF:0000031, GOC:add, GOC:ana, PMID:16168663, PMID:17016554, PMID:17016559] comment: Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. +subset: blood_and_immune_upper_slim is_a: CL:0000766 {is_inferred="true"} ! myeloid leukocyte is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000766 ! myeloid leukocyte @@ -10405,7 +10872,6 @@ xref: BTO:0000574 xref: CALOHA:TS-2017 xref: FMA:70366 xref: FMA:83598 -is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell [Term] @@ -10413,6 +10879,7 @@ id: CL:0000990 name: conventional dendritic cell def: "Conventional dendritic cell is a dendritic cell that is CD11c-high." [GO_REF:0000031, GOC:amm, PMID:17850486] comment: Originally described in the dendritic cell ontology (DC_CL:0000003)(PMID:19243617) These cells are also CD20-negative, MHCII-positive. +subset: blood_and_immune_upper_slim subset: human_reference_atlas synonym: "cDC" EXACT [] synonym: "DC1" EXACT [] @@ -10446,23 +10913,23 @@ synonym: "Sca1-positive hematopoietic stem cell" EXACT [] is_a: CL:0000037 {is_inferred="true"} ! hematopoietic stem cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000037 ! hematopoietic stem cell -intersection_of: lacks_plasma_membrane_part PR:000001014 ! receptor-type tyrosine-protein phosphatase C isoform CD45RABC -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001308 ! CD48 molecule -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000001896 ! natural killer cell receptor 2B4 -intersection_of: lacks_plasma_membrane_part PR:000002977 ! killer cell lectin-like receptor subfamily B member 1C -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001014 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RABC +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001308 ! lacks_plasma_membrane_part CD48 molecule +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000001896 ! lacks_plasma_membrane_part natural killer cell receptor 2B4 +intersection_of: CL:4030046 PR:000002977 ! lacks_plasma_membrane_part killer cell lectin-like receptor subfamily B member 1C +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) intersection_of: RO:0002104 PR:000001833 ! has plasma membrane part SLAM family member 1 intersection_of: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor intersection_of: RO:0002104 PR:000002979 ! has plasma membrane part lymphocyte antigen 6A-2/6E-1 disjoint_from: CL:0001024 ! CD34-positive, CD38-negative hematopoietic stem cell -relationship: lacks_plasma_membrane_part PR:000001014 ! receptor-type tyrosine-protein phosphatase C isoform CD45RABC -relationship: lacks_plasma_membrane_part PR:000001308 ! CD48 molecule -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000001896 ! natural killer cell receptor 2B4 -relationship: lacks_plasma_membrane_part PR:000002977 ! killer cell lectin-like receptor subfamily B member 1C +relationship: CL:4030046 PR:000001014 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RABC +relationship: CL:4030046 PR:000001308 ! lacks_plasma_membrane_part CD48 molecule +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000001896 ! lacks_plasma_membrane_part natural killer cell receptor 2B4 +relationship: CL:4030046 PR:000002977 ! lacks_plasma_membrane_part killer cell lectin-like receptor subfamily B member 1C relationship: RO:0002104 PR:000001833 ! has plasma membrane part SLAM family member 1 relationship: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor relationship: RO:0002104 PR:000002979 ! has plasma membrane part lymphocyte antigen 6A-2/6E-1 @@ -10532,19 +10999,19 @@ xref: FMA:86475 is_a: CL:0000037 {is_inferred="true"} ! hematopoietic stem cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000037 ! hematopoietic stem cell -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001408 ! ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 -intersection_of: lacks_plasma_membrane_part PR:000001483 ! low affinity immunoglobulin gamma Fc region receptor III -intersection_of: lacks_plasma_membrane_part PR:000001892 ! CD33 molecule -intersection_of: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001408 ! lacks_plasma_membrane_part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 +intersection_of: CL:4030046 PR:000001483 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor III +intersection_of: CL:4030046 PR:000001892 ! lacks_plasma_membrane_part CD33 molecule +intersection_of: CL:4030046 PR:000001945 ! lacks_plasma_membrane_part transferrin receptor protein 1 intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001786 ! has plasma membrane part prominin-1 intersection_of: RO:0002104 PR:000001809 ! has plasma membrane part CD59-like glycoprotein intersection_of: RO:0002104 PR:000001843 ! has plasma membrane part Thy-1 membrane glycoprotein -relationship: lacks_plasma_membrane_part PR:000001408 ! ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 -relationship: lacks_plasma_membrane_part PR:000001483 ! low affinity immunoglobulin gamma Fc region receptor III -relationship: lacks_plasma_membrane_part PR:000001892 ! CD33 molecule -relationship: lacks_plasma_membrane_part PR:000001945 ! transferrin receptor protein 1 +relationship: CL:4030046 PR:000001408 ! lacks_plasma_membrane_part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 +relationship: CL:4030046 PR:000001483 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor III +relationship: CL:4030046 PR:000001892 ! lacks_plasma_membrane_part CD33 molecule +relationship: CL:4030046 PR:000001945 ! lacks_plasma_membrane_part transferrin receptor protein 1 relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule relationship: RO:0002104 PR:000001786 ! has plasma membrane part prominin-1 relationship: RO:0002104 PR:000001809 ! has plasma membrane part CD59-like glycoprotein @@ -10559,17 +11026,17 @@ synonym: "CD71-positive common myeloid precursor" NARROW [] is_a: CL:0000995 ! CD34-positive, CD38-positive common myeloid progenitor OR CD34-positive, CD38-positive common lymphoid progenitor is_a: CL:0001059 ! common myeloid progenitor, CD34-positive intersection_of: CL:0001059 ! common myeloid progenitor, CD34-positive -intersection_of: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -intersection_of: lacks_plasma_membrane_part PR:000001836 ! CD7 molecule -intersection_of: lacks_plasma_membrane_part PR:000001867 ! interleukin-5 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000001898 ! neprilysin +intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +intersection_of: CL:4030046 PR:000001836 ! lacks_plasma_membrane_part CD7 molecule +intersection_of: CL:4030046 PR:000001867 ! lacks_plasma_membrane_part interleukin-5 receptor subunit alpha +intersection_of: CL:4030046 PR:000001898 ! lacks_plasma_membrane_part neprilysin intersection_of: RO:0002104 PR:000001408 ! has plasma membrane part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 intersection_of: RO:0015016 PR:000001865 ! has low plasma membrane amount interleukin-3 receptor class 2 alpha chain +relationship: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +relationship: CL:4030046 PR:000001836 ! lacks_plasma_membrane_part CD7 molecule +relationship: CL:4030046 PR:000001867 ! lacks_plasma_membrane_part interleukin-5 receptor subunit alpha +relationship: CL:4030046 PR:000001898 ! lacks_plasma_membrane_part neprilysin relationship: develops_from CL:0002043 ! CD34-positive, CD38-negative multipotent progenitor cell -relationship: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -relationship: lacks_plasma_membrane_part PR:000001836 ! CD7 molecule -relationship: lacks_plasma_membrane_part PR:000001867 ! interleukin-5 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000001898 ! neprilysin relationship: RO:0002104 PR:000001408 ! has plasma membrane part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 relationship: RO:0015016 PR:000001865 ! has low plasma membrane amount interleukin-3 receptor class 2 alpha chain @@ -10583,12 +11050,12 @@ is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor is_a: CL:0001012 ! CD7-negative lymphoid progenitor OR granulocyte monocyte progenitor is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor -intersection_of: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -intersection_of: lacks_plasma_membrane_part PR:000001836 ! CD7 molecule +intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +intersection_of: CL:4030046 PR:000001836 ! lacks_plasma_membrane_part CD7 molecule intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule +relationship: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +relationship: CL:4030046 PR:000001836 ! lacks_plasma_membrane_part CD7 molecule relationship: develops_from CL:0001021 ! CD34-positive, CD38-positive common lymphoid progenitor -relationship: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -relationship: lacks_plasma_membrane_part PR:000001836 ! CD7 molecule relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule [Term] @@ -10600,11 +11067,11 @@ synonym: "CD7-positive lymphoid precursor" EXACT [] is_a: CL:0000051 {is_inferred="true"} ! common lymphoid progenitor is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000051 ! common lymphoid progenitor -intersection_of: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA +intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001836 ! has plasma membrane part CD7 molecule +relationship: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA relationship: develops_from CL:0001027 ! CD7-negative lymphoid progenitor cell -relationship: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule relationship: RO:0002104 PR:000001836 ! has plasma membrane part CD7 molecule @@ -10618,35 +11085,36 @@ synonym: "common dendritic precursor" EXACT [] synonym: "pro-DCs" EXACT [PMID:21219184] is_a: CL:0000763 ! myeloid cell is_a: CL:0001019 ! CD115-positive monocyte OR common dendritic progenitor +is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0002031 ! hematopoietic lineage restricted progenitor cell -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) intersection_of: RO:0002104 PR:000002001 ! has plasma membrane part receptor-type tyrosine-protein kinase FLT3 intersection_of: RO:0002104 PR:000002062 ! has plasma membrane part macrophage colony-stimulating factor 1 receptor intersection_of: RO:0015016 PR:000002065 ! has low plasma membrane amount mast/stem cell growth factor receptor +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +relationship: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: develops_from CL:0002009 ! macrophage dendritic cell progenitor -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) relationship: RO:0002104 PR:000002001 ! has plasma membrane part receptor-type tyrosine-protein kinase FLT3 relationship: RO:0002104 PR:000002062 ! has plasma membrane part macrophage colony-stimulating factor 1 receptor relationship: RO:0015016 PR:000002065 ! has low plasma membrane amount mast/stem cell growth factor receptor @@ -10655,7 +11123,6 @@ relationship: RO:0015016 PR:000002065 ! has low plasma membrane amount mast/stem id: CL:0001035 name: bone cell def: "A connective tissue cell found in bone." [GO_REF:0000034, GOC:add] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000548 {is_inferred="true"} ! animal cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0001474 ! bone element @@ -10673,13 +11140,13 @@ synonym: "monocyte" NARROW [PMID:22343568] is_a: CL:0000576 ! monocyte is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000576 ! monocyte -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 intersection_of: RO:0002104 PR:000001889 ! has plasma membrane part CD14 molecule -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 relationship: RO:0002104 PR:000001889 ! has plasma membrane part CD14 molecule property_value: RO:0002175 NCBITaxon:9606 @@ -10721,31 +11188,31 @@ def: "A hematopoietic oligopotent progenitor cell that has the ability to differ is_a: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: CL:0002032 ! hematopoietic oligopotent progenitor cell intersection_of: bearer_of PATO:0001401 ! oligopotent -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -intersection_of: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G +relationship: CL:4030046 PR:000002981 ! lacks_plasma_membrane_part lymphocyte antigen 76 (mouse) relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G -relationship: lacks_plasma_membrane_part PR:000002981 ! lymphocyte antigen 76 (mouse) creation_date: 2010-01-06T03:43:27Z [Term] @@ -10805,30 +11272,30 @@ is_a: CL:0000038 ! erythroid progenitor cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000038 ! erythroid progenitor cell intersection_of: capable_of GO:0030218 ! erythrocyte differentiation -intersection_of: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -intersection_of: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -intersection_of: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -intersection_of: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -intersection_of: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -intersection_of: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -intersection_of: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G +intersection_of: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +intersection_of: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +intersection_of: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +intersection_of: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +intersection_of: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +intersection_of: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +intersection_of: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G intersection_of: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 relationship: capable_of GO:0030218 ! erythrocyte differentiation -relationship: lacks_plasma_membrane_part PR:000001002 ! CD19 molecule -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001012 ! integrin alpha-M -relationship: lacks_plasma_membrane_part PR:000001020 ! CD3 epsilon -relationship: lacks_plasma_membrane_part PR:000001024 ! neural cell adhesion molecule 1 -relationship: lacks_plasma_membrane_part PR:000001083 ! CD2 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain -relationship: lacks_plasma_membrane_part PR:000001289 ! membrane-spanning 4-domains subfamily A member 1 -relationship: lacks_plasma_membrane_part PR:000001839 ! T-cell surface glycoprotein CD5 -relationship: lacks_plasma_membrane_part PR:000001889 ! CD14 molecule -relationship: lacks_plasma_membrane_part PR:000002978 ! lymphocyte antigen 6G +relationship: CL:4030046 PR:000001002 ! lacks_plasma_membrane_part CD19 molecule +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001012 ! lacks_plasma_membrane_part integrin alpha-M +relationship: CL:4030046 PR:000001020 ! lacks_plasma_membrane_part CD3 epsilon +relationship: CL:4030046 PR:000001024 ! lacks_plasma_membrane_part neural cell adhesion molecule 1 +relationship: CL:4030046 PR:000001083 ! lacks_plasma_membrane_part CD2 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001289 ! lacks_plasma_membrane_part membrane-spanning 4-domains subfamily A member 1 +relationship: CL:4030046 PR:000001839 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD5 +relationship: CL:4030046 PR:000001889 ! lacks_plasma_membrane_part CD14 molecule +relationship: CL:4030046 PR:000002978 ! lacks_plasma_membrane_part lymphocyte antigen 6G relationship: RO:0002104 PR:000001945 ! has plasma membrane part transferrin receptor protein 1 [Term] @@ -10839,22 +11306,22 @@ comment: Markers found on mouse cells. synonym: "c- Kit-positive erythroid progenitor cell" EXACT [] is_a: CL:0001066 {is_inferred="true"} ! erythroid progenitor cell, mammalian intersection_of: CL:0001066 ! erythroid progenitor cell, mammalian -intersection_of: lacks_plasma_membrane_part GO:0033001 ! Fc-gamma receptor III complex -intersection_of: lacks_plasma_membrane_part PR:000001833 ! SLAM family member 1 -intersection_of: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 -intersection_of: lacks_plasma_membrane_part PR:000009127 ! integrin alpha-IIb +intersection_of: CL:4030046 GO:0033001 ! lacks_plasma_membrane_part Fc-gamma receptor III complex +intersection_of: CL:4030046 PR:000001833 ! lacks_plasma_membrane_part SLAM family member 1 +intersection_of: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000009127 ! lacks_plasma_membrane_part integrin alpha-IIb intersection_of: RO:0002104 PR:000001345 ! has plasma membrane part endoglin intersection_of: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor +relationship: CL:4030046 GO:0033001 ! lacks_plasma_membrane_part Fc-gamma receptor III complex +relationship: CL:4030046 PR:000001833 ! lacks_plasma_membrane_part SLAM family member 1 +relationship: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 +relationship: CL:4030046 PR:000009127 ! lacks_plasma_membrane_part integrin alpha-IIb relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002006 ! Kit-positive, CD34-negative megakaryocyte erythroid progenitor cell -relationship: lacks_plasma_membrane_part GO:0033001 ! Fc-gamma receptor III complex -relationship: lacks_plasma_membrane_part PR:000001833 ! SLAM family member 1 -relationship: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 -relationship: lacks_plasma_membrane_part PR:000009127 ! integrin alpha-IIb relationship: RO:0002104 PR:000001345 ! has plasma membrane part endoglin relationship: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor creation_date: 2010-04-26T10:14:16Z @@ -10883,13 +11350,13 @@ comment: Markers are associated with human cell type. is_a: CL:0000050 {is_inferred="true"} ! megakaryocyte-erythroid progenitor cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000050 ! megakaryocyte-erythroid progenitor cell -intersection_of: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -intersection_of: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain +intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +intersection_of: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001408 ! has plasma membrane part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 +relationship: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +relationship: CL:4030046 PR:000001865 ! lacks_plasma_membrane_part interleukin-3 receptor class 2 alpha chain relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -relationship: lacks_plasma_membrane_part PR:000001865 ! interleukin-3 receptor class 2 alpha chain relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule relationship: RO:0002104 PR:000001408 ! has plasma membrane part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 creation_date: 2010-01-13T03:43:10Z @@ -10902,19 +11369,19 @@ comment: Markers are associated with mouse cells. is_a: CL:0000050 {is_inferred="true"} ! megakaryocyte-erythroid progenitor cell is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000050 ! megakaryocyte-erythroid progenitor cell -intersection_of: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -intersection_of: lacks_plasma_membrane_part PR:000001479 ! low affinity immunoglobulin gamma Fc region receptor II -intersection_of: lacks_plasma_membrane_part PR:000001843 ! Thy-1 membrane glycoprotein -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +intersection_of: CL:4030046 PR:000001479 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor II +intersection_of: CL:4030046 PR:000001843 ! lacks_plasma_membrane_part Thy-1 membrane glycoprotein +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 intersection_of: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor intersection_of: RO:0015016 GO:0033001 ! has low plasma membrane amount Fc-gamma receptor III complex +relationship: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +relationship: CL:4030046 PR:000001479 ! lacks_plasma_membrane_part low affinity immunoglobulin gamma Fc region receptor II +relationship: CL:4030046 PR:000001843 ! lacks_plasma_membrane_part Thy-1 membrane glycoprotein +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -relationship: lacks_plasma_membrane_part PR:000001479 ! low affinity immunoglobulin gamma Fc region receptor II -relationship: lacks_plasma_membrane_part PR:000001843 ! Thy-1 membrane glycoprotein -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 relationship: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor relationship: RO:0015016 GO:0033001 ! has low plasma membrane amount Fc-gamma receptor III complex creation_date: 2010-01-13T03:43:12Z @@ -10943,15 +11410,15 @@ def: "A proerythoblast that is Kit-low, Lyg76-positive, and CD71-positive." [GOC comment: Markers are associated with mouse cells. is_a: CL:0000547 {is_inferred="true"} ! proerythroblast intersection_of: CL:0000547 ! proerythroblast -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 intersection_of: RO:0002104 PR:000002981 ! has plasma membrane part lymphocyte antigen 76 (mouse) intersection_of: RO:0015015 PR:000001945 ! has high plasma membrane amount transferrin receptor protein 1 intersection_of: RO:0015016 PR:000002065 ! has low plasma membrane amount mast/stem cell growth factor receptor +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002000 ! Kit-positive erythroid progenitor cell -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 relationship: RO:0002104 PR:000002981 ! has plasma membrane part lymphocyte antigen 76 (mouse) relationship: RO:0015015 PR:000001945 ! has high plasma membrane amount transferrin receptor protein 1 relationship: RO:0015016 PR:000002065 ! has low plasma membrane amount mast/stem cell growth factor receptor @@ -10964,15 +11431,15 @@ def: "A basophilic erythroblast that is Lyg 76-high and is Kit-negative." [GOC:a comment: Cell surface markers are associated with mouse cells. is_a: CL:0000549 {is_inferred="true"} ! basophilic erythroblast intersection_of: CL:0000549 ! basophilic erythroblast -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 intersection_of: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002012 ! Kit-low proerythroblast -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 relationship: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) creation_date: 2010-04-26T10:41:22Z @@ -10983,15 +11450,15 @@ def: "A polychromatophilic erythroblast that is Lyg 76-high and is Kit-negative. synonym: "late basophilic and polychromatophilic erythroblast" BROAD [] is_a: CL:0000550 {is_inferred="true"} ! polychromatophilic erythroblast intersection_of: CL:0000550 ! polychromatophilic erythroblast -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 intersection_of: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002014 ! Kit-negative, Ly-76 high basophilic erythroblast -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 relationship: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) creation_date: 2010-04-26T10:53:11Z @@ -11003,16 +11470,16 @@ comment: Cell surface markers associated with mouse cells. is_a: CL:0000552 {is_inferred="true"} ! orthochromatic erythroblast is_a: PR:000050567 ! protein-containing material entity intersection_of: CL:0000552 ! orthochromatic erythroblast -intersection_of: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -intersection_of: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -intersection_of: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 +intersection_of: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +intersection_of: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +intersection_of: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 intersection_of: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) intersection_of: RO:0015016 PR:000001945 ! has low plasma membrane amount transferrin receptor protein 1 +relationship: CL:4030046 PR:000001869 ! lacks_plasma_membrane_part interleukin-7 receptor subunit alpha +relationship: CL:4030046 PR:000002065 ! lacks_plasma_membrane_part mast/stem cell growth factor receptor +relationship: CL:4030046 PR:000002979 ! lacks_plasma_membrane_part lymphocyte antigen 6A-2/6E-1 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002015 ! Kit-negative, Ly-76 high polychromatophilic erythroblast -relationship: lacks_plasma_membrane_part PR:000001869 ! interleukin-7 receptor subunit alpha -relationship: lacks_plasma_membrane_part PR:000002065 ! mast/stem cell growth factor receptor -relationship: lacks_plasma_membrane_part PR:000002979 ! lymphocyte antigen 6A-2/6E-1 relationship: RO:0015015 PR:000002981 ! has high plasma membrane amount lymphocyte antigen 76 (mouse) relationship: RO:0015016 PR:000001945 ! has low plasma membrane amount transferrin receptor protein 1 creation_date: 2010-04-26T11:04:15Z @@ -11048,7 +11515,7 @@ creation_date: 2010-04-26T11:51:27Z id: CL:0002031 name: hematopoietic lineage restricted progenitor cell def: "A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells." [GOC:tfm, PMID:19022770] -is_a: BFO:0000004 ! independent continuant +subset: blood_and_immune_upper_slim is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001400 ! unipotent @@ -11063,7 +11530,7 @@ id: CL:0002032 name: hematopoietic oligopotent progenitor cell def: "A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities." [GOC:tfm, https://orcid.org/0000-0001-5208-3432, PMID:19022770] comment: This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060). -is_a: BFO:0000004 ! independent continuant +subset: blood_and_immune_upper_slim is_a: CL:0008001 ! hematopoietic precursor cell intersection_of: CL:0000988 ! hematopoietic cell intersection_of: bearer_of PATO:0001401 ! oligopotent @@ -11081,12 +11548,12 @@ synonym: "ST stem cell" EXACT [] synonym: "ST-HSC" EXACT [] is_a: CL:0001008 {is_inferred="true"} ! Kit and Sca1-positive hematopoietic stem cell intersection_of: CL:0001008 ! Kit and Sca1-positive hematopoietic stem cell -intersection_of: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 +intersection_of: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule intersection_of: RO:0002104 PR:000001833 ! has plasma membrane part SLAM family member 1 +relationship: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002034 ! long term hematopoietic stem cell -relationship: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 relationship: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule creation_date: 2010-01-08T09:19:25Z @@ -11099,13 +11566,13 @@ synonym: "LT stem cell" EXACT [] synonym: "LT-HSC" EXACT [] is_a: CL:0001008 {is_inferred="true"} ! Kit and Sca1-positive hematopoietic stem cell intersection_of: CL:0001008 ! Kit and Sca1-positive hematopoietic stem cell -intersection_of: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -intersection_of: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 +intersection_of: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +intersection_of: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 intersection_of: RO:0002104 PR:000001833 ! has plasma membrane part SLAM family member 1 intersection_of: RO:0015016 PR:000001843 ! has low plasma membrane amount Thy-1 membrane glycoprotein +relationship: CL:4030046 PR:000001003 ! lacks_plasma_membrane_part CD34 molecule +relationship: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_plasma_membrane_part PR:000001003 ! CD34 molecule -relationship: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 relationship: RO:0015016 PR:000001843 ! has low plasma membrane amount Thy-1 membrane glycoprotein creation_date: 2010-01-08T09:19:28Z @@ -11116,14 +11583,14 @@ def: "A hematopoietic progenitor that has restricted self-renewal capability. Ce comment: Markers are associated with mouse cells. is_a: CL:0000837 {is_inferred="true"} ! hematopoietic multipotent progenitor cell intersection_of: CL:0000837 ! hematopoietic multipotent progenitor cell -intersection_of: lacks_plasma_membrane_part PR:000001833 ! SLAM family member 1 -intersection_of: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 +intersection_of: CL:4030046 PR:000001833 ! lacks_plasma_membrane_part SLAM family member 1 +intersection_of: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 intersection_of: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor intersection_of: RO:0002104 PR:000002979 ! has plasma membrane part lymphocyte antigen 6A-2/6E-1 +relationship: CL:4030046 PR:000001833 ! lacks_plasma_membrane_part SLAM family member 1 +relationship: CL:4030046 PR:000002001 ! lacks_plasma_membrane_part receptor-type tyrosine-protein kinase FLT3 relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0002036 ! Slamf1-positive multipotent progenitor cell -relationship: lacks_plasma_membrane_part PR:000001833 ! SLAM family member 1 -relationship: lacks_plasma_membrane_part PR:000002001 ! receptor-type tyrosine-protein kinase FLT3 relationship: RO:0002104 PR:000002065 ! has plasma membrane part mast/stem cell growth factor receptor relationship: RO:0002104 PR:000002979 ! has plasma membrane part lymphocyte antigen 6A-2/6E-1 creation_date: 2010-01-08T11:16:33Z @@ -11154,15 +11621,15 @@ def: "A hematopoietic multipotent progenitor cell that is CD34-positive, CD38-ne comment: Cell markers are associated with human hematopoietic multipotent progenitor cells. is_a: CL:0000837 {is_inferred="true"} ! hematopoietic multipotent progenitor cell intersection_of: CL:0000837 ! hematopoietic multipotent progenitor cell -intersection_of: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -intersection_of: lacks_plasma_membrane_part PR:000001408 ! ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 -intersection_of: lacks_plasma_membrane_part PR:000001843 ! Thy-1 membrane glycoprotein +intersection_of: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +intersection_of: CL:4030046 PR:000001408 ! lacks_plasma_membrane_part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 +intersection_of: CL:4030046 PR:000001843 ! lacks_plasma_membrane_part Thy-1 membrane glycoprotein intersection_of: RO:0002104 PR:000001003 ! has plasma membrane part CD34 molecule +relationship: CL:4030046 PR:000001015 ! lacks_plasma_membrane_part receptor-type tyrosine-protein phosphatase C isoform CD45RA +relationship: CL:4030046 PR:000001408 ! lacks_plasma_membrane_part ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 +relationship: CL:4030046 PR:000001843 ! lacks_plasma_membrane_part Thy-1 membrane glycoprotein relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: develops_from CL:0001024 ! CD34-positive, CD38-negative hematopoietic stem cell -relationship: lacks_plasma_membrane_part PR:000001015 ! receptor-type tyrosine-protein phosphatase C isoform CD45RA -relationship: lacks_plasma_membrane_part PR:000001408 ! ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1 -relationship: lacks_plasma_membrane_part PR:000001843 ! Thy-1 membrane glycoprotein creation_date: 2010-01-12T11:14:15Z [Term] @@ -11288,7 +11755,6 @@ name: pancreatic ductal cell def: "Epithelial cell found in the ducts of the pancreas. This cell type contributes to the high luminal pH." [FMA:63099, GOC:tfm, PMID:14740223] subset: human_reference_atlas xref: FMA:63099 -is_a: BFO:0000040 ! material entity is_a: CL:0000069 ! branched duct epithelial cell is_a: CL:1001433 ! epithelial cell of exocrine pancreas intersection_of: CL:0000083 ! epithelial cell of pancreas @@ -11308,7 +11774,6 @@ subset: human_reference_atlas synonym: "centroacinar cell of Langerhans" EXACT [] synonym: "pancreatic centroacinar cell" EXACT [] xref: FMA:62455 -is_a: BFO:0000040 ! material entity is_a: CL:1001433 ! epithelial cell of exocrine pancreas intersection_of: CL:0000083 ! epithelial cell of pancreas intersection_of: capable_of GO:0015106 ! bicarbonate transmembrane transporter activity @@ -11332,13 +11797,14 @@ creation_date: 2010-07-21T01:33:38Z id: CL:0002087 name: nongranular leukocyte def: "A leukocyte that lacks granules." [GOC:tfm] +subset: blood_and_immune_upper_slim synonym: "agranular leukocyte" EXACT [] xref: FMA:62855 is_a: CL:0000738 {is_inferred="true"} ! leukocyte intersection_of: CL:0000738 ! leukocyte -intersection_of: lacks_part GO:0030141 ! secretory granule +intersection_of: CL:4030045 GO:0030141 ! lacks_part secretory granule +relationship: CL:4030045 GO:0030141 ! lacks_part secretory granule relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_part GO:0030141 ! secretory granule creation_date: 2010-07-22T11:30:33Z [Term] @@ -11351,7 +11817,6 @@ synonym: "ICC" EXACT [] synonym: "intestinal pacemaker cell" EXACT [GOC:pr] xref: BTO:0003914 xref: FMA:86573 -is_a: BFO:0000040 ! material entity is_a: CL:0000710 {is_inferred="true"} ! neurecto-epithelial cell intersection_of: CL:0000710 ! neurecto-epithelial cell intersection_of: capable_of GO:0043134 ! regulation of hindgut contraction @@ -11448,7 +11913,6 @@ creation_date: 2010-08-24T03:38:29Z [Term] id: CL:0002149 name: epithelial cell of uterus -alt_id: CL:1000294 def: "An epithelial cell of the uterus." [GOC:tfm] xref: FMA:256161 is_a: CL:0002076 {is_inferred="true"} ! endo-epithelial cell @@ -11483,7 +11947,6 @@ creation_date: 2010-08-26T02:51:30Z [Term] id: CL:0002178 name: epithelial cell of stomach -alt_id: CL:1000399 def: "An epithelial cell found in the lining of the stomach." [GOC:tfm] xref: FMA:62948 is_a: CL:0002251 {is_inferred="true"} ! epithelial cell of alimentary canal @@ -11496,7 +11959,6 @@ creation_date: 2010-08-25T03:22:08Z [Term] id: CL:0002180 name: mucous cell of stomach -alt_id: CL:1000404 def: "A mucous cell in the epithelium of the stomach." [GOC:tfm] xref: FMA:63464 is_a: CL:0002659 ! glandular cell of stomach @@ -11509,7 +11971,6 @@ creation_date: 2010-08-25T03:38:51Z [Term] id: CL:0002183 name: stem cell of gastric gland -alt_id: CL:1000400 def: "A stomach epithelial cell that is olumnar in form with a few short apical microvilli; relatively undifferentiated mitotic cell from which other types of gland are derived; few in number, situated in the isthmus region of the gland and base of the gastric pit." [GOC:tfm, ISBN:0517223651] xref: FMA:62953 is_a: CL:0000048 {is_inferred="true"} ! multi fate stem cell @@ -11524,7 +11985,6 @@ creation_date: 2010-08-25T03:57:08Z [Term] id: CL:0002187 name: basal cell of epidermis -alt_id: CL:1000439 def: "A basally situated, mitotically active, columnar-shaped keratinocyte attached to the basement membrane." [GOC:tfm, ISBN:0517223651] xref: FMA:70571 is_a: CL:0000312 ! keratinocyte @@ -11577,7 +12037,6 @@ creation_date: 2010-08-30T02:00:42Z [Term] id: CL:0002202 name: epithelial cell of tracheobronchial tree -alt_id: CL:1000407 def: "An epithelial cell of the tracheobronchial tree." [GOC:tfm] xref: FMA:66816 is_a: CL:0002632 ! epithelial cell of lower respiratory tract @@ -11693,7 +12152,6 @@ creation_date: 2010-09-08T09:26:53Z [Term] id: CL:0002252 name: epithelial cell of esophagus -alt_id: CL:1000402 def: "An epithelial cell of the esophagus." [GOC:tfm] xref: FMA:63071 is_a: CL:0002251 {is_inferred="true"} ! epithelial cell of alimentary canal @@ -11706,7 +12164,6 @@ creation_date: 2010-09-08T09:28:20Z [Term] id: CL:0002253 name: epithelial cell of large intestine -alt_id: CL:1000292 def: "An epithelial cell of the large intestine." [GOC:tfm] synonym: "epithelial cell of colon" RELATED [] xref: BTO:0004297 @@ -11721,7 +12178,6 @@ creation_date: 2010-09-08T09:28:22Z [Term] id: CL:0002254 name: epithelial cell of small intestine -alt_id: CL:1000293 def: "An epithelial cell of the small intestine." [GOC:tfm] xref: FMA:256159 is_a: CL:0002563 {is_inferred="true"} ! intestinal epithelial cell @@ -11752,7 +12208,6 @@ creation_date: 2010-09-08T09:50:04Z [Term] id: CL:0002261 name: endothelial cell of viscerocranial mucosa -alt_id: CL:1000446 def: "An endothelial cell found in the mucosa associated with the facial skeleton." [GOC:tfm, ISBN:0618947256] xref: FMA:70627 is_a: CL:0002076 ! endo-epithelial cell @@ -11762,7 +12217,6 @@ creation_date: 2010-09-14T10:40:12Z [Term] id: CL:0002262 name: endothelial cell of sinusoid -alt_id: CL:1000403 def: "An endothelial cell that lines any of the venous cavities through which blood passes in various glands and organs such as the spleen and liver." [GOC:tfm, ISBN:0618947256] subset: human_reference_atlas xref: FMA:63134 @@ -11843,7 +12297,6 @@ synonym: "PP-cell of pancreatic islet" EXACT [] xref: BTO:0000805 xref: FMA:70588 xref: MESH:D050418 -is_a: CL:0000083 ! epithelial cell of pancreas is_a: CL:0000696 ! PP cell is_a: CL:0008024 ! pancreatic endocrine cell intersection_of: CL:0000696 ! PP cell @@ -11873,8 +12326,6 @@ name: neural cell def: "A cell that is part of the nervous system." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2040 xref: FMA:70333 -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000548 ! animal cell is_a: CL:0002371 ! somatic cell intersection_of: CL:0000548 ! animal cell intersection_of: part_of UBERON:0001016 ! nervous system @@ -11885,13 +12336,10 @@ creation_date: 2010-09-15T01:34:57Z [Term] id: CL:0002320 name: connective tissue cell -alt_id: CL:1000406 def: "A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone." [GOC:tfm, ISBN:0618947256] xref: CALOHA:TS-2096 xref: FMA:63875 xref: MESH:D003239 -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0002384 ! connective tissue @@ -11958,7 +12406,6 @@ creation_date: 2010-09-20T02:52:54Z [Term] id: CL:0002350 name: endocardial cell -alt_id: CL:1000475 def: "An endothelial cell that lines the intracavitary lumen of the heart, separating the circulating blood from the underlying myocardium. This cell type releases a number of vasoactive substances including prostacyclin, nitrous oxide and endothelin." [GOC:tfm, ISSN:0452-3458] subset: human_reference_atlas synonym: "endocardial endothelial cell" EXACT [] @@ -11978,6 +12425,7 @@ name: progenitor cell of endocrine pancreas def: "A progenitor cell that is able to differentiate into the pancreas alpha, beta and delta endocrine cells. This cell type expresses neurogenin-3 and Isl-1." [GOC:tfm, PMID:20025937, PMID:20217494, PMID:22728667] synonym: "pancreatic endocrine progenitor" EXACT [] synonym: "pancreatic islet progenitor cell" EXACT [] +is_a: CL:0000548 ! animal cell is_a: CL:0011026 ! progenitor cell relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-21T04:41:06Z @@ -12040,14 +12488,13 @@ subset: ubprop:upper_level xref: BTO:0001268 xref: FMA:72300 xref: WBbt:0008378 -is_a: CL:0000003 ! native cell +is_a: CL:0000548 ! animal cell relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 creation_date: 2010-09-24T09:44:42Z [Term] id: CL:0002372 name: myotube -alt_id: CL:0000369 def: "A transversely striated, synctial muscle cell, formed by the fusion of myoblasts." [GOC:dos, GOC:tfm, ISBN:0323052908, PMID:22274696] synonym: "myotubule" EXACT [] synonym: "single cell sarcomere" EXACT [] @@ -12134,11 +12581,11 @@ synonym: "DC.8-4-11b+" EXACT [] synonym: "spleen double-negative dendritic cell" EXACT [] is_a: CL:0002465 {is_inferred="true"} ! CD11b-positive dendritic cell intersection_of: CL:0002465 ! CD11b-positive dendritic cell -intersection_of: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -intersection_of: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain +intersection_of: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +intersection_of: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain +relationship: CL:4030046 PR:000001004 ! lacks_plasma_membrane_part CD4 molecule +relationship: CL:4030046 PR:000001084 ! lacks_plasma_membrane_part T-cell surface glycoprotein CD8 alpha chain relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 -relationship: lacks_plasma_membrane_part PR:000001004 ! CD4 molecule -relationship: lacks_plasma_membrane_part PR:000001084 ! T-cell surface glycoprotein CD8 alpha chain creation_date: 2010-11-22T01:10:28Z [Term] @@ -12180,6 +12627,7 @@ id: CL:0002485 name: retinal melanocyte def: "A melanocyte of the retina. This cell type is distinct from pigmented retinal epithelium." [GOC:tfm, MP:0010190] is_a: CL:0000148 {is_inferred="true"} ! melanocyte +is_a: CL:0009004 ! retinal cell intersection_of: CL:0000148 ! melanocyte intersection_of: part_of UBERON:0000966 ! retina relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 @@ -12196,8 +12644,6 @@ xref: BTO:0001539 xref: CALOHA:TS-0115 xref: FMA:83808 xref: FMA:84791 -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000548 ! animal cell is_a: CL:0002371 {is_inferred="true"} ! somatic cell intersection_of: CL:0002371 ! somatic cell intersection_of: part_of UBERON:0007100 ! primary circulatory organ @@ -12294,7 +12740,6 @@ creation_date: 2011-02-28T03:04:35Z [Term] id: CL:0002543 name: vein endothelial cell -alt_id: CL:1000393 def: "An endothelial cell that is part of the vein." [GOC:tfm] subset: human_reference_atlas synonym: "endothelial cell of vein" EXACT [] @@ -12414,14 +12859,13 @@ creation_date: 2011-03-01T09:58:51Z [Term] id: CL:0002573 name: Schwann cell -def: "A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function." [GOC:tfm] +def: "A glial cell that myelinates or ensheathes axons in the peripheral nervous system." [GOC:tfm, PMID:16807057] +comment: A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle. {xref="PMID:16807057"} subset: human_reference_atlas xref: BTO:0001220 xref: CALOHA:TS-0898 xref: MESH:D012583 is_a: CL:0000125 ! glial cell -intersection_of: CL:0000125 ! glial cell -intersection_of: part_of UBERON:0000010 ! peripheral nervous system relationship: dc-contributor https://orcid.org/0000-0003-1980-3228 relationship: part_of UBERON:0000010 ! peripheral nervous system property_value: RO:0002175 NCBITaxon:9606 @@ -12813,6 +13257,17 @@ synonym: "multiciliated cell" BROAD [] synonym: "multiciliated epithelial cell" EXACT [] is_a: CL:0000067 ! ciliated epithelial cell +[Term] +id: CL:0005024 +name: somatomotor neuron +def: "A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic." [ZFIN:CVS] +synonym: "somatic motor neuron" EXACT [] +is_a: CL:0000100 ! motor neuron +is_a: CL:0000108 ! cholinergic neuron +intersection_of: CL:0000100 ! motor neuron +intersection_of: RO:0002120 CL:0008002 ! synapsed to skeletal muscle fiber +relationship: RO:0002120 CL:0008002 ! synapsed to skeletal muscle fiber + [Term] id: CL:0005026 name: hepatoblast @@ -12845,6 +13300,7 @@ id: CL:0007009 name: prechondroblast def: "Skeletogenic cell that has the potential to develop into a chondroblast; and arises from neural crest, meseosdermal and notochordal and connective tissue cells." [GO_REF:0000034] is_a: CL:0000055 ! non-terminally differentiated cell +is_a: CL:0000548 ! animal cell relationship: dc-contributor https://orcid.org/0000-0001-9114-8737 creation_date: 2012-06-27T10:44:01Z @@ -12877,9 +13333,12 @@ relationship: develops_from CL:0000515 ! skeletal muscle myoblast [Term] id: CL:0008007 name: visceral muscle cell -def: "A muscle cell that is part of some visceral muscle" [GOC:dos] +def: "A muscle cell that is part of some visceral muscle." [GOC:dos] xref: FBbt:00005070 is_a: CL:0000187 ! muscle cell +intersection_of: CL:0000187 ! muscle cell +intersection_of: part_of UBERON:8600004 ! visceral muscle tissue +relationship: part_of UBERON:8600004 ! visceral muscle tissue [Term] id: CL:0008008 @@ -12936,12 +13395,22 @@ id: CL:0008024 name: pancreatic endocrine cell def: "An endocrine cell that is part of the pancreas." [GOC:dos] subset: human_reference_atlas -is_a: CL:0000163 ! endocrine cell +is_a: CL:0000083 ! epithelial cell of pancreas +is_a: CL:0000164 ! enteroendocrine cell intersection_of: CL:0000163 ! endocrine cell intersection_of: part_of UBERON:0001264 ! pancreas -relationship: part_of UBERON:0001264 ! pancreas property_value: RO:0002175 NCBITaxon:9606 +[Term] +id: CL:0008025 +name: noradrenergic neuron +def: "A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter." [GOC:dos] +is_a: CL:0000459 ! noradrenergic cell +is_a: CL:0000540 ! neuron +intersection_of: CL:0000540 ! neuron +intersection_of: capable_of GO:0061533 ! norepinephrine secretion, neurotransmission +relationship: capable_of GO:0061533 ! norepinephrine secretion, neurotransmission + [Term] id: CL:0008028 name: visual system neuron @@ -13001,8 +13470,7 @@ name: compound eye retinal cell def: "Any cell in the compound eye, a light sensing organ composed of ommatidia." [] xref: GOC:pr xref: PMID:12021768 -is_a: BFO:0000004 ! independent continuant -is_a: CL:0002371 ! somatic cell +is_a: CL:0009004 ! retinal cell [Term] id: CL:0009004 @@ -13343,8 +13811,7 @@ intersection_of: part_of UBERON:0000948 ! heart [Term] id: CL:0010007 name: His-Purkinje system cell -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000003 ! native cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0004146 ! His-Purkinje system relationship: part_of UBERON:0004146 ! His-Purkinje system @@ -13372,7 +13839,6 @@ relationship: part_of UBERON:0000019 ! camera-type eye [Term] id: CL:0010012 name: cerebral cortex neuron -alt_id: CL:0002609 def: "A CNS neuron of the cerebral cortex." [GOC:tfm] synonym: "cortical neuron" EXACT [] synonym: "neuron of cerebral cortex" EXACT [] @@ -13539,7 +14005,6 @@ id: CL:0011115 name: precursor cell def: "A cell that, by division or terminal differentiation, can give rise to other cell types." [GOC:dos] comment: Work is needed on GO 'cell differentiation' before it is clear whether the equivalent class definition 'native cell' that capable_of some 'cell differentiation' works. Also, may want to consider merging this with non-terminally differentiated cell. -is_a: BFO:0000040 ! material entity is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: capable_of GO:0030154 ! cell differentiation @@ -13639,6 +14104,7 @@ def: "Any serous secreting cell that is part of the tracheobronchial epithelium. subset: added_for_HCA synonym: "serous cell of tracheobronchial tree" EXACT [] is_a: CL:0000313 ! serous secreting cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000313 ! serous secreting cell intersection_of: part_of UBERON:0007196 ! tracheobronchial tree relationship: dc-contributor https://orcid.org/0000-0003-2034-601X @@ -13740,8 +14206,9 @@ relationship: part_of UBERON:0001890 ! forebrain [Term] id: CL:1000222 name: stomach neuroendocrine cell +is_a: CL:0000164 ! enteroendocrine cell is_a: CL:0000165 ! neuroendocrine cell -is_a: CL:0002178 ! epithelial cell of stomach +is_a: CL:0002659 ! glandular cell of stomach intersection_of: CL:0000165 ! neuroendocrine cell intersection_of: part_of UBERON:0000945 ! stomach @@ -13760,6 +14227,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:1000271 name: lung ciliated cell subset: human_reference_atlas +is_a: CL:0000548 ! animal cell is_a: CL:4030034 ! respiratory ciliated cell intersection_of: CL:0000064 ! ciliated cell intersection_of: part_of UBERON:0002048 ! lung @@ -13770,6 +14238,7 @@ property_value: RO:0002175 NCBITaxon:9606 id: CL:1000272 name: lung secretory cell is_a: CL:0000151 ! secretory cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000151 ! secretory cell intersection_of: part_of UBERON:0002048 ! lung relationship: part_of UBERON:0002048 ! lung @@ -14022,6 +14491,7 @@ synonym: "sinoatrial node myocyte" EXACT [] synonym: "sinuatrial node myocyte" EXACT [FMA:67102] xref: FMA:67102 is_a: CL:0002072 ! nodal myocyte +is_a: CL:0008009 ! transversely striated visceral muscle cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:0002351 ! sinoatrial node relationship: part_of UBERON:0002351 ! sinoatrial node @@ -14037,6 +14507,7 @@ synonym: "AV node cardiac muscle cell" EXACT [GOC:pr] synonym: "AV node cell" EXACT [GOC:pr] xref: FMA:67106 is_a: CL:0002072 ! nodal myocyte +is_a: CL:0008009 ! transversely striated visceral muscle cell is_a: CL:2000022 ! cardiac septum cell intersection_of: CL:0000187 ! muscle cell intersection_of: part_of UBERON:0002352 ! atrioventricular node @@ -14058,7 +14529,6 @@ property_value: RO:0002175 NCBITaxon:9606 [Term] id: CL:1000413 name: endothelial cell of artery -alt_id: CL:0002542 def: "A blood vessel endothelial cell that is part of an arterial endothelium." [GOC:tfm] subset: human_reference_atlas synonym: "arterial endothelial cell" EXACT [] @@ -14211,7 +14681,6 @@ name: cholangiocyte def: "An epithelial cell that is part of the bile duct. Cholangiocytes contribute to bile secretion via net release of bicarbonate and water. They are cuboidal epithelium in the small interlobular bile ducts, but become columnar and mucus secreting in larger bile ducts approaching the porta hepatis and the extrahepatic ducts." [GOC:tfm, PMID:16550043, PMID:18356246] synonym: "epithelial cell of bile duct" EXACT [] xref: FMA:86481 -is_a: BFO:0000040 ! material entity is_a: CL:0000069 {is_inferred="true"} ! branched duct epithelial cell intersection_of: CL:0000069 ! branched duct epithelial cell intersection_of: capable_of GO:0015106 ! bicarbonate transmembrane transporter activity @@ -14604,7 +15073,6 @@ creation_date: 2014-06-24T23:16:45Z id: CL:2000020 name: inner cell mass cell def: "Any native cell that is part of a inner cell mass." [GOC:TermGenie] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0000087 ! inner cell mass @@ -14616,8 +15084,7 @@ creation_date: 2014-06-24T23:16:53Z id: CL:2000022 name: cardiac septum cell def: "Any native cell that is part of a cardiac septum." [GOC:TermGenie] -is_a: BFO:0000004 ! independent continuant -is_a: CL:0000003 ! native cell +is_a: CL:0000548 ! animal cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0002099 ! cardiac septum relationship: dc-contributor https://www.wikidata.org/entity/Q35563349 @@ -14649,7 +15116,6 @@ creation_date: 2014-06-25T01:17:43Z [Term] id: CL:2000032 name: peripheral nervous system neuron -alt_id: CL:0000111 def: "A neuron that is part of a peripheral nervous system." [GOC:TermGenie, ISBN:0721662544] synonym: "peripheral neuron" EXACT [] synonym: "PNS neuron" EXACT [] @@ -15072,7 +15538,6 @@ relationship: RO:0002100 UBERON:0010225 ! has soma location thalamic complex id: CL:4023072 name: brain vascular cell def: "A cell that is part of the brain vasculature." [DOI:10.1101/2022.10.12.511898] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000003 ! native cell intersection_of: CL:0000003 ! native cell intersection_of: part_of UBERON:0008998 ! vasculature of brain @@ -15096,6 +15561,7 @@ id: CL:4023079 name: midbrain-derived inhibitory neuron def: "A GABAergic inhibitory neuron that is derived from the midbrain." [DOI:10.1101/2022.10.12.511898] is_a: CL:0000540 ! neuron +is_a: UBERON:0004121 ! ectoderm-derived structure intersection_of: CL:0000540 ! neuron intersection_of: develops_from UBERON:0001891 ! midbrain relationship: dc-contributor http://orcid.org/0000-0001-7258-9596 @@ -15175,7 +15641,6 @@ relationship: dc-contributor https://orcid.org/0000-0001-7258-9596 [Term] id: CL:4023154 name: myelinating glial cell -alt_id: CL:0000328 def: "A glial cell that myelinates axonal processes." [DOI:10.1007/3-540-29623-9_3240] is_a: CL:0000125 ! glial cell intersection_of: CL:0000125 ! glial cell @@ -15232,6 +15697,7 @@ creation_date: 2022-01-20T12:59:06Z id: CL:4030029 name: blood lymphocyte def: "A lymphocyte located in blood." [https://orcid.org/0000-0001-9990-8331] +subset: blood_and_immune_upper_slim is_a: CL:0000542 ! lymphocyte is_a: CL:2000001 ! peripheral blood mononuclear cell intersection_of: CL:0000542 ! lymphocyte @@ -15244,7 +15710,6 @@ id: CL:4030034 name: respiratory ciliated cell def: "A ciliated cell of the respiratory system. Ciliated cells are present in airway epithelium." [PMID:18757316, PMID:21364219] synonym: "ciliated cell of the respiratory tract" EXACT [] -is_a: BFO:0000004 ! independent continuant is_a: CL:0000064 ! ciliated cell intersection_of: CL:0000064 ! ciliated cell intersection_of: part_of UBERON:0004802 ! respiratory tract epithelium @@ -15299,6 +15764,56 @@ relationship: dc-contributor http://orcid.org/0000-0001-6677-8489 relationship: part_of UBERON:0010402 ! epidermis suprabasal layer creation_date: 2023-02-02T11:17:04Z +[Term] +id: CL:4033017 +name: bronchiolar smooth muscle cell +def: "A smooth muscle cell that is part of a bronchiole." [ISBN:9781260462982, PMID:15347627] +is_a: CL:0019019 ! tracheobronchial smooth muscle cell +intersection_of: CL:0000192 ! smooth muscle cell +intersection_of: part_of UBERON:0002186 ! bronchiole +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: dc-contributor https://orcid.org/0000-0002-9185-3994 +relationship: part_of UBERON:0002186 ! bronchiole +property_value: http://purl.org/dc/terms/date "2023-03-16T09:38:17Z" xsd:dateTime + +[Term] +id: CL:4033018 +name: lung megakaryocyte +def: "A megakaryocyte that is resident in the lung connective tissue." [PMID:33351116] +synonym: "lung MKs" RELATED PLURAL [PMID:33351116] +is_a: CL:0000556 ! megakaryocyte +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: dc-contributor https://orcid.org/0000-0002-9185-3994 +property_value: http://purl.org/dc/terms/date "2023-03-16T11:31:23Z" xsd:dateTime + +[Term] +id: CL:4033020 +name: mucus secreting cell of trachea gland +def: "A mucus secreting cell that is part of a submucosal gland of the trachea." [PMID:18931053, PMID:29656943] +synonym: "tracheal submucosal gland mucous cell" EXACT [PMID:18931053] +is_a: CL:0000152 ! exocrine cell +is_a: CL:0000319 ! mucus secreting cell +intersection_of: CL:0000319 ! mucus secreting cell +intersection_of: part_of UBERON:0005203 ! trachea gland +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: dc-contributor https://orcid.org/0000-0002-9185-3994 +relationship: part_of UBERON:0005203 ! trachea gland +property_value: http://purl.org/dc/terms/date "2023-03-16T13:03:13Z" xsd:dateTime + +[Term] +id: CL:4033022 +name: mucus secreting cell of bronchus submucosal gland +def: "A mucus secreting cell of a submucosal gland of the bronchus." [PMID:19965983] +synonym: "bronchial gland mucous cell" EXACT [PMID:5487122] +is_a: CL:0000152 ! exocrine cell +is_a: CL:0000319 ! mucus secreting cell +intersection_of: CL:0000319 ! mucus secreting cell +intersection_of: part_of UBERON:8410043 ! bronchus submucosal gland +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +relationship: dc-contributor https://orcid.org/0000-0002-9185-3994 +relationship: part_of UBERON:8410043 ! bronchus submucosal gland +property_value: http://purl.org/dc/terms/date "2023-03-16T15:12:52Z" xsd:dateTime + [Term] id: GO:0000003 name: reproduction @@ -15327,17 +15842,6 @@ intersection_of: results_in_distribution_of GO:0005773 ! vacuole relationship: results_in_distribution_of GO:0005773 ! vacuole property_value: RO:0002161 NCBITaxon:4896 -[Term] -id: GO:0000035 -name: acyl binding -namespace: molecular_function -def: "Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid." [GOC:curators, ISBN:0198506732] -synonym: "acyl-CoA or acyl binding" BROAD [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:22221 ! acyl group -relationship: has_input CHEBI:22221 ! acyl group - [Term] id: GO:0000041 name: transition metal ion transport @@ -15369,6 +15873,7 @@ id: GO:0000139 name: Golgi membrane namespace: cellular_component def: "The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah] +synonym: "Golgi apparatus membrane" EXACT [] is_a: GO:0098588 ! bounding membrane of organelle intersection_of: GO:0016020 ! membrane intersection_of: bounding_layer_of GO:0005794 ! Golgi apparatus @@ -15538,7 +16043,7 @@ synonym: "chromosome scaffold" RELATED [] synonym: "cytoplasmic chromatin" NARROW [] synonym: "nuclear chromatin" NARROW [] xref: NIF_Subcellular:sao1615953555 -is_a: GO:0110165 ! cellular anatomical entity +is_a: GO:0032993 ! protein-DNA complex relationship: part_of GO:0005694 ! chromosome [Term] @@ -15855,7 +16360,7 @@ name: formation of translation initiation ternary complex namespace: biological_process def: "Formation of a complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2 (either eIF2 in eukaryotes, or IF2 in prokaryotes). In prokaryotes, fMet-tRNA (initiator) is used rather than Met-tRNA (initiator)." [GOC:hjd] synonym: "translation initiation ternary complex assembly" EXACT [] -is_a: GO:0022618 ! ribonucleoprotein complex assembly +is_a: GO:0022618 ! protein-RNA complex assembly intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0044207 ! translation initiation ternary complex relationship: part_of GO:0006413 ! translational initiation @@ -16709,19 +17214,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0010463 ! mesenchymal cell proliferation relationship: positively_regulates GO:0010463 ! mesenchymal cell proliferation -[Term] -id: GO:0002054 -name: nucleobase binding -namespace: molecular_function -def: "Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases." [GOC:hjd] -subset: goslim_pir -is_a: GO:0036094 ! small molecule binding -is_a: GO:0097159 ! organic cyclic compound binding -is_a: GO:1901363 ! heterocyclic compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:18282 ! nucleobase -relationship: has_input CHEBI:18282 ! nucleobase - [Term] id: GO:0002062 name: chondrocyte differentiation @@ -20344,6 +20836,33 @@ relationship: negatively_regulates GO:0003341 ! cilium movement created_by: dph creation_date: 2009-12-03T10:17:47Z +[Term] +id: GO:0003357 +name: noradrenergic neuron differentiation +namespace: biological_process +def: "The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline." [GOC:dph] +synonym: "norepinephrine secreting neuron differentiation" EXACT [GOC:dph] +is_a: GO:0030182 ! neuron differentiation +intersection_of: GO:0030154 ! cell differentiation +intersection_of: results_in_acquisition_of_features_of CL:0008025 ! noradrenergic neuron +relationship: results_in_acquisition_of_features_of CL:0008025 ! noradrenergic neuron +created_by: dph +creation_date: 2009-12-03T10:34:30Z + +[Term] +id: GO:0003358 +name: noradrenergic neuron development +namespace: biological_process +def: "The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell." [GOC:dph] +synonym: "norepinephrine secreting neuron development" EXACT [GOC:dph] +is_a: GO:0048666 ! neuron development +intersection_of: GO:0032502 ! developmental process +intersection_of: results_in_development_of CL:0008025 ! noradrenergic neuron +relationship: part_of GO:0003357 ! noradrenergic neuron differentiation +relationship: results_in_development_of CL:0008025 ! noradrenergic neuron +created_by: dph +creation_date: 2009-12-03T10:38:37Z + [Term] id: GO:0003360 name: brainstem development @@ -20356,6 +20875,18 @@ relationship: results_in_development_of UBERON:0002298 ! brainstem created_by: dph creation_date: 2009-12-03T10:47:20Z +[Term] +id: GO:0003361 +name: noradrenergic neuron differentiation involved in brainstem development +namespace: biological_process +def: "The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem." [GOC:dph] +is_a: GO:0003357 ! noradrenergic neuron differentiation +intersection_of: GO:0003357 ! noradrenergic neuron differentiation +intersection_of: part_of GO:0003360 ! brainstem development +relationship: part_of GO:0003360 ! brainstem development +created_by: dph +creation_date: 2009-12-03T10:53:30Z + [Term] id: GO:0003365 name: establishment of cell polarity involved in ameboidal cell migration @@ -20535,7 +21066,7 @@ id: GO:0003674 name: molecular_function namespace: molecular_function alt_id: GO:0005554 -def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt] +def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex. subset: goslim_candida subset: goslim_chembl @@ -20548,68 +21079,6 @@ is_a: BFO:0000015 ! process disjoint_from: GO:0005575 ! cellular_component disjoint_from: GO:0008150 ! biological_process -[Term] -id: GO:0003676 -name: nucleic acid binding -namespace: molecular_function -alt_id: GO:0000496 -def: "Binding to a nucleic acid." [GOC:jl] -subset: goslim_chembl -subset: goslim_metagenomics -subset: goslim_pir -subset: goslim_plant -synonym: "base pairing" NARROW [] -is_a: GO:0097159 ! organic cyclic compound binding -is_a: GO:1901363 ! heterocyclic compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33696 ! nucleic acid -relationship: has_input CHEBI:33696 ! nucleic acid - -[Term] -id: GO:0003682 -name: chromatin binding -namespace: molecular_function -def: "Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:jl, ISBN:0198506732, PMID:20404130] -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_pir -subset: goslim_plant -subset: goslim_yeast -synonym: "lamin/chromatin binding" NARROW [] -synonym: "microtubule/chromatin interaction" NARROW [] -synonym: "nuclear membrane vesicle binding to chromatin" NARROW [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0000785 ! chromatin -relationship: has_input GO:0000785 ! chromatin - -[Term] -id: GO:0003723 -name: RNA binding -namespace: molecular_function -alt_id: GO:0000498 -alt_id: GO:0044822 -def: "Binding to an RNA molecule or a portion thereof." [GOC:jl, GOC:mah] -subset: goslim_agr -subset: goslim_candida -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_flybase_ribbon -subset: goslim_generic -subset: goslim_mouse -subset: goslim_plant -subset: goslim_yeast -subset: prokaryote_subset -synonym: "base pairing with RNA" NARROW [] -synonym: "poly(A) RNA binding" RELATED [] -synonym: "poly(A)-RNA binding" RELATED [] -synonym: "poly-A RNA binding" RELATED [] -xref: Reactome:R-HSA-203922 "Exportin-5 recognizes 3' overhang of pre-miRNA" -is_a: GO:0003676 ! nucleic acid binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33697 ! ribonucleic acid -relationship: has_input CHEBI:33697 ! ribonucleic acid - [Term] id: GO:0003824 name: catalytic activity @@ -20627,74 +21096,31 @@ xref: Wikipedia:Enzyme is_a: GO:0003674 ! molecular_function [Term] -id: GO:0004857 -name: enzyme inhibitor activity -namespace: molecular_function -alt_id: GO:0048551 -def: "Binds to and stops, prevents or reduces the activity of an enzyme." [GOC:ai, GOC:ebc] -comment: This term should only be used in cases when the regulator directly interacts with the enzyme. -synonym: "metalloenzyme inhibitor activity" NARROW [] -is_a: GO:0030234 ! enzyme regulator activity -is_a: GO:0140678 ! molecular function inhibitor activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_negatively_regulates GO:0003824 ! catalytic activity -relationship: directly_negatively_regulates GO:0003824 ! catalytic activity - -[Term] -id: GO:0005102 -name: signaling receptor binding +id: GO:0004518 +name: nuclease activity namespace: molecular_function -def: "Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:bf, GOC:ceb, ISBN:0198506732] -comment: Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'. -subset: goslim_agr +def: "Catalysis of the hydrolysis of ester linkages within nucleic acids." [ISBN:0198547684] +comment: Note that 'tRNA nucleotidyltransferase activity ; GO:0009022', also known as 'ribonuclease PH', and 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906' do not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. subset: goslim_chembl -subset: goslim_flybase_ribbon -subset: goslim_mouse +subset: goslim_drosophila subset: goslim_plant -synonym: "receptor binding" BROAD [] -synonym: "receptor ligand" NARROW [] -synonym: "receptor-associated protein activity" RELATED [] -xref: Wikipedia:Ligand_(biochemistry) -is_a: GO:0005515 ! protein binding - -[Term] -id: GO:0005126 -name: cytokine receptor binding -namespace: molecular_function -def: "Binding to a cytokine receptor." [GOC:mah, GOC:vw] -synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor binding" EXACT [GOC:add, GOC:mah] -synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor ligand" NARROW [] -is_a: GO:0005102 ! signaling receptor binding +subset: goslim_yeast +is_a: GO:0016788 ! hydrolase activity, acting on ester bonds [Term] -id: GO:0005172 -name: vascular endothelial growth factor receptor binding +id: GO:0004536 +name: DNA nuclease activity namespace: molecular_function -def: "Binding to a vascular endothelial growth factor receptor." [GOC:ai] -synonym: "vascular endothelial growth factor" NARROW [] -synonym: "vascular endothelial growth factor receptor ligand" NARROW [] -synonym: "VEGF receptor binding" EXACT [] -synonym: "VEGFR binding" EXACT [] -is_a: GO:0005126 ! cytokine receptor binding -is_a: GO:0070851 ! growth factor receptor binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000001971 ! vascular endothelial growth factor receptor -relationship: has_input PR:000001971 ! vascular endothelial growth factor receptor - -[Term] -id: GO:0005173 -name: stem cell factor receptor binding -namespace: molecular_function -def: "Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor." [GOC:jl, PMID:10698217] -synonym: "KIT binding" NARROW [] -synonym: "SCF" NARROW [] -synonym: "SCFR binding" EXACT [] -synonym: "stem cell factor" NARROW [] -synonym: "stem cell factor receptor ligand" NARROW [] -is_a: GO:0005126 ! cytokine receptor binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000002065 ! mast/stem cell growth factor receptor -relationship: has_input PR:000002065 ! mast/stem cell growth factor receptor +alt_id: GO:0004537 +def: "Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid." [GOC:mah, ISBN:0198547684] +synonym: "caspase-activated deoxyribonuclease activity" NARROW [] +synonym: "deoxyribonuclease activity" EXACT [] +xref: Reactome:R-HSA-211247 "Cleavage of DNA by DFF40" +xref: Reactome:R-HSA-5685994 "Long-range resection of DNA DSBs by EXO1 or DNA2" +xref: Reactome:R-HSA-6785986 "DNA nucleases unhook the interstrand crosslink (ICL)" +is_a: GO:0004518 ! nuclease activity +is_a: GO:0140097 ! catalytic activity, acting on DNA +relationship: part_of GO:0006259 ! DNA metabolic process [Term] id: GO:0005215 @@ -20759,13 +21185,33 @@ synonym: "dicarboxylate carrier" NARROW [] synonym: "dicarboxylic acid permease activity" RELATED [] synonym: "sodium:dicarboxylate/tricarboxylate symporter activity" NARROW [] xref: Reactome:R-HSA-1614546 "Sulfate is exported to the cytosol in exchange for dicarboxylate" -xref: Reactome:R-HSA-372843 "malate [mitochondrial matrix] + orthophosphate [cytosol] <=> malate [cytosol] + orthophosphate [mitochondrial matrix]" +xref: Reactome:R-HSA-372843 "SLC25A10 mediates exchange of malate and phosphate" is_a: GO:0005342 ! organic acid transmembrane transporter activity intersection_of: GO:0022857 ! transmembrane transporter activity intersection_of: has_primary_input CHEBI:35692 ! dicarboxylic acid relationship: has_primary_input CHEBI:35692 ! dicarboxylic acid relationship: part_of GO:0006835 ! dicarboxylic acid transport +[Term] +id: GO:0005313 +name: L-glutamate transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid." [GOC:ai, GOC:mtg_transport, ISBN:0815340729] +synonym: "glutamate transmembrane transporter activity" BROAD [] +synonym: "glutamate/aspartate porter activity" NARROW [] +synonym: "glutamate/aspartate:sodium symporter activity" NARROW [] +synonym: "L-glutamate transporter activity" BROAD [] +xref: Reactome:R-HSA-210444 "L-Glutamate loading of synaptic vesicle" +xref: Reactome:R-HSA-428052 "SLC17A6,7,8 exchange cytosolic L-Glu for synaptic vesicle H+" +xref: Reactome:R-HSA-5624256 "Defective SLC17A8 does not exchange cytosolic L-Glu for synaptic vesicle H+" +xref: RHEA:66336 {source="skos:broadMatch"} +is_a: GO:0015172 ! acidic amino acid transmembrane transporter activity +is_a: GO:0046943 ! carboxylic acid transmembrane transporter activity +intersection_of: GO:0022857 ! transmembrane transporter activity +intersection_of: has_primary_input CHEBI:29985 ! L-glutamate(1-) +relationship: has_primary_input CHEBI:29985 ! L-glutamate(1-) +relationship: part_of GO:0015813 ! L-glutamate transmembrane transport + [Term] id: GO:0005319 name: lipid transporter activity @@ -20856,103 +21302,6 @@ relationship: has_primary_input CHEBI:24875 ! iron cation relationship: part_of GO:0034755 ! iron ion transmembrane transport property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/17162" xsd:anyURI -[Term] -id: GO:0005488 -name: binding -namespace: molecular_function -def: "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732] -comment: Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. -subset: gocheck_do_not_annotate -subset: goslim_pir -subset: goslim_plant -synonym: "ligand" NARROW [] -xref: Wikipedia:Binding_(molecular) -is_a: GO:0003674 ! molecular_function - -[Term] -id: GO:0005496 -name: steroid binding -namespace: molecular_function -def: "Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene." [GOC:jl, ISBN:0198506732] -subset: goslim_pir -is_a: GO:0008289 ! lipid binding -is_a: GO:0097159 ! organic cyclic compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:35341 ! steroid -relationship: has_input CHEBI:35341 ! steroid - -[Term] -id: GO:0005506 -name: iron ion binding -namespace: molecular_function -def: "Binding to an iron (Fe) ion." [GOC:ai] -synonym: "iron binding" EXACT [] -is_a: GO:0046914 ! transition metal ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:24875 ! iron cation -relationship: has_input CHEBI:24875 ! iron cation - -[Term] -id: GO:0005515 -name: protein binding -namespace: molecular_function -alt_id: GO:0001948 -alt_id: GO:0045308 -def: "Binding to a protein." [GOC:go_curators] -subset: goslim_candida -subset: goslim_chembl -subset: goslim_metagenomics -subset: goslim_pir -subset: goslim_plant -synonym: "glycoprotein binding" NARROW [] -synonym: "protein amino acid binding" EXACT [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000000001 ! protein -relationship: has_input PR:000000001 ! protein - -[Term] -id: GO:0005518 -name: collagen binding -namespace: molecular_function -def: "Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%)." [GOC:ai, ISBN:0198506732] -is_a: GO:0044877 ! protein-containing complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0005581 ! collagen trimer -relationship: has_input GO:0005581 ! collagen trimer - -[Term] -id: GO:0005536 -name: glucose binding -namespace: molecular_function -def: "Binding to D- or L-enantiomers of glucose." [GOC:jl] -is_a: GO:0048029 ! monosaccharide binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:17234 ! glucose -relationship: has_input CHEBI:17234 ! glucose - -[Term] -id: GO:0005539 -name: glycosaminoglycan binding -namespace: molecular_function -def: "Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues." [GOC:jl, ISBN:0198506732] -subset: goslim_chembl -is_a: GO:0097367 ! carbohydrate derivative binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:18085 ! glycosaminoglycan -relationship: has_input CHEBI:18085 ! glycosaminoglycan - -[Term] -id: GO:0005540 -name: hyaluronic acid binding -namespace: molecular_function -def: "Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine." [GOC:jl] -synonym: "hyaluronan binding" EXACT [] -is_a: GO:0005539 ! glycosaminoglycan binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:16336 ! hyaluronic acid -relationship: has_input CHEBI:16336 ! hyaluronic acid - [Term] id: GO:0005575 name: cellular_component @@ -21590,8 +21939,8 @@ name: glycogen metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues in alpha-(1->4) glycosidic linkage, joined together by alpha-(1->6) glycosidic linkages." [ISBN:0198506732] synonym: "glycogen metabolism" EXACT [] -is_a: GO:0006073 ! cellular glucan metabolic process is_a: GO:0006112 ! energy reserve metabolic process +is_a: GO:0044042 ! glucan metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:28087 ! glycogen relationship: has_primary_input_or_output CHEBI:28087 ! glycogen @@ -21639,7 +21988,6 @@ synonym: "glycogenolysis" EXACT [GOC:sl] xref: MetaCyc:GLYCOCAT-PWY is_a: GO:0005977 ! glycogen metabolic process is_a: GO:0009251 ! glucan catabolic process -is_a: GO:0044247 ! cellular polysaccharide catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:28087 ! glycogen relationship: has_primary_input CHEBI:28087 ! glycogen @@ -21653,7 +22001,7 @@ synonym: "regulation of glycogen breakdown" EXACT [] synonym: "regulation of glycogen catabolism" EXACT [] synonym: "regulation of glycogen degradation" EXACT [] synonym: "regulation of glycogenolysis" EXACT [GOC:sl] -is_a: GO:0043471 ! regulation of cellular carbohydrate catabolic process +is_a: GO:0043470 ! regulation of carbohydrate catabolic process is_a: GO:0070873 ! regulation of glycogen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005980 ! glycogen catabolic process @@ -21772,15 +22120,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:18085 ! glycosaminoglycan relationship: has_primary_input CHEBI:18085 ! glycosaminoglycan -[Term] -id: GO:0006073 -name: cellular glucan metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell." [ISBN:0198547684] -synonym: "cellular glucan metabolism" EXACT [] -is_a: GO:0044042 ! glucan metabolic process -is_a: GO:0044264 ! cellular polysaccharide metabolic process - [Term] id: GO:0006082 name: organic acid metabolic process @@ -21900,6 +22239,61 @@ intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:61120 ! nucleobase-containing molecular entity relationship: has_primary_input_or_output CHEBI:61120 ! nucleobase-containing molecular entity +[Term] +id: GO:0006259 +name: DNA metabolic process +namespace: biological_process +alt_id: GO:0055132 +def: "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." [ISBN:0198506732] +subset: goslim_agr +subset: goslim_candida +subset: goslim_chembl +subset: goslim_flybase_ribbon +subset: goslim_metagenomics +subset: goslim_pir +subset: goslim_plant +synonym: "cellular DNA metabolism" EXACT [] +synonym: "DNA metabolism" EXACT [] +is_a: GO:0090304 ! nucleic acid metabolic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_input_or_output CHEBI:16991 ! deoxyribonucleic acid +relationship: has_primary_input_or_output CHEBI:16991 ! deoxyribonucleic acid + +[Term] +id: GO:0006308 +name: DNA catabolic process +namespace: biological_process +def: "The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one." [GOC:go_curators, ISBN:0198506732] +synonym: "DNA breakdown" EXACT [] +synonym: "DNA catabolism" EXACT [] +synonym: "DNA degradation" EXACT [] +is_a: GO:0006259 ! DNA metabolic process +is_a: GO:0009057 ! macromolecule catabolic process +is_a: GO:0034655 ! nucleobase-containing compound catabolic process +intersection_of: GO:0009056 ! catabolic process +intersection_of: has_primary_input CHEBI:16991 ! deoxyribonucleic acid +relationship: has_part GO:0004536 ! DNA nuclease activity +relationship: has_primary_input CHEBI:16991 ! deoxyribonucleic acid + +[Term] +id: GO:0006309 +name: apoptotic DNA fragmentation +namespace: biological_process +alt_id: GO:0008178 +def: "The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments." [GOC:dph, GOC:mah, GOC:mtg_apoptosis, GOC:tb, ISBN:0721639976, PMID:15723341, PMID:23379520] +comment: DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases. In human, these include DNA fragmentation factor (DFF) or caspase-activated DNase (CAD) and endonuclease G (Endo G) (reviewed in PMID:15723341). Caution is needed when apoptotic DNA laddering assays show presence of fragmented DNA. A positive assay may simply reflect the end point of a whole apoptotic process. Unless clear experimental evidence is available to show that a gene product is directly involved in fragmenting DNA, please do not annotate to GO:0006309 'apoptotic DNA fragmentation' and consider annotating instead to a more upstream process such as, e.g., GO:0042981 'regulation of apoptotic process', GO:0006915 'apoptotic process', GO:0097190 'apoptotic signaling pathway'. Also, note that gene products involved in compartmentalization of apoptotic nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). +synonym: "chromatinolysis" BROAD [GOC:mtg_apoptosis] +synonym: "DNA catabolic process during apoptosis" EXACT [] +synonym: "DNA catabolism during apoptosis" EXACT [] +synonym: "DNA fragmentation" BROAD [] +synonym: "DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:cjm, GOC:dph, GOC:tb] +synonym: "endonucleolytic DNA catabolic process involved in apoptosis" EXACT [] +is_a: GO:0006308 ! DNA catabolic process +intersection_of: GO:0006308 ! DNA catabolic process +intersection_of: part_of GO:0030262 ! apoptotic nuclear changes +relationship: part_of GO:0030262 ! apoptotic nuclear changes +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24396" xsd:anyURI + [Term] id: GO:0006325 name: chromatin organization @@ -21926,7 +22320,7 @@ synonym: "DNA replication-independent nuclesome assembly" NARROW [] synonym: "establishment of chromatin architecture" EXACT [GOC:mah] synonym: "establishment or maintenance of chromatin architecture" EXACT [GOC:mah] synonym: "transcription-coupled nucleosome assembly" NARROW [] -is_a: GO:0016043 ! cellular component organization +is_a: GO:0071824 ! protein-DNA complex organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0000785 ! chromatin relationship: results_in_organization_of GO:0000785 ! chromatin @@ -21942,9 +22336,9 @@ subset: goslim_yeast synonym: "RNA breakdown" EXACT [] synonym: "RNA catabolism" EXACT [] synonym: "RNA degradation" EXACT [] +is_a: GO:0009057 ! macromolecule catabolic process is_a: GO:0016070 ! RNA metabolic process is_a: GO:0034655 ! nucleobase-containing compound catabolic process -is_a: GO:0044265 ! cellular macromolecule catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:33697 ! ribonucleic acid relationship: has_primary_input CHEBI:33697 ! ribonucleic acid @@ -21981,8 +22375,8 @@ synonym: "protein formation" EXACT [] synonym: "protein synthesis" EXACT [] synonym: "protein translation" EXACT [] xref: Wikipedia:Translation_(genetics) +is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0019538 ! protein metabolic process -is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:0043043 ! peptide biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:16541 ! protein polypeptide chain @@ -22019,7 +22413,7 @@ def: "The successive addition of amino acid residues to a nascent polypeptide ch subset: goslim_yeast synonym: "protein synthesis elongation" BROAD [] synonym: "translation elongation" EXACT [] -is_a: GO:0034645 ! cellular macromolecule biosynthetic process +is_a: GO:0009059 ! macromolecule biosynthetic process relationship: part_of GO:0006412 ! translation [Term] @@ -22046,10 +22440,11 @@ synonym: "regulation of protein anabolism" EXACT [] synonym: "regulation of protein biosynthesis" EXACT [] synonym: "regulation of protein formation" EXACT [] synonym: "regulation of protein synthesis" EXACT [] +is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:0010608 ! post-transcriptional regulation of gene expression +is_a: GO:0031326 ! regulation of cellular biosynthetic process is_a: GO:0034248 ! regulation of amide metabolic process is_a: GO:0051246 ! regulation of protein metabolic process -is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006412 ! translation relationship: regulates GO:0006412 ! translation @@ -22095,7 +22490,6 @@ synonym: "glycoprotein catabolism" EXACT [] synonym: "glycoprotein degradation" EXACT [] is_a: GO:0009100 ! glycoprotein metabolic process is_a: GO:0030163 ! protein catabolic process -is_a: GO:0044265 ! cellular macromolecule catabolic process is_a: GO:1901136 ! carbohydrate derivative catabolic process intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:17089 ! glycoprotein @@ -22635,9 +23029,10 @@ def: "A homeostatic process involved in the maintenance of a steady state level synonym: "cellular iron ion homeostasis" EXACT [] synonym: "iron homeostasis" BROAD [] is_a: GO:0030003 ! intracellular monoatomic cation homeostasis -is_a: GO:0055072 ! iron ion homeostasis +is_a: GO:0098771 ! inorganic ion homeostasis intersection_of: GO:0055082 ! intracellular chemical homeostasis intersection_of: regulates_levels_of CHEBI:24875 ! iron cation +relationship: regulates_levels_of CHEBI:24875 ! iron cation [Term] id: GO:0006883 @@ -22732,6 +23127,48 @@ intersection_of: occurs_in GO:0005622 ! intracellular anatomical structure relationship: has_target_end_location GO:0005773 ! vacuole relationship: has_target_start_location GO:0005794 ! Golgi apparatus +[Term] +id: GO:0006897 +name: endocytosis +namespace: biological_process +alt_id: GO:0016193 +alt_id: GO:0016196 +alt_id: GO:0098701 +def: "A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle." [GOC:mah, ISBN:0198506732, ISBN:0716731363, Wikipedia:Endocytosis] +subset: goslim_yeast +synonym: "endocytic import into cell" EXACT [] +synonym: "nonselective vesicle endocytosis" RELATED [] +synonym: "plasma membrane invagination" NARROW [] +synonym: "vesicle endocytosis" EXACT [] +xref: Wikipedia:Endocytosis +is_a: GO:0016192 ! vesicle-mediated transport +is_a: GO:0098657 ! import into cell +relationship: has_part GO:0006900 ! vesicle budding from membrane +relationship: has_part GO:0010324 ! membrane invagination +relationship: has_target_end_location GO:0031410 ! cytoplasmic vesicle +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24907" xsd:anyURI +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/25268" xsd:anyURI + +[Term] +id: GO:0006900 +name: vesicle budding from membrane +namespace: biological_process +alt_id: GO:0006902 +alt_id: GO:1902591 +def: "The evagination of a membrane, resulting in formation of a vesicle." [GOC:jid, GOC:tb] +synonym: "membrane evagination" EXACT [] +synonym: "nonselective vesicle assembly" RELATED [] +synonym: "single organism membrane budding" RELATED [GOC:TermGenie] +synonym: "single-organism membrane budding" RELATED [] +synonym: "vesicle biosynthesis" EXACT [] +synonym: "vesicle budding" RELATED [] +synonym: "vesicle formation" EXACT [] +is_a: GO:0016050 ! vesicle organization +is_a: GO:0061024 ! membrane organization +relationship: part_of GO:0016192 ! vesicle-mediated transport +created_by: jl +creation_date: 2013-12-19T15:26:17Z + [Term] id: GO:0006903 name: vesicle targeting @@ -22759,7 +23196,8 @@ name: phagocytosis namespace: biological_process def: "A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles." [ISBN:0198506732] xref: Wikipedia:Phagocytosis -is_a: GO:0016192 ! vesicle-mediated transport +is_a: GO:0006897 ! endocytosis +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24907" xsd:anyURI property_value: RO:0002161 NCBITaxon:4751 [Term] @@ -23173,6 +23611,7 @@ name: Golgi organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_pir +synonym: "Golgi apparatus organization" EXACT [] synonym: "Golgi organisation" EXACT [] synonym: "Golgi organization and biogenesis" RELATED [GOC:mah] is_a: GO:0006996 ! organelle organization @@ -24158,19 +24597,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0060047 ! heart contraction relationship: regulates GO:0060047 ! heart contraction -[Term] -id: GO:0008017 -name: microtubule binding -namespace: molecular_function -def: "Binding to a microtubule, a filament composed of tubulin monomers." [GOC:krc] -synonym: "microtubule severing activity" RELATED [] -synonym: "microtubule/chromatin interaction" RELATED [] -xref: Reactome:R-HSA-9614343 "Viral UL47:UL48 Proteins Bind HCMV Tegumented Virion to Host Microtuble and Dynein complexs" -is_a: GO:0015631 ! tubulin binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0005874 ! microtubule -relationship: has_input GO:0005874 ! microtubule - [Term] id: GO:0008028 name: monocarboxylic acid transmembrane transporter activity @@ -24189,20 +24615,6 @@ intersection_of: has_primary_input CHEBI:25384 ! monocarboxylic acid relationship: has_primary_input CHEBI:25384 ! monocarboxylic acid relationship: part_of GO:0015718 ! monocarboxylic acid transport -[Term] -id: GO:0008047 -name: enzyme activator activity -namespace: molecular_function -alt_id: GO:0010577 -def: "Binds to and increases the activity of an enzyme." [GOC:dph, GOC:mah, GOC:tb] -comment: This term should only be used in cases when the regulator directly interacts with the enzyme. -synonym: "metalloenzyme activator activity" NARROW [] -is_a: GO:0030234 ! enzyme regulator activity -is_a: GO:0140677 ! molecular function activator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_positively_regulates GO:0003824 ! catalytic activity -relationship: directly_positively_regulates GO:0003824 ! catalytic activity - [Term] id: GO:0008078 name: mesodermal cell migration @@ -24260,21 +24672,6 @@ intersection_of: results_in_transport_along GO:0005874 ! microtubule relationship: has_target_start_location GO:0098793 ! presynapse relationship: occurs_in GO:1904115 ! axon cytoplasm -[Term] -id: GO:0008092 -name: cytoskeletal protein binding -namespace: molecular_function -def: "Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton)." [GOC:mah] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_flybase_ribbon -subset: goslim_generic -subset: goslim_mouse -subset: goslim_yeast -subset: prokaryote_subset -is_a: GO:0005515 ! protein binding - [Term] id: GO:0008104 name: protein localization @@ -24298,23 +24695,6 @@ intersection_of: has_primary_input PR:000000001 ! protein relationship: has_primary_input PR:000000001 ! protein property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI -[Term] -id: GO:0008134 -name: transcription factor binding -namespace: molecular_function -def: "Binding to a transcription factor, a protein required to initiate or regulate transcription." [ISBN:0198506732] -comment: Note that this term should not be used for direct annotation. Please consier one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding. -subset: gocheck_do_not_annotate -subset: goslim_agr -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_metagenomics -subset: goslim_yeast -synonym: "TF binding" EXACT [] -synonym: "transcription regulator binding" RELATED [] -is_a: GO:0005515 ! protein binding -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI - [Term] id: GO:0008150 name: biological_process @@ -24322,7 +24702,7 @@ namespace: biological_process alt_id: GO:0000004 alt_id: GO:0007582 alt_id: GO:0044699 -def: "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] +def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt] comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. subset: goslim_candida subset: goslim_chembl @@ -24337,6 +24717,7 @@ synonym: "single organism process" RELATED [] synonym: "single-organism process" RELATED [] xref: Wikipedia:Biological_process is_a: BFO:0000015 ! process +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z @@ -24396,11 +24777,6 @@ name: cell death namespace: biological_process def: "Any biological process that results in permanent cessation of all vital functions of a cell. A cell should be considered dead when any one of the following molecular or morphological criteria is met: (1) the cell has lost the integrity of its plasma membrane; (2) the cell, including its nucleus, has undergone complete fragmentation into discrete bodies (frequently referred to as apoptotic bodies). The cell corpse (or its fragments) may be engulfed by an adjacent cell in vivo, but engulfment of whole cells should not be considered a strict criteria to define cell death as, under some circumstances, live engulfed cells can be released from phagosomes (see PMID:18045538)." [GOC:mah, GOC:mtg_apoptosis, PMID:25236395] comment: This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term. -subset: goslim_agr -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_mouse -subset: goslim_plant synonym: "accidental cell death" RELATED [] synonym: "necrosis" RELATED [] is_a: GO:0009987 ! cellular process @@ -24469,27 +24845,6 @@ intersection_of: negatively_regulates GO:0008283 ! cell population proliferation relationship: negatively_regulates GO:0008283 ! cell population proliferation property_value: RO:0002161 NCBITaxon:4751 -[Term] -id: GO:0008289 -name: lipid binding -namespace: molecular_function -def: "Binding to a lipid." [GOC:ai] -subset: goslim_agr -subset: goslim_candida -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_flybase_ribbon -subset: goslim_generic -subset: goslim_mouse -subset: goslim_pir -subset: goslim_plant -subset: goslim_yeast -subset: prokaryote_subset -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:18059 ! lipid -relationship: has_input CHEBI:18059 ! lipid - [Term] id: GO:0008291 name: acetylcholine metabolic process @@ -24528,7 +24883,7 @@ alt_id: GO:0015463 def: "Enables the transfer of a protein from one side of a membrane to the other." [GOC:jl] synonym: "protein channel activity" RELATED [] xref: Reactome:R-HSA-1268022 "TOMM40 complex translocates proteins from the cytosol to the mitochondrial intermembrane space" -xref: Reactome:R-HSA-1299475 "TIMM23 PAM translocates proteins from the mitochndrial intermebrane space to the mitochondrial matrix" +xref: Reactome:R-HSA-1299475 "TIMM23 PAM translocates proteins from the mitochondrial intermembrane space to the mitochondrial matrix" xref: Reactome:R-HSA-184269 "Monoubiquitinated N-myristoyl GAG polyprotein is targeted to the late endosomal vesicle membrane by the ESCRT-I complex" xref: Reactome:R-HSA-3149434 "Transport of GAG to the Plasma Membrane" xref: Reactome:R-HSA-5205661 "Pink1 is recruited from the cytoplasm to the mitochondria" @@ -24677,6 +25032,8 @@ name: organic anion transmembrane transporter activity namespace: molecular_function def: "Enables the transfer of organic anions from one side of a membrane to the other. Organic anions are atoms or small molecules with a negative charge which contain carbon in covalent linkage." [GOC:ai] xref: Reactome:R-HSA-2142859 "Growing HA is extruded from the cell by ABCC5" +xref: Reactome:R-HSA-561041 "OAT1-3 transport organic anions with antiport of dicarboxylic acids" +xref: Reactome:R-HSA-9794830 "SLC22A8 transports Cipro into renal cell" is_a: GO:0022857 ! transmembrane transporter activity intersection_of: GO:0022857 ! transmembrane transporter activity intersection_of: has_primary_input CHEBI:25696 ! organic anion @@ -24819,6 +25176,9 @@ alt_id: GO:0044266 def: "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] subset: goslim_pir synonym: "biopolymer catabolic process" EXACT [GOC:mtg_chebi_dec09] +synonym: "cellular macromolecule catabolic process" RELATED [] +synonym: "cellular macromolecule catabolism" RELATED [] +synonym: "cellular macromolecule degradation" RELATED [] synonym: "macromolecule breakdown" EXACT [] synonym: "macromolecule catabolism" EXACT [] synonym: "macromolecule degradation" EXACT [] @@ -24867,6 +25227,7 @@ is_a: GO:1901576 ! organic substance biosynthetic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:33694 ! biomacromolecule relationship: has_primary_output CHEBI:33694 ! biomacromolecule +property_value: IAO:0000233 "http://amigo.geneontology.org/amigo/term/GO:0070589" xsd:anyURI [Term] id: GO:0009063 @@ -24935,7 +25296,6 @@ def: "The chemical reactions and pathways involving glycoproteins, a protein tha subset: goslim_drosophila synonym: "glycoprotein metabolism" EXACT [] is_a: GO:0019538 ! protein metabolic process -is_a: GO:0044260 ! cellular macromolecule metabolic process is_a: GO:1901135 ! carbohydrate derivative metabolic process intersection_of: GO:0008152 ! metabolic process intersection_of: has_primary_input_or_output CHEBI:17089 ! glycoprotein @@ -24950,8 +25310,8 @@ synonym: "glycoprotein anabolism" EXACT [] synonym: "glycoprotein biosynthesis" EXACT [] synonym: "glycoprotein formation" EXACT [] synonym: "glycoprotein synthesis" EXACT [] +is_a: GO:0009059 ! macromolecule biosynthetic process is_a: GO:0009100 ! glycoprotein metabolic process -is_a: GO:0034645 ! cellular macromolecule biosynthetic process is_a: GO:1901137 ! carbohydrate derivative biosynthetic process is_a: GO:1901566 ! organonitrogen compound biosynthetic process intersection_of: GO:0009058 ! biosynthetic process @@ -24979,8 +25339,8 @@ synonym: "glucan anabolism" EXACT [] synonym: "glucan biosynthesis" EXACT [] synonym: "glucan formation" EXACT [] synonym: "glucan synthesis" EXACT [] -is_a: GO:0006073 ! cellular glucan metabolic process -is_a: GO:0033692 ! cellular polysaccharide biosynthetic process +is_a: GO:0000271 ! polysaccharide biosynthetic process +is_a: GO:0044042 ! glucan metabolic process intersection_of: GO:0009058 ! biosynthetic process intersection_of: has_primary_output CHEBI:37163 ! glucan relationship: has_primary_output CHEBI:37163 ! glucan @@ -25691,6 +26051,7 @@ alt_id: GO:0008151 alt_id: GO:0044763 alt_id: GO:0050875 def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. subset: gocheck_do_not_annotate subset: goslim_plant synonym: "cell growth and/or maintenance" NARROW [] @@ -25874,6 +26235,18 @@ intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0012505 ! endomembrane system relationship: results_in_organization_of GO:0012505 ! endomembrane system +[Term] +id: GO:0010324 +name: membrane invagination +namespace: biological_process +alt_id: GO:1902534 +def: "The infolding of a membrane." [GOC:tb] +subset: goslim_yeast +synonym: "single-organism membrane invagination" RELATED [] +is_a: GO:0061024 ! membrane organization +created_by: jl +creation_date: 2013-12-02T13:58:34Z + [Term] id: GO:0010453 name: regulation of cell fate commitment @@ -26056,8 +26429,8 @@ id: GO:0010559 name: regulation of glycoprotein biosynthetic process namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] +is_a: GO:0010556 ! regulation of macromolecule biosynthetic process is_a: GO:1903018 ! regulation of glycoprotein metabolic process -is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009101 ! glycoprotein biosynthetic process relationship: regulates GO:0009101 ! glycoprotein biosynthetic process @@ -26069,7 +26442,6 @@ namespace: biological_process def: "Any process that increases the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process is_a: GO:0010559 ! regulation of glycoprotein biosynthetic process -is_a: GO:0031328 ! positive regulation of cellular biosynthetic process is_a: GO:1903020 ! positive regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0009101 ! glycoprotein biosynthetic process @@ -26080,9 +26452,9 @@ id: GO:0010561 name: negative regulation of glycoprotein biosynthetic process namespace: biological_process def: "Any process that decreases the rate, frequency, or extent of the chemical reactions and pathways resulting in the formation of a glycoprotein, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:dph, GOC:tb] +is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0010559 ! regulation of glycoprotein biosynthetic process is_a: GO:1903019 ! negative regulation of glycoprotein metabolic process -is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0009101 ! glycoprotein biosynthetic process relationship: negatively_regulates GO:0009101 ! glycoprotein biosynthetic process @@ -26613,41 +26985,6 @@ intersection_of: results_in_acquisition_of_features_of CL:0000221 ! ectodermal c relationship: part_of GO:0007398 ! ectoderm development relationship: results_in_acquisition_of_features_of CL:0000221 ! ectodermal cell -[Term] -id: GO:0010675 -name: regulation of cellular carbohydrate metabolic process -namespace: biological_process -def: "Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:dph, GOC:tb] -is_a: GO:0006109 ! regulation of carbohydrate metabolic process -is_a: GO:0031323 ! regulation of cellular metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0044262 ! cellular carbohydrate metabolic process -relationship: regulates GO:0044262 ! cellular carbohydrate metabolic process - -[Term] -id: GO:0010676 -name: positive regulation of cellular carbohydrate metabolic process -namespace: biological_process -def: "Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:dph, GOC:tb] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process -is_a: GO:0031325 ! positive regulation of cellular metabolic process -is_a: GO:0045913 ! positive regulation of carbohydrate metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0044262 ! cellular carbohydrate metabolic process -relationship: positively_regulates GO:0044262 ! cellular carbohydrate metabolic process - -[Term] -id: GO:0010677 -name: negative regulation of cellular carbohydrate metabolic process -namespace: biological_process -def: "Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:dph, GOC:tb] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process -is_a: GO:0031324 ! negative regulation of cellular metabolic process -is_a: GO:0045912 ! negative regulation of carbohydrate metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0044262 ! cellular carbohydrate metabolic process -relationship: negatively_regulates GO:0044262 ! cellular carbohydrate metabolic process - [Term] id: GO:0010700 name: negative regulation of norepinephrine secretion @@ -27153,7 +27490,7 @@ name: regulation of glucose metabolic process namespace: biological_process def: "Any process that modulates the rate, frequency or extent of glucose metabolism. Glucose metabolic processes are the chemical reactions and pathways involving glucose, the aldohexose gluco-hexose." [GOC:BHF, GOC:tb] synonym: "regulation of glucose metabolism" EXACT [GOC:tb] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process +is_a: GO:0006109 ! regulation of carbohydrate metabolic process is_a: GO:0062012 ! regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006006 ! glucose metabolic process @@ -27165,8 +27502,8 @@ name: positive regulation of glucose metabolic process namespace: biological_process def: "Any process that increases the rate, frequency or extent of glucose metabolism. Glucose metabolic processes are the chemical reactions and pathways involving glucose, the aldohexose gluco-hexose." [GOC:BHF, GOC:tb] synonym: "positive regulation of glucose metabolism" EXACT [GOC:tb] -is_a: GO:0010676 ! positive regulation of cellular carbohydrate metabolic process is_a: GO:0010906 ! regulation of glucose metabolic process +is_a: GO:0045913 ! positive regulation of carbohydrate metabolic process is_a: GO:0062013 ! positive regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006006 ! glucose metabolic process @@ -27237,27 +27574,6 @@ intersection_of: GO:0007019 ! microtubule depolymerization intersection_of: occurs_in GO:0005737 ! cytoplasm relationship: occurs_in GO:0005737 ! cytoplasm -[Term] -id: GO:0010941 -name: regulation of cell death -namespace: biological_process -def: "Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] -is_a: GO:0050794 ! regulation of cellular process -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0008219 ! cell death -relationship: regulates GO:0008219 ! cell death - -[Term] -id: GO:0010942 -name: positive regulation of cell death -namespace: biological_process -def: "Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:dph, GOC:tb] -is_a: GO:0010941 ! regulation of cell death -is_a: GO:0048522 ! positive regulation of cellular process -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0008219 ! cell death -relationship: positively_regulates GO:0008219 ! cell death - [Term] id: GO:0010948 name: negative regulation of cell cycle process @@ -27288,9 +27604,7 @@ id: GO:0010962 name: regulation of glucan biosynthetic process namespace: biological_process def: "Any process that modulates the rate, frequency, or extent of glucan biosynthesis. Glucan biosynthetic processes are the chemical reactions and pathways resulting in the formation of glucans, polysaccharides consisting only of glucose residues." [GOC:dph, GOC:tb] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process is_a: GO:0032885 ! regulation of polysaccharide biosynthetic process -is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009250 ! glucan biosynthetic process relationship: regulates GO:0009250 ! glucan biosynthetic process @@ -27396,7 +27710,12 @@ namespace: biological_process alt_id: GO:0016244 def: "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." [GOC:lr, GOC:mtg_apoptosis] comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. +subset: goslim_agr +subset: goslim_chembl +subset: goslim_drosophila subset: goslim_generic +subset: goslim_mouse +subset: goslim_plant subset: prokaryote_subset synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] @@ -27410,6 +27729,7 @@ is_a: GO:0008219 ! cell death intersection_of: GO:0008219 ! cell death intersection_of: starts_with GO:0007165 ! signal transduction relationship: starts_with GO:0007165 ! signal transduction +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24835" xsd:anyURI [Term] id: GO:0012505 @@ -28374,6 +28694,9 @@ xref: Reactome:R-HSA-549304 "OCT3 mediates renal clearance of organic cations" xref: Reactome:R-HSA-549322 "OCT1 transports organic cations out of hepatic cells" xref: Reactome:R-HSA-561054 "OCT2 mediates tubular secretion of organic cations in the kidney" xref: Reactome:R-HSA-561072 "OCT3 mediates renal uptake of organic cations" +xref: Reactome:R-HSA-9794270 "SLCO1A2 transports Cipro(1+) into the cytosol" +xref: Reactome:R-HSA-9794523 "SLC22A1 transports Cipro into renal cell" +xref: Reactome:R-HSA-9795207 "SLC22A1 transports Cipro into hepatic cell" is_a: GO:0022857 ! transmembrane transporter activity intersection_of: GO:0022857 ! transmembrane transporter activity intersection_of: has_primary_input CHEBI:25697 ! organic cation @@ -28459,6 +28782,7 @@ xref: Reactome:R-HSA-194083 "SLCO1B1 transports ALB:(GCCA,TCCA) from extracellul xref: Reactome:R-HSA-194130 "Transport (influx) of bile salts and acids by OATP-A" xref: Reactome:R-HSA-5661184 "Defective SLCO1B1 does not transport BIL from extracellular region (blood) to cytosol (hepatocyte)" xref: Reactome:R-HSA-5661198 "Defective SLCO1B3 does not transport BIL from extracellular region (blood) to cytosol (hepatocyte)" +xref: Reactome:R-HSA-9733964 "SLC51A:SLC51B transports bile salts from cytosol to extracellular region" is_a: GO:0005319 ! lipid transporter activity is_a: GO:0008028 ! monocarboxylic acid transmembrane transporter activity is_a: GO:1901618 ! organic hydroxy compound transmembrane transporter activity @@ -28594,6 +28918,16 @@ intersection_of: has_primary_input CHEBI:33709 ! amino acid relationship: has_primary_input CHEBI:33709 ! amino acid relationship: part_of GO:0003333 {http://purl.org/dc/terms/source="GO_REF:0000090"} ! amino acid transmembrane transport +[Term] +id: GO:0015172 +name: acidic amino acid transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3." [GOC:ai, GOC:mtg_transport, ISBN:0815340729] +synonym: "acidic amino acid transporter activity" BROAD [] +xref: Reactome:R-HSA-372448 "SLC25A12,13 exchange cytosolic L-Glu for mitochondrial matrix L-Asp" +is_a: GO:0015171 ! amino acid transmembrane transporter activity +relationship: part_of GO:0015800 ! acidic amino acid transport + [Term] id: GO:0015179 name: L-amino acid transmembrane transporter activity @@ -28647,13 +28981,6 @@ namespace: cellular_component def: "The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins." [GOC:jl, ISBN:0395825172] is_a: GO:0005856 ! cytoskeleton -[Term] -id: GO:0015631 -name: tubulin binding -namespace: molecular_function -def: "Binding to monomeric or multimeric forms of tubulin, including microtubules." [GOC:clt] -is_a: GO:0008092 ! cytoskeletal protein binding - [Term] id: GO:0015669 name: gas transport @@ -28790,6 +29117,21 @@ intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:59869 ! L-alpha-amino acid zwitterion relationship: has_primary_input CHEBI:59869 ! L-alpha-amino acid zwitterion +[Term] +id: GO:0015813 +name: L-glutamate transmembrane transport +namespace: biological_process +alt_id: GO:0089711 +def: "The directed movement of L-glutamate across a membrane." [PMID:21307582] +synonym: "L-glutamate transport" BROAD [] +synonym: "mitochondrial aspartate/glutamate transport" RELATED [] +is_a: GO:0003333 ! amino acid transmembrane transport +is_a: GO:0051938 ! L-glutamate import +is_a: GO:1905039 ! carboxylic acid transmembrane transport +intersection_of: GO:0015800 ! acidic amino acid transport +intersection_of: has_primary_input CHEBI:29985 ! L-glutamate(1-) +intersection_of: results_in_transport_across GO:0016020 ! membrane + [Term] id: GO:0015833 name: peptide transport @@ -28861,6 +29203,19 @@ intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:18282 ! nucleobase relationship: has_primary_input CHEBI:18282 ! nucleobase +[Term] +id: GO:0015869 +name: protein-DNA complex transport +namespace: biological_process +def: "The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +synonym: "DNA-protein complex transport" EXACT [GOC:mah] +is_a: GO:0006886 ! intracellular protein transport +is_a: GO:0015931 ! nucleobase-containing compound transport +is_a: GO:0031503 ! protein-containing complex localization +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input GO:0032993 ! protein-DNA complex +relationship: has_primary_input GO:0032993 ! protein-DNA complex + [Term] id: GO:0015870 name: acetylcholine transport @@ -29235,9 +29590,10 @@ relationship: results_in_development_of GO:0030425 ! dendrite id: GO:0016477 name: cell migration namespace: biological_process -def: "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms." [GOC:cjm, GOC:dph, GOC:ems, GOC:pf, Wikipedia:Cell_migration] +def: "The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues." [GOC:cjm, GOC:dph, GOC:ems, GOC:pf, Wikipedia:Cell_migration] xref: Wikipedia:Cell_migration is_a: GO:0048870 ! cell motility +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24787" xsd:anyURI [Term] id: GO:0016525 @@ -29266,29 +29622,6 @@ intersection_of: part_of CL:0000187 ! muscle cell relationship: part_of CL:0000187 ! muscle cell property_value: RO:0002161 NCBITaxon:4751 -[Term] -id: GO:0016595 -name: glutamate binding -namespace: molecular_function -def: "Binding to glutamate, the anion of 2-aminopentanedioic acid." [GOC:ai] -synonym: "glutamic acid binding" EXACT [] -is_a: GO:0031406 ! carboxylic acid binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:14321 ! glutamate(1-) -relationship: has_input CHEBI:14321 ! glutamate(1-) - -[Term] -id: GO:0016597 -name: amino acid binding -namespace: molecular_function -def: "Binding to an amino acid, organic acids containing one or more amino substituents." [GOC:ai] -subset: goslim_metagenomics -subset: goslim_pir -is_a: GO:0043177 ! organic acid binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33709 ! amino acid -relationship: has_input CHEBI:33709 ! amino acid - [Term] id: GO:0016740 name: transferase activity @@ -29322,16 +29655,44 @@ xref: EC:2.7.-.- is_a: GO:0016740 ! transferase activity [Term] -id: GO:0017046 -name: peptide hormone binding +id: GO:0016787 +name: hydrolase activity namespace: molecular_function -def: "Binding to a peptide with hormonal activity in animals." [GOC:jl, ISBN:0198506732] -synonym: "polypeptide hormone binding" EXACT [] -is_a: GO:0042277 ! peptide binding -is_a: GO:0042562 ! hormone binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:25905 ! peptide hormone -relationship: has_input CHEBI:25905 ! peptide hormone +def: "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc." [ISBN:0198506732] +subset: goslim_candida +subset: goslim_chembl +subset: goslim_drosophila +subset: goslim_generic +subset: goslim_metagenomics +subset: goslim_mouse +subset: goslim_pir +subset: goslim_plant +subset: goslim_yeast +subset: prokaryote_subset +xref: EC:3.-.-.- +xref: Reactome:R-HSA-1236938 "Partial proteolysis of antigen in phagolysosomes" +xref: Reactome:R-HSA-2029475 "Production of AA by iPLA2 upon FCGR activation" +xref: Reactome:R-HSA-5694583 "ABHD4 hydrolyses NAPE" +xref: Reactome:R-HSA-5695964 "ABHD14B hydrolyses PNPB" +xref: Reactome:R-HSA-6786190 "CMBL hydrolyses OM to OLMS" +xref: Reactome:R-HSA-6788295 "HDHD1:Mg2+ dephosphorylates PURIDP" +xref: Reactome:R-HSA-8938314 "ENPPs hydrolyse CoA-SH to PPANT, PAP" +xref: Reactome:R-HSA-8952137 "Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate" +is_a: GO:0003824 ! catalytic activity + +[Term] +id: GO:0016788 +name: hydrolase activity, acting on ester bonds +namespace: molecular_function +def: "Catalysis of the hydrolysis of any ester bond." [GOC:jl] +subset: goslim_chembl +synonym: "esterase activity" EXACT [] +xref: EC:3.1.-.- +xref: Reactome:R-HSA-162729 "uPAR-acyl-GPI + H2O -> uPAR + long-chain fatty acid" +xref: Reactome:R-HSA-9023617 "Butyrylcholinesterase hydrolyzes acyl Ghrelin" +xref: Reactome:R-HSA-9023619 "Platelet-activating factor acetylhydrolase (PLA2G7) hydrolyzes acyl Ghrelin" +xref: Reactome:R-HSA-9749609 "BCHE hydrolyzes ASA-" +is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0017085 @@ -29384,10 +29745,11 @@ synonym: "negative regulation of protein synthesis" EXACT [] synonym: "protein biosynthesis inhibitor activity" RELATED [] synonym: "protein biosynthetic process inhibitor activity" RELATED [] is_a: GO:0006417 ! regulation of translation +is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0010629 ! negative regulation of gene expression +is_a: GO:0031327 ! negative regulation of cellular biosynthetic process is_a: GO:0034249 ! negative regulation of amide metabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process -is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006412 ! translation relationship: negatively_regulates GO:0006412 ! translation @@ -29459,38 +29821,6 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: jl creation_date: 2012-09-19T16:01:37Z -[Term] -id: GO:0019207 -name: kinase regulator activity -namespace: molecular_function -def: "Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:ai] -is_a: GO:0030234 ! enzyme regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_regulates GO:0016301 ! kinase activity -relationship: directly_regulates GO:0016301 ! kinase activity - -[Term] -id: GO:0019209 -name: kinase activator activity -namespace: molecular_function -def: "Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:ai] -is_a: GO:0008047 ! enzyme activator activity -is_a: GO:0019207 ! kinase regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_positively_regulates GO:0016301 ! kinase activity -relationship: directly_positively_regulates GO:0016301 ! kinase activity - -[Term] -id: GO:0019210 -name: kinase inhibitor activity -namespace: molecular_function -def: "Binds to and stops, prevents or reduces the activity of a kinase." [GOC:mah] -is_a: GO:0004857 ! enzyme inhibitor activity -is_a: GO:0019207 ! kinase regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_negatively_regulates GO:0016301 ! kinase activity -relationship: directly_negatively_regulates GO:0016301 ! kinase activity - [Term] id: GO:0019216 name: regulation of lipid metabolic process @@ -29692,6 +30022,20 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:33655 ! aromatic compound relationship: has_primary_input CHEBI:33655 ! aromatic compound +[Term] +id: GO:0019478 +name: D-amino acid catabolic process +namespace: biological_process +def: "The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids." [GOC:ai, GOC:jsg] +synonym: "D-amino acid breakdown" EXACT [] +synonym: "D-amino acid catabolism" EXACT [] +synonym: "D-amino acid degradation" EXACT [] +is_a: GO:0046416 ! D-amino acid metabolic process +is_a: GO:1901575 ! organic substance catabolic process +intersection_of: GO:0009056 ! catabolic process +intersection_of: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion + [Term] id: GO:0019538 name: protein metabolic process @@ -29797,20 +30141,6 @@ intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:64708 ! one-carbon compound relationship: has_primary_input CHEBI:64708 ! one-carbon compound -[Term] -id: GO:0019825 -name: oxygen binding -namespace: molecular_function -def: "Binding to oxygen (O2)." [GOC:jl] -subset: goslim_pir -subset: goslim_plant -synonym: "cytochrome P450" NARROW [] -synonym: "cytochrome P450 activity" RELATED [] -is_a: GO:0036094 ! small molecule binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:15379 ! dioxygen -relationship: has_input CHEBI:15379 ! dioxygen - [Term] id: GO:0019867 name: outer membrane @@ -29909,6 +30239,16 @@ intersection_of: results_in_acquisition_of_features_of CL:0011001 ! spinal cord relationship: part_of GO:0021517 ! ventral spinal cord development relationship: results_in_acquisition_of_features_of CL:0011001 ! spinal cord motor neuron +[Term] +id: GO:0021523 +name: somatic motor neuron differentiation +namespace: biological_process +def: "The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate." [GO_REF:0000021, GOC:cls, GOC:dgh, GOC:dph, GOC:jid, PMID:11262869] +is_a: GO:0021522 ! spinal cord motor neuron differentiation +intersection_of: GO:0030154 ! cell differentiation +intersection_of: results_in_acquisition_of_features_of CL:0005024 ! somatomotor neuron +relationship: results_in_acquisition_of_features_of CL:0005024 ! somatomotor neuron + [Term] id: GO:0021532 name: neural tube patterning @@ -31322,15 +31662,15 @@ relationship: results_in_disassembly_of GO:0031012 ! extracellular matrix [Term] id: GO:0022618 -name: ribonucleoprotein complex assembly +name: protein-RNA complex assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex." [GOC:jl] subset: goslim_chembl -synonym: "protein-RNA complex assembly" EXACT [] +synonym: "ribonucleoprotein complex assembly" EXACT [] synonym: "RNA-protein complex assembly" EXACT [] synonym: "RNP complex assembly" EXACT [] is_a: GO:0065003 ! protein-containing complex assembly -is_a: GO:0071826 ! ribonucleoprotein complex subunit organization +is_a: GO:0071826 ! protein-RNA complex organization intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:1990904 ! ribonucleoprotein complex relationship: part_of GO:0022613 ! ribonucleoprotein complex biogenesis @@ -31421,6 +31761,7 @@ id: GO:0022898 name: regulation of transmembrane transporter activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transmembrane transporter activity." [GOC:dph, GOC:mtg_cardio, GOC:mtg_transport] +subset: term_scheduled_for_obsoletion is_a: GO:0032409 ! regulation of transporter activity is_a: GO:0034762 ! regulation of transmembrane transport intersection_of: GO:0065007 ! biological regulation @@ -31439,28 +31780,6 @@ intersection_of: part_of GO:0010468 ! regulation of gene expression relationship: part_of GO:0010468 ! regulation of gene expression creation_date: 2010-02-16T09:30:50Z -[Term] -id: GO:0023023 -name: MHC protein complex binding -namespace: molecular_function -def: "Binding to a major histocompatibility complex." [GOC:mtg_signal, GOC:vw] -is_a: GO:0044877 ! protein-containing complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0042611 ! MHC protein complex -relationship: has_input GO:0042611 ! MHC protein complex -creation_date: 2010-02-16T09:30:50Z - -[Term] -id: GO:0023026 -name: MHC class II protein complex binding -namespace: molecular_function -def: "Binding to a class II major histocompatibility complex." [GOC:mtg_signal, GOC:vw] -is_a: GO:0023023 ! MHC protein complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0042613 ! MHC class II protein complex -relationship: has_input GO:0042613 ! MHC class II protein complex -creation_date: 2010-02-16T09:30:50Z - [Term] id: GO:0023051 name: regulation of signaling @@ -31494,7 +31813,7 @@ synonym: "signaling process" EXACT [] synonym: "signalling" EXACT [] synonym: "signalling process" RELATED [GOC:mah] synonym: "single organism signaling" RELATED [] -is_a: GO:0008150 ! biological_process +is_a: GO:0050789 ! regulation of biological process created_by: jl creation_date: 2010-02-16T09:30:50Z @@ -31767,6 +32086,17 @@ intersection_of: results_in_acquisition_of_features_of CL:0000763 ! myeloid cell relationship: part_of GO:0030097 ! hemopoiesis relationship: results_in_acquisition_of_features_of CL:0000763 ! myeloid cell +[Term] +id: GO:0030100 +name: regulation of endocytosis +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of endocytosis." [GOC:go_curators] +is_a: GO:0051128 ! regulation of cellular component organization +is_a: GO:0060627 ! regulation of vesicle-mediated transport +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006897 ! endocytosis +relationship: regulates GO:0006897 ! endocytosis + [Term] id: GO:0030133 name: transport vesicle @@ -31796,7 +32126,7 @@ property_value: RO:0002161 NCBITaxon:4890 id: GO:0030154 name: cell differentiation namespace: biological_process -def: "The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] +def: "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila @@ -31808,6 +32138,7 @@ is_a: GO:0048869 ! cellular developmental process intersection_of: GO:0048869 ! cellular developmental process intersection_of: results_in_acquisition_of_features_of CL:0000000 ! cell relationship: results_in_acquisition_of_features_of CL:0000000 ! cell +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24390" xsd:anyURI [Term] id: GO:0030155 @@ -32037,29 +32368,6 @@ intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000235 ! macrophage relationship: results_in_acquisition_of_features_of CL:0000235 ! macrophage -[Term] -id: GO:0030234 -name: enzyme regulator activity -namespace: molecular_function -alt_id: GO:0010576 -def: "Binds to and modulates the activity of an enzyme." [GOC:dph, GOC:mah, GOC:tb] -comment: This term should only be used in cases when the regulator directly interacts with the enzyme. -subset: goslim_agr -subset: goslim_candida -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_mouse -subset: goslim_pir -subset: goslim_plant -subset: goslim_yeast -synonym: "catalytic regulator activity" EXACT [GOC:dph] -synonym: "enzyme modulator" EXACT [] -synonym: "metalloenzyme regulator activity" NARROW [] -is_a: GO:0098772 ! molecular function regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: regulates GO:0003824 ! catalytic activity -relationship: regulates GO:0003824 ! catalytic activity - [Term] id: GO:0030239 name: myofibril assembly @@ -32074,38 +32382,6 @@ intersection_of: results_in_assembly_of GO:0030016 ! myofibril relationship: part_of GO:0055002 ! striated muscle cell development relationship: results_in_assembly_of GO:0030016 ! myofibril -[Term] -id: GO:0030246 -name: carbohydrate binding -namespace: molecular_function -alt_id: GO:0005529 -def: "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates." [GOC:mah] -subset: goslim_agr -subset: goslim_chembl -subset: goslim_drosophila -subset: goslim_flybase_ribbon -subset: goslim_metagenomics -subset: goslim_pir -subset: goslim_plant -synonym: "selectin" RELATED [] -synonym: "sugar binding" EXACT [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:16646 ! carbohydrate -relationship: has_input CHEBI:16646 ! carbohydrate - -[Term] -id: GO:0030247 -name: polysaccharide binding -namespace: molecular_function -alt_id: GO:0002506 -def: "Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically." [GOC:mah] -synonym: "polysaccharide assembly with MHC class II protein complex" NARROW [] -is_a: GO:0030246 ! carbohydrate binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:18154 ! polysaccharide -relationship: has_input CHEBI:18154 ! polysaccharide - [Term] id: GO:0030261 name: chromosome condensation @@ -32452,19 +32728,21 @@ intersection_of: results_in_movement_of CL:0000738 ! leukocyte id: GO:0030642 name: intracellular sulfate ion homeostasis namespace: biological_process -def: "A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell." [GOC:mah] +def: "A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell." [GOC:mah, PMID:24193406] synonym: "cellular sulfate ion homeostasis" EXACT [] synonym: "sulphate ion homeostasis" BROAD [] is_a: GO:0055063 ! sulfate ion homeostasis is_a: GO:0055082 ! intracellular chemical homeostasis intersection_of: GO:0055082 ! intracellular chemical homeostasis intersection_of: regulates_levels_of CHEBI:16189 ! sulfate +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24514" xsd:anyURI [Term] id: GO:0030643 name: intracellular phosphate ion homeostasis namespace: biological_process def: "A homeostatic process involved in the maintenance of a steady state level of phosphate ions within a cell." [GOC:mah] +subset: goslim_pombe synonym: "cellular phosphate ion homeostasis" EXACT [] is_a: GO:0055062 ! phosphate ion homeostasis is_a: GO:0055082 ! intracellular chemical homeostasis @@ -33544,28 +33822,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006952 ! defense response relationship: positively_regulates GO:0006952 ! defense response -[Term] -id: GO:0031402 -name: sodium ion binding -namespace: molecular_function -def: "Binding to a sodium ion (Na+)." [GOC:mah] -synonym: "Na+ ion binding" EXACT [] -is_a: GO:0031420 ! alkali metal ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:29101 ! sodium(1+) -relationship: has_input CHEBI:29101 ! sodium(1+) - -[Term] -id: GO:0031406 -name: carboxylic acid binding -namespace: molecular_function -def: "Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-)." [GOC:mah, ISBN:0198506732] -subset: goslim_pir -is_a: GO:0043168 ! anion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:29067 ! carboxylic acid anion -relationship: has_input CHEBI:29067 ! carboxylic acid anion - [Term] id: GO:0031410 name: cytoplasmic vesicle @@ -33598,16 +33854,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: regulates_characteristic PATO:0001420 ! buoyancy relationship: regulates_characteristic PATO:0001420 ! buoyancy -[Term] -id: GO:0031420 -name: alkali metal ion binding -namespace: molecular_function -def: "Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen." [GOC:mah] -is_a: GO:0046872 ! metal ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33504 ! alkali metal cation -relationship: has_input CHEBI:33504 ! alkali metal cation - [Term] id: GO:0031503 name: protein-containing complex localization @@ -33843,16 +34089,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0030073 ! insulin secretion relationship: positively_regulates GO:0030073 ! insulin secretion -[Term] -id: GO:0032052 -name: bile acid binding -namespace: molecular_function -def: "Binding to a bile acid, a steroid carboxylic acids occurring in bile." [GOC:rph] -is_a: GO:0033293 ! monocarboxylic acid binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:36235 ! bile acid anion -relationship: has_input CHEBI:36235 ! bile acid anion - [Term] id: GO:0032057 name: negative regulation of translational initiation in response to stress @@ -33910,35 +34146,107 @@ intersection_of: results_in_assembly_of GO:0032059 ! bleb relationship: results_in_assembly_of GO:0032059 ! bleb [Term] -id: GO:0032091 -name: negative regulation of protein binding +id: GO:0032069 +name: regulation of nuclease activity +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "nuclease regulator activity" RELATED [] +is_a: GO:0051336 ! regulation of hydrolase activity +is_a: GO:0060255 ! regulation of macromolecule metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0004518 ! nuclease activity +relationship: regulates GO:0004518 ! nuclease activity + +[Term] +id: GO:0032070 +name: regulation of deoxyribonuclease activity +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "deoxyribonuclease regulator" RELATED [] +synonym: "DNase regulator" RELATED [] +is_a: GO:0032069 ! regulation of nuclease activity +is_a: GO:0051052 ! regulation of DNA metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0004536 ! DNA nuclease activity +relationship: regulates GO:0004536 ! DNA nuclease activity + +[Term] +id: GO:0032074 +name: negative regulation of nuclease activity namespace: biological_process -def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding." [GOC:mah] -synonym: "down regulation of protein binding" EXACT [] -synonym: "down-regulation of protein binding" EXACT [] -synonym: "downregulation of protein binding" EXACT [] -synonym: "inhibition of protein binding" NARROW [] -is_a: GO:0043393 ! regulation of protein binding -is_a: GO:0051100 ! negative regulation of binding +def: "Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "down regulation of nuclease activity" EXACT [] +synonym: "down-regulation of nuclease activity" EXACT [] +synonym: "downregulation of nuclease activity" EXACT [] +synonym: "inhibition of nuclease activity" NARROW [] +synonym: "nuclease inhibitor" RELATED [] +is_a: GO:0032069 ! regulation of nuclease activity +is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process +is_a: GO:0051346 ! negative regulation of hydrolase activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0004518 ! nuclease activity +relationship: negatively_regulates GO:0004518 ! nuclease activity + +[Term] +id: GO:0032075 +name: positive regulation of nuclease activity +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "activation of nuclease activity" NARROW [] +synonym: "nuclease activator" RELATED [] +synonym: "stimulation of nuclease activity" NARROW [] +synonym: "up regulation of nuclease activity" EXACT [] +synonym: "up-regulation of nuclease activity" EXACT [] +synonym: "upregulation of nuclease activity" EXACT [] +is_a: GO:0032069 ! regulation of nuclease activity +is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process +is_a: GO:0051345 ! positive regulation of hydrolase activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0004518 ! nuclease activity +relationship: positively_regulates GO:0004518 ! nuclease activity + +[Term] +id: GO:0032076 +name: negative regulation of deoxyribonuclease activity +namespace: biological_process +def: "Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "deoxyribonuclease inhibitor" RELATED [] +synonym: "DNase inhibitor" RELATED [] +synonym: "down regulation of deoxyribonuclease activity" EXACT [] +synonym: "down-regulation of deoxyribonuclease activity" EXACT [] +synonym: "downregulation of deoxyribonuclease activity" EXACT [] +synonym: "inhibition of deoxyribonuclease activity" NARROW [] +is_a: GO:0032070 ! regulation of deoxyribonuclease activity +is_a: GO:0032074 ! negative regulation of nuclease activity +is_a: GO:0051053 ! negative regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0005515 ! protein binding -relationship: negatively_regulates GO:0005515 ! protein binding +intersection_of: negatively_regulates GO:0004536 ! DNA nuclease activity +relationship: negatively_regulates GO:0004536 ! DNA nuclease activity [Term] -id: GO:0032092 -name: positive regulation of protein binding +id: GO:0032077 +name: positive regulation of deoxyribonuclease activity namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of protein binding." [GOC:mah] -synonym: "activation of protein binding" NARROW [] -synonym: "stimulation of protein binding" NARROW [] -synonym: "up regulation of protein binding" EXACT [] -synonym: "up-regulation of protein binding" EXACT [] -synonym: "upregulation of protein binding" EXACT [] -is_a: GO:0043393 ! regulation of protein binding -is_a: GO:0051099 ! positive regulation of binding +def: "Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid." [GOC:mah] +subset: term_scheduled_for_obsoletion +synonym: "activation of deoxyribonuclease activity" NARROW [] +synonym: "deoxyribonuclease activator" RELATED [] +synonym: "DNase activator" RELATED [] +synonym: "stimulation of deoxyribonuclease activity" NARROW [] +synonym: "up regulation of deoxyribonuclease activity" EXACT [] +synonym: "up-regulation of deoxyribonuclease activity" EXACT [] +synonym: "upregulation of deoxyribonuclease activity" EXACT [] +is_a: GO:0032070 ! regulation of deoxyribonuclease activity +is_a: GO:0032075 ! positive regulation of nuclease activity +is_a: GO:0051054 ! positive regulation of DNA metabolic process intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0005515 ! protein binding -relationship: positively_regulates GO:0005515 ! protein binding +intersection_of: positively_regulates GO:0004536 ! DNA nuclease activity +relationship: positively_regulates GO:0004536 ! DNA nuclease activity [Term] id: GO:0032101 @@ -34472,6 +34780,7 @@ id: GO:0032409 name: regulation of transporter activity namespace: biological_process def: "Any process that modulates the activity of a transporter." [GOC:mah] +subset: term_scheduled_for_obsoletion is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0005215 ! transporter activity @@ -34482,6 +34791,7 @@ id: GO:0032410 name: negative regulation of transporter activity namespace: biological_process def: "Any process that stops or reduces the activity of a transporter." [GOC:mah] +subset: term_scheduled_for_obsoletion synonym: "down regulation of transporter activity" EXACT [] synonym: "down-regulation of transporter activity" EXACT [] synonym: "downregulation of transporter activity" EXACT [] @@ -34498,6 +34808,7 @@ id: GO:0032411 name: positive regulation of transporter activity namespace: biological_process def: "Any process that activates or increases the activity of a transporter." [GOC:mah] +subset: term_scheduled_for_obsoletion synonym: "activation of transporter activity" NARROW [] synonym: "stimulation of transporter activity" NARROW [] synonym: "up regulation of transporter activity" EXACT [] @@ -34515,6 +34826,7 @@ id: GO:0032412 name: regulation of monoatomic ion transmembrane transporter activity namespace: biological_process def: "Any process that modulates the activity of an ion transporter." [GOC:mah, GOC:tb] +subset: term_scheduled_for_obsoletion synonym: "regulation of ion transmembrane transporter activity" BROAD [] synonym: "regulation of ion transporter activity" EXACT [GOC:tb] is_a: GO:0022898 ! regulation of transmembrane transporter activity @@ -34527,6 +34839,7 @@ id: GO:0032413 name: negative regulation of ion transmembrane transporter activity namespace: biological_process def: "Any process that stops or reduces the activity of an ion transporter." [GOC:mah, GOC:tb] +subset: term_scheduled_for_obsoletion synonym: "down regulation of ion transporter activity" EXACT [] synonym: "down-regulation of ion transporter activity" EXACT [] synonym: "downregulation of ion transporter activity" EXACT [] @@ -34544,6 +34857,7 @@ id: GO:0032414 name: positive regulation of ion transmembrane transporter activity namespace: biological_process def: "Any process that activates or increases the activity of an ion transporter." [GOC:mah, GOC:tb] +subset: term_scheduled_for_obsoletion synonym: "activation of ion transporter activity" NARROW [] synonym: "positive regulation of ion transporter activity" EXACT [GOC:tb] synonym: "stimulation of ion transporter activity" NARROW [] @@ -34727,6 +35041,7 @@ namespace: biological_process alt_id: GO:0062103 def: "The chemical reactions and pathways resulting in the formation of RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage. Includes polymerization of ribonucleotide monomers. Refers not only to transcription but also to e.g. viral RNA replication." [GOC:mah, GOC:txnOH] comment: Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study. +subset: gocheck_do_not_annotate synonym: "double-stranded RNA biosynthesis" NARROW [] synonym: "double-stranded RNA biosynthetic process" NARROW [] synonym: "dsRNA biosynthesis" NARROW [] @@ -35145,19 +35460,32 @@ intersection_of: results_in_disassembly_of GO:0032991 ! protein-containing compl relationship: results_in_disassembly_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/22580" xsd:anyURI +[Term] +id: GO:0032986 +name: protein-DNA complex disassembly +namespace: biological_process +def: "The disaggregation of a protein-DNA complex into its constituent components." [GOC:mah] +synonym: "DNA-protein complex disassembly" EXACT [GOC:mah] +is_a: GO:0032984 ! protein-containing complex disassembly +is_a: GO:0071824 ! protein-DNA complex organization +intersection_of: GO:0022411 ! cellular component disassembly +intersection_of: results_in_disassembly_of GO:0032993 ! protein-DNA complex +relationship: results_in_disassembly_of GO:0032993 ! protein-DNA complex + [Term] id: GO:0032988 -name: ribonucleoprotein complex disassembly +name: protein-RNA complex disassembly namespace: biological_process def: "The disaggregation of a protein-RNA complex into its constituent components." [GOC:mah] -synonym: "protein-RNA complex disassembly" EXACT [] +synonym: "ribonucleoprotein complex disassembly" EXACT [] synonym: "RNA-protein complex disassembly" EXACT [] synonym: "RNP complex disassembly" EXACT [] is_a: GO:0032984 ! protein-containing complex disassembly -is_a: GO:0071826 ! ribonucleoprotein complex subunit organization +is_a: GO:0071826 ! protein-RNA complex organization intersection_of: GO:0022411 ! cellular component disassembly intersection_of: results_in_disassembly_of GO:1990904 ! ribonucleoprotein complex relationship: results_in_disassembly_of GO:1990904 ! ribonucleoprotein complex +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/25143" xsd:anyURI [Term] id: GO:0032989 @@ -35204,6 +35532,17 @@ is_a: GO:0005575 ! cellular_component is_a: PR:000050567 ! protein-containing material entity disjoint_from: GO:0110165 ! cellular anatomical entity +[Term] +id: GO:0032993 +name: protein-DNA complex +namespace: cellular_component +def: "A macromolecular complex containing both protein and DNA molecules." [GOC:mah] +comment: Note that this term is intended to classify complexes that have DNA as one of the members of the complex, that is, the complex does not exist if DNA is not present. Protein complexes that interact with DNA e.g. transcription factor complexes should not be classified here. +subset: goslim_pir +synonym: "DNA-protein complex" EXACT [GOC:mah] +is_a: GO:0032991 ! protein-containing complex +relationship: has_part CHEBI:16991 ! deoxyribonucleic acid + [Term] id: GO:0032997 name: Fc receptor complex @@ -35483,6 +35822,17 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation relationship: negatively_regulates GO:0000070 ! mitotic sister chromatid segregation +[Term] +id: GO:0033054 +name: D-glutamate metabolic process +namespace: biological_process +def: "The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid." [GOC:jsg, GOC:mah] +synonym: "D-glutamate metabolism" EXACT [] +is_a: GO:0006536 ! glutamate metabolic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_input_or_output CHEBI:29986 ! D-glutamate(1-) +relationship: has_primary_input_or_output CHEBI:29986 ! D-glutamate(1-) + [Term] id: GO:0033059 name: cellular pigmentation @@ -35527,25 +35877,15 @@ synonym: "iron assimilation" RELATED [] is_a: GO:0006826 ! iron ion transport is_a: GO:0006879 ! intracellular iron ion homeostasis is_a: GO:0051649 ! establishment of localization in cell -is_a: GO:0098657 ! import into cell intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:24875 ! iron cation intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region +relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure +relationship: has_target_start_location GO:0005576 ! extracellular region created_by: mah creation_date: 2009-05-01T04:19:14Z -[Term] -id: GO:0033218 -name: amide binding -namespace: molecular_function -def: "Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group." [GOC:mah] -subset: goslim_pir -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:32988 ! amide -relationship: has_input CHEBI:32988 ! amide - [Term] id: GO:0033238 name: regulation of amine metabolic process @@ -35643,57 +35983,6 @@ intersection_of: occurs_in UBERON:0001891 ! midbrain relationship: occurs_in UBERON:0001891 ! midbrain relationship: part_of GO:0030901 ! midbrain development -[Term] -id: GO:0033293 -name: monocarboxylic acid binding -namespace: molecular_function -def: "Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-)." [GOC:mah] -is_a: GO:0031406 ! carboxylic acid binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:35757 ! monocarboxylic acid anion -relationship: has_input CHEBI:35757 ! monocarboxylic acid anion - -[Term] -id: GO:0033341 -name: regulation of collagen binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of collagen binding." [GOC:mah] -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0005518 ! collagen binding -relationship: regulates GO:0005518 ! collagen binding - -[Term] -id: GO:0033342 -name: negative regulation of collagen binding -namespace: biological_process -def: "Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding." [GOC:mah] -synonym: "down regulation of collagen binding" EXACT [] -synonym: "down-regulation of collagen binding" EXACT [] -synonym: "downregulation of collagen binding" EXACT [] -synonym: "inhibition of collagen binding" NARROW [] -is_a: GO:0033341 ! regulation of collagen binding -is_a: GO:0051100 ! negative regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0005518 ! collagen binding -relationship: negatively_regulates GO:0005518 ! collagen binding - -[Term] -id: GO:0033343 -name: positive regulation of collagen binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of collagen binding." [GOC:mah] -synonym: "activation of collagen binding" NARROW [] -synonym: "stimulation of collagen binding" NARROW [] -synonym: "up regulation of collagen binding" EXACT [] -synonym: "up-regulation of collagen binding" EXACT [] -synonym: "upregulation of collagen binding" EXACT [] -is_a: GO:0033341 ! regulation of collagen binding -is_a: GO:0051099 ! positive regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0005518 ! collagen binding -relationship: positively_regulates GO:0005518 ! collagen binding - [Term] id: GO:0033363 name: secretory granule organization @@ -35835,6 +36124,7 @@ id: GO:0033673 name: negative regulation of kinase activity namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] +subset: term_scheduled_for_obsoletion synonym: "down regulation of kinase activity" EXACT [] synonym: "down-regulation of kinase activity" EXACT [] synonym: "downregulation of kinase activity" EXACT [] @@ -35852,6 +36142,7 @@ id: GO:0033674 name: positive regulation of kinase activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah] +subset: term_scheduled_for_obsoletion synonym: "kinase activator" NARROW [] synonym: "stimulation of kinase activity" NARROW [] synonym: "up regulation of kinase activity" EXACT [] @@ -35864,22 +36155,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0016301 ! kinase activity relationship: positively_regulates GO:0016301 ! kinase activity -[Term] -id: GO:0033692 -name: cellular polysaccharide biosynthetic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell." [GOC:go_curators] -synonym: "cellular glycan biosynthesis" EXACT [] -synonym: "cellular glycan biosynthetic process" EXACT [] -synonym: "cellular polysaccharide anabolism" EXACT [] -synonym: "cellular polysaccharide biosynthesis" EXACT [] -synonym: "cellular polysaccharide formation" EXACT [] -synonym: "cellular polysaccharide synthesis" EXACT [] -is_a: GO:0000271 ! polysaccharide biosynthetic process -is_a: GO:0034637 ! cellular carbohydrate biosynthetic process -is_a: GO:0034645 ! cellular macromolecule biosynthetic process -is_a: GO:0044264 ! cellular polysaccharide metabolic process - [Term] id: GO:0033750 name: ribosome localization @@ -36338,15 +36613,6 @@ intersection_of: has_target_end_location GO:0005634 ! nucleus relationship: has_target_end_location GO:0005634 ! nucleus creation_date: 2012-11-07T15:45:54Z -[Term] -id: GO:0034637 -name: cellular carbohydrate biosynthetic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells." [GOC:mah] -is_a: GO:0016051 ! carbohydrate biosynthetic process -is_a: GO:0044249 ! cellular biosynthetic process -is_a: GO:0044262 ! cellular carbohydrate metabolic process - [Term] id: GO:0034641 name: cellular nitrogen compound metabolic process @@ -36357,21 +36623,6 @@ synonym: "cellular nitrogen compound metabolism" EXACT [] is_a: GO:0006807 ! nitrogen compound metabolic process is_a: GO:0044237 ! cellular metabolic process -[Term] -id: GO:0034645 -name: cellular macromolecule biosynthetic process -namespace: biological_process -alt_id: GO:0034961 -def: "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells." [GOC:mah] -synonym: "cellular biopolymer biosynthetic process" EXACT [GOC:mtg_chebi_dec09] -synonym: "cellular macromolecule anabolism" EXACT [GOC:mah] -synonym: "cellular macromolecule biosynthesis" EXACT [GOC:mah] -synonym: "cellular macromolecule formation" EXACT [GOC:mah] -synonym: "cellular macromolecule synthesis" EXACT [GOC:mah] -is_a: GO:0009059 ! macromolecule biosynthetic process -is_a: GO:0044249 ! cellular biosynthetic process -is_a: GO:0044260 ! cellular macromolecule metabolic process - [Term] id: GO:0034654 name: nucleobase-containing compound biosynthetic process @@ -36982,44 +37233,6 @@ relationship: occurs_in GO:0005622 ! intracellular anatomical structure created_by: bf creation_date: 2010-05-14T01:14:37Z -[Term] -id: GO:0035561 -name: regulation of chromatin binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0003682 ! chromatin binding -relationship: regulates GO:0003682 ! chromatin binding -created_by: bf -creation_date: 2010-05-19T10:28:36Z - -[Term] -id: GO:0035562 -name: negative regulation of chromatin binding -namespace: biological_process -def: "Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] -is_a: GO:0035561 ! regulation of chromatin binding -is_a: GO:0051100 ! negative regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0003682 ! chromatin binding -relationship: negatively_regulates GO:0003682 ! chromatin binding -created_by: bf -creation_date: 2010-05-19T10:29:06Z - -[Term] -id: GO:0035563 -name: positive regulation of chromatin binding -namespace: biological_process -def: "Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:bf, PMID:20404130] -is_a: GO:0035561 ! regulation of chromatin binding -is_a: GO:0051099 ! positive regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0003682 ! chromatin binding -relationship: positively_regulates GO:0003682 ! chromatin binding -created_by: bf -creation_date: 2010-05-19T10:29:41Z - [Term] id: GO:0035577 name: azurophil granule membrane @@ -37326,7 +37539,6 @@ namespace: biological_process def: "The process whose specific outcome is the progression of a megakaryocyte cell over time, from its formation to the mature structure. Megakaryocyte development does not include the steps involved in committing a cell to a megakaryocyte fate. A megakaryocyte is a giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow." [CL:0000556, GOC:BHF, GOC:vk] synonym: "megakaryocyte cell development" EXACT [GOC:bf] is_a: GO:0061515 ! myeloid cell development -is_a: GO:0098751 ! bone cell development intersection_of: GO:0048856 ! anatomical structure development intersection_of: results_in_development_of CL:0000556 ! megakaryocyte relationship: part_of GO:0030219 ! megakaryocyte differentiation @@ -37616,18 +37828,6 @@ relationship: part_of GO:0007276 ! gamete generation created_by: bf creation_date: 2012-01-17T04:06:27Z -[Term] -id: GO:0036094 -name: small molecule binding -namespace: molecular_function -def: "Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:pm] -comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. -subset: goslim_agr -subset: goslim_flybase_ribbon -is_a: GO:0005488 ! binding -created_by: bf -creation_date: 2012-01-17T04:20:34Z - [Term] id: GO:0036135 name: Schwann cell migration @@ -37771,6 +37971,7 @@ id: GO:0036504 name: Golgi membrane fusion namespace: biological_process def: "The joining of two lipid bilayers that surround the Golgi apparatus to form a single Golgi membrane." [GOC:bf, GOC:PARL, PMID:12473691] +synonym: "Golgi apparatus membrane fusion" EXACT [] synonym: "membrane fusion involved in Golgi reassembly" EXACT [GOC:bf] synonym: "post-mitotic fusion of Golgi membranes" EXACT [PMID:10811609] is_a: GO:0090174 ! organelle membrane fusion @@ -38227,25 +38428,6 @@ synonym: "neurotransmitter synthesis" EXACT [] is_a: GO:0042133 ! neurotransmitter metabolic process is_a: GO:0044249 ! cellular biosynthetic process -[Term] -id: GO:0042165 -name: neurotransmitter binding -namespace: molecular_function -def: "Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell." [ISBN:0198506732] -subset: goslim_pir -is_a: GO:0005488 ! binding - -[Term] -id: GO:0042166 -name: acetylcholine binding -namespace: molecular_function -def: "Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions." [GOC:ai] -is_a: GO:0042165 ! neurotransmitter binding -is_a: GO:0043169 ! cation binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:15355 ! acetylcholine -relationship: has_input CHEBI:15355 ! acetylcholine - [Term] id: GO:0042175 name: nuclear outer membrane-endoplasmic reticulum membrane network @@ -38427,28 +38609,6 @@ intersection_of: results_in_assembly_of GO:0005840 ! ribosome relationship: part_of GO:0042254 ! ribosome biogenesis relationship: results_in_assembly_of GO:0005840 ! ribosome -[Term] -id: GO:0042277 -name: peptide binding -namespace: molecular_function -def: "Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds." [GOC:jl] -subset: goslim_chembl -subset: goslim_pir -is_a: GO:0033218 ! amide binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:16670 ! peptide -relationship: has_input CHEBI:16670 ! peptide - -[Term] -id: GO:0042301 -name: phosphate ion binding -namespace: molecular_function -def: "Binding to a phosphate ion." [GOC:jl] -is_a: GO:0043168 ! anion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:35780 ! phosphate ion -relationship: has_input CHEBI:35780 ! phosphate ion - [Term] id: GO:0042325 name: regulation of phosphorylation @@ -38827,15 +38987,6 @@ synonym: "myelinogenesis" RELATED [GOC:cjm, HP:0003429] xref: Wikipedia:Myelin is_a: GO:0008366 ! axon ensheathment -[Term] -id: GO:0042562 -name: hormone binding -namespace: molecular_function -def: "Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor." [GOC:jl] -subset: goslim_chembl -subset: goslim_pir -is_a: GO:0005488 ! binding - [Term] id: GO:0042582 name: azurophil granule @@ -39017,6 +39168,28 @@ intersection_of: has_primary_input CHEBI:32988 ! amide relationship: has_primary_input CHEBI:32988 ! amide relationship: part_of GO:0042886 ! amide transport +[Term] +id: GO:0042940 +name: D-amino acid transport +namespace: biological_process +def: "The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:jl, GOC:jsg, GOC:mah] +is_a: GO:0071702 ! organic substance transport +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion + +[Term] +id: GO:0042943 +name: D-amino acid transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids." [GOC:jl, GOC:jsg, GOC:mah, GOC:mtg_transport, ISBN:0815340729] +synonym: "D-amino acid transporter activity" BROAD [] +is_a: GO:0022857 ! transmembrane transporter activity +intersection_of: GO:0022857 ! transmembrane transporter activity +intersection_of: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: has_primary_input CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: part_of GO:0042940 ! D-amino acid transport + [Term] id: GO:0042981 name: regulation of apoptotic process @@ -39157,32 +39330,6 @@ intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000782 ! myeloid dendritic cell relationship: results_in_acquisition_of_features_of CL:0000782 ! myeloid dendritic cell -[Term] -id: GO:0043021 -name: ribonucleoprotein complex binding -namespace: molecular_function -def: "Binding to a complex of RNA and protein." [GOC:bf, GOC:go_curators, GOC:vk] -subset: goslim_pir -synonym: "protein-RNA complex binding" EXACT [GOC:bf, GOC:vk] -synonym: "ribonucleoprotein binding" EXACT [GOC:bf, GOC:vk] -synonym: "RNP binding" EXACT [] -is_a: GO:0044877 ! protein-containing complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:1990904 ! ribonucleoprotein complex -relationship: has_input GO:1990904 ! ribonucleoprotein complex - -[Term] -id: GO:0043022 -name: ribosome binding -namespace: molecular_function -alt_id: GO:0030376 -def: "Binding to a ribosome." [GOC:go_curators] -synonym: "ribosome receptor activity" NARROW [] -is_a: GO:0043021 ! ribonucleoprotein complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0005840 ! ribosome -relationship: has_input GO:0005840 ! ribosome - [Term] id: GO:0043025 name: neuronal cell body @@ -39335,7 +39482,7 @@ namespace: biological_process alt_id: GO:0043070 def: "Any process that modulates the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes." [GOC:jl] synonym: "regulation of non-apoptotic programmed cell death" NARROW [] -is_a: GO:0010941 ! regulation of cell death +is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0012501 ! programmed cell death relationship: regulates GO:0012501 ! programmed cell death @@ -39352,8 +39499,8 @@ synonym: "stimulation of programmed cell death" NARROW [] synonym: "up regulation of programmed cell death" EXACT [] synonym: "up-regulation of programmed cell death" EXACT [] synonym: "upregulation of programmed cell death" EXACT [] -is_a: GO:0010942 ! positive regulation of cell death is_a: GO:0043067 ! regulation of programmed cell death +is_a: GO:0048522 ! positive regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0012501 ! programmed cell death relationship: positively_regulates GO:0012501 ! programmed cell death @@ -39370,7 +39517,7 @@ synonym: "downregulation of programmed cell death" EXACT [] synonym: "inhibition of programmed cell death" NARROW [] synonym: "negative regulation of non-apoptotic programmed cell death" NARROW [] is_a: GO:0043067 ! regulation of programmed cell death -is_a: GO:0060548 ! negative regulation of cell death +is_a: GO:0048523 ! negative regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0012501 ! programmed cell death relationship: negatively_regulates GO:0012501 ! programmed cell death @@ -39393,6 +39540,7 @@ namespace: biological_process alt_id: GO:0048554 def: "Any process that activates or increases the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] subset: goslim_chembl +subset: term_scheduled_for_obsoletion synonym: "activation of enzyme activity" NARROW [] synonym: "activation of metalloenzyme activity" NARROW [] synonym: "positive regulation of enzyme activity" EXACT [GOC:tb] @@ -39417,6 +39565,7 @@ name: negative regulation of catalytic activity namespace: biological_process alt_id: GO:0048553 def: "Any process that stops or reduces the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw] +subset: term_scheduled_for_obsoletion synonym: "down regulation of enzyme activity" EXACT [] synonym: "down regulation of metalloenzyme activity" NARROW [] synonym: "down-regulation of enzyme activity" EXACT [] @@ -39483,45 +39632,11 @@ intersection_of: GO:0008104 ! protein localization intersection_of: part_of GO:0006412 ! translation relationship: part_of GO:0006412 ! translation -[Term] -id: GO:0043167 -name: ion binding -namespace: molecular_function -def: "Binding to an ion, a charged atoms or groups of atoms." [GOC:jl] -subset: goslim_chembl -subset: goslim_metagenomics -subset: goslim_pir -subset: goslim_yeast -synonym: "atom binding" RELATED [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:24870 ! ion -relationship: has_input CHEBI:24870 ! ion - -[Term] -id: GO:0043168 -name: anion binding -namespace: molecular_function -def: "Binding to an anion, a charged atom or group of atoms with a net negative charge." [GOC:jl] -is_a: GO:0043167 ! ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:22563 ! anion -relationship: has_input CHEBI:22563 ! anion - -[Term] -id: GO:0043169 -name: cation binding -namespace: molecular_function -def: "Binding to a cation, a charged atom or group of atoms with a net positive charge." [GOC:jl] -is_a: GO:0043167 ! ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:36916 ! cation -relationship: has_input CHEBI:36916 ! cation - [Term] id: GO:0043170 name: macromolecule metabolic process namespace: biological_process +alt_id: GO:0034960 alt_id: GO:0043283 alt_id: GO:0044259 def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [GOC:mah] @@ -39550,42 +39665,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:16670 ! peptide relationship: has_primary_input CHEBI:16670 ! peptide -[Term] -id: GO:0043176 -name: amine binding -namespace: molecular_function -def: "Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group." [GOC:jl] -subset: goslim_pir -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:32952 ! amine -relationship: has_input CHEBI:32952 ! amine - -[Term] -id: GO:0043177 -name: organic acid binding -namespace: molecular_function -def: "Binding to an organic acid, any acidic compound containing carbon in covalent linkage." [GOC:jl, ISBN:0198506732] -is_a: GO:0036094 ! small molecule binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:64709 ! organic acid -relationship: has_input CHEBI:64709 ! organic acid - -[Term] -id: GO:0043184 -name: vascular endothelial growth factor receptor 2 binding -namespace: molecular_function -def: "Binding to a vascular endothelial growth factor receptor 2." [GOC:st] -synonym: "Flk-1 binding" EXACT [] -synonym: "KDR binding" BROAD [] -synonym: "kinase domain region binding" EXACT [] -synonym: "VEGF receptor 2 binding" EXACT [] -synonym: "VEGFR 2 binding" EXACT [] -is_a: GO:0005172 ! vascular endothelial growth factor receptor binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000002112 ! vascular endothelial growth factor receptor 2 -relationship: has_input PR:000002112 ! vascular endothelial growth factor receptor 2 - [Term] id: GO:0043197 name: dendritic spine @@ -39604,17 +39683,6 @@ is_a: GO:0044309 ! neuron spine is_a: GO:0098794 ! postsynapse relationship: part_of GO:0030425 ! dendrite -[Term] -id: GO:0043199 -name: sulfate binding -namespace: molecular_function -def: "Binding to sulfate, SO4(2-), a negatively charged small molecule." [GOC:mlg] -is_a: GO:0043168 ! anion binding -is_a: GO:1901681 ! sulfur compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:16189 ! sulfate -relationship: has_input CHEBI:16189 ! sulfate - [Term] id: GO:0043200 name: response to amino acid @@ -39958,16 +40026,6 @@ intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:0000562 ! nucleate erythrocyte relationship: results_in_acquisition_of_features_of CL:0000562 ! nucleate erythrocyte -[Term] -id: GO:0043393 -name: regulation of protein binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of protein binding." [GOC:go_curators] -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0005515 ! protein binding -relationship: regulates GO:0005515 ! protein binding - [Term] id: GO:0043434 name: response to peptide hormone @@ -40030,19 +40088,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016052 ! carbohydrate catabolic process relationship: regulates GO:0016052 ! carbohydrate catabolic process -[Term] -id: GO:0043471 -name: regulation of cellular carbohydrate catabolic process -namespace: biological_process -def: "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells." [GOC:jl] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process -is_a: GO:0031329 ! regulation of cellular catabolic process -is_a: GO:0043470 ! regulation of carbohydrate catabolic process -is_a: GO:0060255 ! regulation of macromolecule metabolic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0044275 ! cellular carbohydrate catabolic process -relationship: regulates GO:0044275 ! cellular carbohydrate catabolic process - [Term] id: GO:0043473 name: pigmentation @@ -40210,24 +40255,13 @@ id: GO:0043549 name: regulation of kinase activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:bf] +subset: term_scheduled_for_obsoletion is_a: GO:0042325 ! regulation of phosphorylation is_a: GO:0051338 ! regulation of transferase activity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016301 ! kinase activity relationship: regulates GO:0016301 ! kinase activity -[Term] -id: GO:0043559 -name: insulin binding -namespace: molecular_function -def: "Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms." [ISBN:0198506732] -is_a: GO:0005515 ! protein binding -is_a: GO:0017046 ! peptide hormone binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000009054 ! insulin gene translation product -relationship: has_input PR:000009054 ! insulin gene translation product -property_value: RO:0002161 NCBITaxon:4751 - [Term] id: GO:0043576 name: regulation of respiratory gaseous exchange @@ -40563,6 +40597,7 @@ id: GO:0044092 name: negative regulation of molecular function namespace: biological_process def: "Any process that stops or reduces the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] +subset: term_scheduled_for_obsoletion is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0003674 ! molecular_function @@ -40575,6 +40610,7 @@ id: GO:0044093 name: positive regulation of molecular function namespace: biological_process def: "Any process that activates or increases the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl] +subset: term_scheduled_for_obsoletion is_a: GO:0065009 ! regulation of molecular function intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0003674 ! molecular_function @@ -40599,6 +40635,7 @@ id: GO:0044237 name: cellular metabolic process namespace: biological_process def: "The chemical reactions and pathways by which individual cells transform chemical substances." [GOC:go_curators] +comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. subset: gocheck_do_not_annotate synonym: "cellular metabolism" EXACT [] synonym: "intermediary metabolism" RELATED [GOC:mah] @@ -40614,18 +40651,6 @@ subset: goslim_pir synonym: "primary metabolism" EXACT [] is_a: GO:0008152 ! metabolic process -[Term] -id: GO:0044247 -name: cellular polysaccharide catabolic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells." [GOC:jl] -synonym: "cellular polysaccharide breakdown" EXACT [] -synonym: "cellular polysaccharide catabolism" EXACT [] -synonym: "cellular polysaccharide degradation" EXACT [] -is_a: GO:0000272 ! polysaccharide catabolic process -is_a: GO:0044264 ! cellular polysaccharide metabolic process -is_a: GO:0044275 ! cellular carbohydrate catabolic process - [Term] id: GO:0044248 name: cellular catabolic process @@ -40662,55 +40687,6 @@ intersection_of: GO:0016042 ! lipid catabolic process intersection_of: occurs_in UBERON:0000160 ! intestine relationship: occurs_in UBERON:0000160 ! intestine -[Term] -id: GO:0044260 -name: cellular macromolecule metabolic process -namespace: biological_process -alt_id: GO:0034960 -def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells." [GOC:mah] -synonym: "cellular biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09] -synonym: "cellular macromolecule metabolism" EXACT [] -is_a: GO:0043170 ! macromolecule metabolic process -is_a: GO:0044237 ! cellular metabolic process - -[Term] -id: GO:0044262 -name: cellular carbohydrate metabolic process -namespace: biological_process -alt_id: GO:0006092 -def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:jl] -synonym: "cellular carbohydrate metabolism" EXACT [] -synonym: "main pathways of carbohydrate metabolic process" NARROW [] -synonym: "main pathways of carbohydrate metabolism" NARROW [] -is_a: GO:0005975 ! carbohydrate metabolic process -is_a: GO:0044237 ! cellular metabolic process - -[Term] -id: GO:0044264 -name: cellular polysaccharide metabolic process -namespace: biological_process -def: "The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells." [GOC:jl] -synonym: "cellular glycan metabolic process" EXACT [] -synonym: "cellular glycan metabolism" EXACT [] -synonym: "cellular polysaccharide metabolism" EXACT [] -is_a: GO:0005976 ! polysaccharide metabolic process -is_a: GO:0044260 ! cellular macromolecule metabolic process -is_a: GO:0044262 ! cellular carbohydrate metabolic process - -[Term] -id: GO:0044265 -name: cellular macromolecule catabolic process -namespace: biological_process -alt_id: GO:0034962 -def: "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells." [GOC:jl] -synonym: "cellular biopolymer catabolic process" EXACT [GOC:mtg_chebi_dec09] -synonym: "cellular macromolecule breakdown" EXACT [] -synonym: "cellular macromolecule catabolism" EXACT [] -synonym: "cellular macromolecule degradation" EXACT [] -is_a: GO:0009057 ! macromolecule catabolic process -is_a: GO:0044248 ! cellular catabolic process -is_a: GO:0044260 ! cellular macromolecule metabolic process - [Term] id: GO:0044270 name: cellular nitrogen compound catabolic process @@ -40767,18 +40743,6 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:26835 ! sulfur molecular entity relationship: has_primary_input CHEBI:26835 ! sulfur molecular entity -[Term] -id: GO:0044275 -name: cellular carbohydrate catabolic process -namespace: biological_process -def: "The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells." [GOC:jl] -synonym: "cellular carbohydrate breakdown" EXACT [] -synonym: "cellular carbohydrate catabolism" EXACT [] -synonym: "cellular carbohydrate degradation" EXACT [] -is_a: GO:0016052 ! carbohydrate catabolic process -is_a: GO:0044248 ! cellular catabolic process -is_a: GO:0044262 ! cellular carbohydrate metabolic process - [Term] id: GO:0044281 name: small molecule metabolic process @@ -40995,34 +40959,6 @@ relationship: results_in_organization_of GO:0005929 ! cilium created_by: jl creation_date: 2013-03-27T15:09:58Z -[Term] -id: GO:0044815 -name: DNA packaging complex -namespace: cellular_component -def: "A protein complex that plays a role in the process of DNA packaging." [GOC:jl] -is_a: GO:0032991 ! protein-containing complex -intersection_of: GO:0032991 ! protein-containing complex -intersection_of: capable_of_part_of GO:0051276 ! chromosome organization -relationship: capable_of_part_of GO:0051276 ! chromosome organization -created_by: jl -creation_date: 2013-09-19T11:33:45Z - -[Term] -id: GO:0044877 -name: protein-containing complex binding -namespace: molecular_function -alt_id: GO:0032403 -def: "Binding to a macromolecular complex." [GOC:jl] -subset: goslim_chembl -synonym: "macromolecular complex binding" RELATED [] -synonym: "protein complex binding" EXACT [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0032991 ! protein-containing complex -relationship: has_input GO:0032991 ! protein-containing complex -created_by: jl -creation_date: 2014-12-16T11:38:58Z - [Term] id: GO:0045009 name: chitosome @@ -41078,10 +41014,11 @@ relationship: part_of GO:0007548 ! sex differentiation id: GO:0045165 name: cell fate commitment namespace: biological_process -def: "The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field." [ISBN:0716731185] +def: "The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate." [ISBN:0716731185] comment: Note that this term was 'cell fate determination' but the term name was changed to better match its existing definition and the child term 'cell fate determination; GO:0001709' was also created. is_a: GO:0048869 ! cellular developmental process relationship: part_of GO:0030154 ! cell differentiation +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24390" xsd:anyURI [Term] id: GO:0045168 @@ -41100,23 +41037,6 @@ intersection_of: GO:0007267 ! cell-cell signaling intersection_of: part_of GO:0045165 ! cell fate commitment relationship: part_of GO:0045165 ! cell fate commitment -[Term] -id: GO:0045182 -name: translation regulator activity -namespace: molecular_function -def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai] -subset: goslim_candida -subset: goslim_drosophila -subset: goslim_generic -subset: goslim_pir -subset: goslim_plant -subset: prokaryote_subset -synonym: "translation factor activity" EXACT [] -is_a: GO:0003674 ! molecular_function -intersection_of: GO:0003674 ! molecular_function -intersection_of: part_of GO:0006417 ! regulation of translation -relationship: part_of GO:0006417 ! regulation of translation - [Term] id: GO:0045184 name: establishment of protein localization @@ -41286,16 +41206,6 @@ intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:0030312 ! external encapsulating structure relationship: results_in_organization_of GO:0030312 ! external encapsulating structure -[Term] -id: GO:0045296 -name: cadherin binding -namespace: molecular_function -def: "Binding to cadherin, a type I membrane protein involved in cell adhesion." [GOC:bf] -is_a: GO:0050839 ! cell adhesion molecule binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000001327 ! cadherin -relationship: has_input PR:000001327 ! cadherin - [Term] id: GO:0045321 name: leukocyte activation @@ -42218,8 +42128,8 @@ synonym: "negative regulation of glycogen biosynthesis" EXACT [] synonym: "negative regulation of glycogen formation" EXACT [] synonym: "negative regulation of glycogen synthesis" EXACT [] is_a: GO:0005979 ! regulation of glycogen biosynthetic process +is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process is_a: GO:0070874 ! negative regulation of glycogen metabolic process -is_a: GO:2000113 ! negative regulation of cellular macromolecule biosynthetic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005978 ! glycogen biosynthetic process relationship: negatively_regulates GO:0005978 ! glycogen biosynthetic process @@ -42234,8 +42144,8 @@ synonym: "down-regulation of gluconeogenesis" EXACT [] synonym: "downregulation of gluconeogenesis" EXACT [] synonym: "inhibition of gluconeogenesis" NARROW [] is_a: GO:0006111 ! regulation of gluconeogenesis -is_a: GO:0010677 ! negative regulation of cellular carbohydrate metabolic process is_a: GO:0031327 ! negative regulation of cellular biosynthetic process +is_a: GO:0045912 ! negative regulation of carbohydrate metabolic process is_a: GO:0062014 ! negative regulation of small molecule metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006094 ! gluconeogenesis @@ -42669,6 +42579,39 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0007049 ! cell cycle relationship: positively_regulates GO:0007049 ! cell cycle +[Term] +id: GO:0045806 +name: negative regulation of endocytosis +namespace: biological_process +def: "Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis." [GOC:go_curators] +synonym: "down regulation of endocytosis" EXACT [] +synonym: "down-regulation of endocytosis" EXACT [] +synonym: "downregulation of endocytosis" EXACT [] +synonym: "inhibition of endocytosis" NARROW [] +is_a: GO:0030100 ! regulation of endocytosis +is_a: GO:0051051 ! negative regulation of transport +is_a: GO:0051129 ! negative regulation of cellular component organization +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006897 ! endocytosis +relationship: negatively_regulates GO:0006897 ! endocytosis + +[Term] +id: GO:0045807 +name: positive regulation of endocytosis +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of endocytosis." [GOC:go_curators] +synonym: "activation of endocytosis" NARROW [] +synonym: "stimulation of endocytosis" NARROW [] +synonym: "up regulation of endocytosis" EXACT [] +synonym: "up-regulation of endocytosis" EXACT [] +synonym: "upregulation of endocytosis" EXACT [] +is_a: GO:0030100 ! regulation of endocytosis +is_a: GO:0051050 ! positive regulation of transport +is_a: GO:0051130 ! positive regulation of cellular component organization +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006897 ! endocytosis +relationship: positively_regulates GO:0006897 ! endocytosis + [Term] id: GO:0045818 name: negative regulation of glycogen catabolic process @@ -43546,6 +43489,32 @@ intersection_of: GO:0009056 ! catabolic process intersection_of: has_primary_input CHEBI:29067 ! carboxylic acid anion relationship: has_primary_input CHEBI:29067 ! carboxylic acid anion +[Term] +id: GO:0046416 +name: D-amino acid metabolic process +namespace: biological_process +def: "The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids." [GOC:ai, GOC:jsg] +synonym: "D-amino acid metabolism" EXACT [] +is_a: GO:0071704 ! organic substance metabolic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_input_or_output CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: has_primary_input_or_output CHEBI:59871 ! D-alpha-amino acid zwitterion + +[Term] +id: GO:0046437 +name: D-amino acid biosynthetic process +namespace: biological_process +def: "The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids." [GOC:ai, GOC:jsg] +synonym: "D-amino acid anabolism" EXACT [] +synonym: "D-amino acid biosynthesis" EXACT [] +synonym: "D-amino acid formation" EXACT [] +synonym: "D-amino acid synthesis" EXACT [] +is_a: GO:0046416 ! D-amino acid metabolic process +is_a: GO:1901576 ! organic substance biosynthetic process +intersection_of: GO:0009058 ! biosynthetic process +intersection_of: has_primary_output CHEBI:59871 ! D-alpha-amino acid zwitterion +relationship: has_primary_output CHEBI:59871 ! D-alpha-amino acid zwitterion + [Term] id: GO:0046483 name: heterocycle metabolic process @@ -43917,17 +43886,6 @@ intersection_of: results_in_assembly_of GO:0005874 ! microtubule relationship: results_in_assembly_of GO:0005874 ! microtubule relationship: starts_with GO:0007020 ! microtubule nucleation -[Term] -id: GO:0046848 -name: hydroxyapatite binding -namespace: molecular_function -def: "Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin." [PMID:2438276] -synonym: "hydroxylapatite binding" EXACT [GOC:vk] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:52255 ! hydroxylapatite -relationship: has_input CHEBI:52255 ! hydroxylapatite - [Term] id: GO:0046849 name: bone remodeling @@ -43978,22 +43936,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0046849 ! bone remodeling relationship: positively_regulates GO:0046849 ! bone remodeling -[Term] -id: GO:0046872 -name: metal ion binding -namespace: molecular_function -def: "Binding to a metal ion." [GOC:ai] -subset: goslim_agr -subset: goslim_drosophila -subset: goslim_flybase_ribbon -subset: goslim_metagenomics -synonym: "heavy metal binding" NARROW [] -synonym: "metal binding" EXACT [] -is_a: GO:0043169 ! cation binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:25213 ! metal cation -relationship: has_input CHEBI:25213 ! metal cation - [Term] id: GO:0046873 name: metal ion transmembrane transporter activity @@ -44114,20 +44056,6 @@ def: "The controlled release of a substance by a cell or a tissue." [GOC:ai] subset: goslim_pir is_a: GO:0006810 ! transport -[Term] -id: GO:0046906 -name: tetrapyrrole binding -namespace: molecular_function -def: "Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position." [GOC:curators, ISBN:0198506732] -subset: goslim_metagenomics -subset: goslim_pir -synonym: "porphyrin binding" NARROW [] -is_a: GO:0097159 ! organic cyclic compound binding -is_a: GO:1901363 ! heterocyclic compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:26932 ! tetrapyrrole -relationship: has_input CHEBI:26932 ! tetrapyrrole - [Term] id: GO:0046907 name: intracellular transport @@ -44145,16 +44073,6 @@ relationship: occurs_in GO:0005622 ! intracellular anatomical structure created_by: jl creation_date: 2013-12-18T14:04:50Z -[Term] -id: GO:0046914 -name: transition metal ion binding -namespace: molecular_function -def: "Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver." [ISBN:0198506732] -is_a: GO:0046872 ! metal ion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33515 ! transition element cation -relationship: has_input CHEBI:33515 ! transition element cation - [Term] id: GO:0046915 name: transition metal ion transmembrane transporter activity @@ -44229,17 +44147,6 @@ intersection_of: GO:0006810 ! transport intersection_of: has_primary_input GO:0031982 ! vesicle intersection_of: results_in_transport_along GO:0005874 ! microtubule -[Term] -id: GO:0048029 -name: monosaccharide binding -namespace: molecular_function -def: "Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides." [GOC:jid] -is_a: GO:0030246 ! carbohydrate binding -is_a: GO:0036094 ! small molecule binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:35381 ! monosaccharide -relationship: has_input CHEBI:35381 ! monosaccharide - [Term] id: GO:0048048 name: embryonic eye morphogenesis @@ -44387,6 +44294,21 @@ intersection_of: GO:0006810 ! transport intersection_of: results_in_transport_to_from_or_in GO:0005798 ! Golgi-associated vesicle relationship: results_in_transport_to_from_or_in GO:0005798 ! Golgi-associated vesicle +[Term] +id: GO:0048194 +name: Golgi vesicle budding +namespace: biological_process +def: "The evagination of the Golgi membrane, resulting in formation of a vesicle." [GOC:jid, ISBN:0716731363, PMID:10219233] +synonym: "dictyosome vesicle budding" NARROW [] +synonym: "Golgi-derived vesicle budding" EXACT [] +is_a: GO:0006900 ! vesicle budding from membrane +intersection_of: GO:0006900 ! vesicle budding from membrane +intersection_of: has_output GO:0005798 ! Golgi-associated vesicle +intersection_of: occurs_in GO:0000139 ! Golgi membrane +relationship: has_output GO:0005798 ! Golgi-associated vesicle +relationship: occurs_in GO:0000139 ! Golgi membrane +relationship: part_of GO:0048193 ! Golgi vesicle transport + [Term] id: GO:0048199 name: vesicle targeting, to, from or within Golgi @@ -44523,6 +44445,7 @@ id: GO:0048313 name: Golgi inheritance namespace: biological_process def: "The partitioning of Golgi apparatus between daughter cells at cell division." [GOC:jid, PMID:12851069] +synonym: "Golgi apparatus inheritance" EXACT [] synonym: "Golgi division" EXACT [GOC:ascb_2009, GOC:dph, GOC:tb] synonym: "Golgi partitioning" EXACT [] is_a: GO:0007030 ! Golgi organization @@ -44694,7 +44617,7 @@ relationship: results_in_formation_of UBERON:0003064 ! intermediate mesoderm id: GO:0048468 name: cell development namespace: biological_process -def: "The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate." [GOC:go_curators] +def: "The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place." [GOC:go_curators] subset: goslim_candida synonym: "terminal differentiation" RELATED [GOC:dph, GOC:tb] is_a: GO:0048856 ! anatomical structure development @@ -44703,12 +44626,13 @@ intersection_of: GO:0008150 ! biological_process intersection_of: results_in_development_of CL:0000000 ! cell relationship: part_of GO:0030154 ! cell differentiation relationship: results_in_development_of CL:0000000 ! cell +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24390" xsd:anyURI [Term] id: GO:0048469 name: cell maturation namespace: biological_process -def: "A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state." [GOC:go_curators] +def: "The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state." [GOC:go_curators] subset: goslim_pir synonym: "functional differentiation" RELATED [GOC:dph] is_a: GO:0021700 ! developmental maturation @@ -44717,6 +44641,7 @@ intersection_of: GO:0021700 ! developmental maturation intersection_of: results_in_maturation_of CL:0000000 ! cell relationship: part_of GO:0048468 ! cell development relationship: results_in_maturation_of CL:0000000 ! cell +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24390" xsd:anyURI [Term] id: GO:0048477 @@ -46409,7 +46334,7 @@ id: GO:0050764 name: regulation of phagocytosis namespace: biological_process def: "Any process that modulates the frequency, rate or extent of phagocytosis, the process in which phagocytes engulf external particulate material." [GOC:ai] -is_a: GO:0060627 ! regulation of vesicle-mediated transport +is_a: GO:0030100 ! regulation of endocytosis intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0006909 ! phagocytosis relationship: regulates GO:0006909 ! phagocytosis @@ -46424,8 +46349,8 @@ synonym: "down regulation of phagocytosis" EXACT [] synonym: "down-regulation of phagocytosis" EXACT [] synonym: "downregulation of phagocytosis" EXACT [] synonym: "inhibition of phagocytosis" NARROW [] +is_a: GO:0045806 ! negative regulation of endocytosis is_a: GO:0050764 ! regulation of phagocytosis -is_a: GO:0051051 ! negative regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006909 ! phagocytosis relationship: negatively_regulates GO:0006909 ! phagocytosis @@ -46440,8 +46365,8 @@ synonym: "stimulation of phagocytosis" NARROW [] synonym: "up regulation of phagocytosis" EXACT [] synonym: "up-regulation of phagocytosis" EXACT [] synonym: "upregulation of phagocytosis" EXACT [] +is_a: GO:0045807 ! positive regulation of endocytosis is_a: GO:0050764 ! regulation of phagocytosis -is_a: GO:0051050 ! positive regulation of transport intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0006909 ! phagocytosis relationship: positively_regulates GO:0006909 ! phagocytosis @@ -46644,6 +46569,7 @@ namespace: biological_process alt_id: GO:0048552 def: "Any process that modulates the activity of an enzyme." [GOC:ai, GOC:ebc, GOC:vw] subset: goslim_chembl +subset: term_scheduled_for_obsoletion synonym: "regulation of enzyme activity" EXACT [] synonym: "regulation of metalloenzyme activity" NARROW [] is_a: GO:0065009 ! regulation of molecular function @@ -46835,31 +46761,6 @@ is_a: GO:0009620 ! response to fungus intersection_of: GO:0006952 ! defense response intersection_of: has_input NCBITaxon:4751 ! Fungi -[Term] -id: GO:0050839 -name: cell adhesion molecule binding -namespace: molecular_function -def: "Binding to a cell adhesion molecule." [GOC:ai] -synonym: "adhesive extracellular matrix constituent" RELATED [] -synonym: "CAM binding" EXACT [] -synonym: "cell adhesion molecule activity" RELATED [] -synonym: "cell adhesion receptor activity" RELATED [] -is_a: GO:0005515 ! protein binding - -[Term] -id: GO:0050840 -name: extracellular matrix binding -namespace: molecular_function -def: "Binding to a component of the extracellular matrix." [GOC:ai] -subset: goslim_chembl -subset: goslim_pir -synonym: "adhesive extracellular matrix constituent" RELATED [] -synonym: "extracellular matrix constituent binding" EXACT [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0031012 ! extracellular matrix -relationship: has_input GO:0031012 ! extracellular matrix - [Term] id: GO:0050863 name: regulation of T cell activation @@ -47376,6 +47277,16 @@ intersection_of: GO:0022607 ! cellular component assembly intersection_of: results_in_assembly_of GO:0032432 ! actin filament bundle relationship: results_in_assembly_of GO:0032432 ! actin filament bundle +[Term] +id: GO:0051027 +name: DNA transport +namespace: biological_process +def: "The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] +is_a: GO:0050657 ! nucleic acid transport +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input CHEBI:16991 ! deoxyribonucleic acid +relationship: has_primary_input CHEBI:16991 ! deoxyribonucleic acid + [Term] id: GO:0051032 name: nucleic acid transmembrane transporter activity @@ -47400,6 +47311,17 @@ intersection_of: has_primary_input CHEBI:33697 ! ribonucleic acid relationship: has_primary_input CHEBI:33697 ! ribonucleic acid relationship: part_of GO:0050658 ! RNA transport +[Term] +id: GO:0051035 +name: DNA transmembrane transporter activity +namespace: molecular_function +def: "Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other." [GOC:ai] +is_a: GO:0051032 ! nucleic acid transmembrane transporter activity +intersection_of: GO:0022857 ! transmembrane transporter activity +intersection_of: has_primary_input CHEBI:16991 ! deoxyribonucleic acid +relationship: has_primary_input CHEBI:16991 ! deoxyribonucleic acid +relationship: part_of GO:0051027 ! DNA transport + [Term] id: GO:0051046 name: regulation of secretion @@ -47483,6 +47405,54 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0006810 ! transport relationship: negatively_regulates GO:0006810 ! transport +[Term] +id: GO:0051052 +name: regulation of DNA metabolic process +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] +subset: goslim_yeast +synonym: "regulation of DNA metabolism" EXACT [] +is_a: GO:0019219 ! regulation of nucleobase-containing compound metabolic process +is_a: GO:0060255 ! regulation of macromolecule metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006259 ! DNA metabolic process +relationship: regulates GO:0006259 ! DNA metabolic process + +[Term] +id: GO:0051053 +name: negative regulation of DNA metabolic process +namespace: biological_process +def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] +synonym: "down regulation of DNA metabolic process" EXACT [] +synonym: "down-regulation of DNA metabolic process" EXACT [] +synonym: "downregulation of DNA metabolic process" EXACT [] +synonym: "inhibition of DNA metabolic process" NARROW [] +synonym: "negative regulation of DNA metabolism" EXACT [] +is_a: GO:0010605 ! negative regulation of macromolecule metabolic process +is_a: GO:0045934 ! negative regulation of nucleobase-containing compound metabolic process +is_a: GO:0051052 ! regulation of DNA metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006259 ! DNA metabolic process +relationship: negatively_regulates GO:0006259 ! DNA metabolic process + +[Term] +id: GO:0051054 +name: positive regulation of DNA metabolic process +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] +synonym: "activation of DNA metabolic process" NARROW [] +synonym: "positive regulation of DNA metabolism" EXACT [] +synonym: "stimulation of DNA metabolic process" NARROW [] +synonym: "up regulation of DNA metabolic process" EXACT [] +synonym: "up-regulation of DNA metabolic process" EXACT [] +synonym: "upregulation of DNA metabolic process" EXACT [] +is_a: GO:0010604 ! positive regulation of macromolecule metabolic process +is_a: GO:0045935 ! positive regulation of nucleobase-containing compound metabolic process +is_a: GO:0051052 ! regulation of DNA metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006259 ! DNA metabolic process +relationship: positively_regulates GO:0006259 ! DNA metabolic process + [Term] id: GO:0051055 name: negative regulation of lipid biosynthetic process @@ -47504,16 +47474,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0008610 ! lipid biosynthetic process relationship: negatively_regulates GO:0008610 ! lipid biosynthetic process -[Term] -id: GO:0051059 -name: NF-kappaB binding -namespace: molecular_function -def: "Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters." [GOC:ai] -is_a: GO:0061629 ! RNA polymerase II-specific DNA-binding transcription factor binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input PR:000001753 ! transcription factor NF-kappa-B subunit -relationship: has_input PR:000001753 ! transcription factor NF-kappa-B subunit - [Term] id: GO:0051078 name: meiotic nuclear membrane disassembly @@ -47574,47 +47534,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0032502 ! developmental process relationship: positively_regulates GO:0032502 ! developmental process -[Term] -id: GO:0051098 -name: regulation of binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] -is_a: GO:0065009 ! regulation of molecular function -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0005488 ! binding -relationship: regulates GO:0005488 ! binding - -[Term] -id: GO:0051099 -name: positive regulation of binding -namespace: biological_process -def: "Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] -synonym: "activation of binding" NARROW [] -synonym: "stimulation of binding" NARROW [] -synonym: "up regulation of binding" EXACT [] -synonym: "up-regulation of binding" EXACT [] -synonym: "upregulation of binding" EXACT [] -is_a: GO:0044093 ! positive regulation of molecular function -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0005488 ! binding -relationship: positively_regulates GO:0005488 ! binding - -[Term] -id: GO:0051100 -name: negative regulation of binding -namespace: biological_process -def: "Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule." [GOC:ai] -synonym: "down regulation of binding" EXACT [] -synonym: "down-regulation of binding" EXACT [] -synonym: "downregulation of binding" EXACT [] -synonym: "inhibition of binding" NARROW [] -is_a: GO:0044092 ! negative regulation of molecular function -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0005488 ! binding -relationship: negatively_regulates GO:0005488 ! binding - [Term] id: GO:0051119 name: sugar transmembrane transporter activity @@ -48332,6 +48251,20 @@ intersection_of: has_part GO:0140013 ! meiotic nuclear division relationship: has_part GO:0140013 ! meiotic nuclear division relationship: in_taxon NCBITaxon:2759 {all_only="true"} ! Eukaryota relationship: only_in_taxon NCBITaxon:2759 ! Eukaryota +relationship: part_of GO:0019953 ! sexual reproduction +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24599" xsd:anyURI + +[Term] +id: GO:0051336 +name: regulation of hydrolase activity +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3." [GOC:ai] +subset: term_scheduled_for_obsoletion +synonym: "hydrolase regulator" EXACT [] +is_a: GO:0050790 ! regulation of catalytic activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0016787 ! hydrolase activity +relationship: regulates GO:0016787 ! hydrolase activity [Term] id: GO:0051338 @@ -48340,12 +48273,48 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate +subset: term_scheduled_for_obsoletion synonym: "transferase regulator" EXACT [] is_a: GO:0050790 ! regulation of catalytic activity intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0016740 ! transferase activity relationship: regulates GO:0016740 ! transferase activity +[Term] +id: GO:0051345 +name: positive regulation of hydrolase activity +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds." [GOC:ai] +subset: term_scheduled_for_obsoletion +synonym: "activation of hydrolase activity" NARROW [] +synonym: "hydrolase activator" EXACT [] +synonym: "stimulation of hydrolase activity" NARROW [] +synonym: "up regulation of hydrolase activity" EXACT [] +synonym: "up-regulation of hydrolase activity" EXACT [] +synonym: "upregulation of hydrolase activity" EXACT [] +is_a: GO:0043085 ! positive regulation of catalytic activity +is_a: GO:0051336 ! regulation of hydrolase activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0016787 ! hydrolase activity +relationship: positively_regulates GO:0016787 ! hydrolase activity + +[Term] +id: GO:0051346 +name: negative regulation of hydrolase activity +namespace: biological_process +def: "Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds." [GOC:ai] +subset: term_scheduled_for_obsoletion +synonym: "down regulation of hydrolase activity" EXACT [] +synonym: "down-regulation of hydrolase activity" EXACT [] +synonym: "downregulation of hydrolase activity" EXACT [] +synonym: "hydrolase inhibitor" EXACT [] +synonym: "inhibition of hydrolase activity" NARROW [] +is_a: GO:0043086 ! negative regulation of catalytic activity +is_a: GO:0051336 ! regulation of hydrolase activity +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0016787 ! hydrolase activity +relationship: negatively_regulates GO:0016787 ! hydrolase activity + [Term] id: GO:0051347 name: positive regulation of transferase activity @@ -48353,6 +48322,7 @@ namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate +subset: term_scheduled_for_obsoletion synonym: "activation of transferase activity" NARROW [] synonym: "stimulation of transferase activity" NARROW [] synonym: "transferase activator" EXACT [] @@ -48372,6 +48342,7 @@ namespace: biological_process def: "Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor." [GOC:ai] comment: This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. subset: gocheck_do_not_manually_annotate +subset: term_scheduled_for_obsoletion synonym: "down regulation of transferase activity" EXACT [] synonym: "down-regulation of transferase activity" EXACT [] synonym: "downregulation of transferase activity" EXACT [] @@ -48383,29 +48354,6 @@ intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0016740 ! transferase activity relationship: negatively_regulates GO:0016740 ! transferase activity -[Term] -id: GO:0051378 -name: serotonin binding -namespace: molecular_function -def: "Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties." [GOC:ai] -synonym: "5-hydroxytryptamine binding" EXACT [] -is_a: GO:0043169 ! cation binding -is_a: GO:0043176 ! amine binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:350546 ! serotonin(1+) -relationship: has_input CHEBI:350546 ! serotonin(1+) - -[Term] -id: GO:0051380 -name: norepinephrine binding -namespace: molecular_function -def: "Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine." [GOC:ai] -synonym: "noradrenaline binding" EXACT [] -is_a: GO:0043169 ! cation binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:72587 ! (R)-noradrenaline(1+) -relationship: has_input CHEBI:72587 ! (R)-noradrenaline(1+) - [Term] id: GO:0051402 name: neuron apoptotic process @@ -48753,11 +48701,12 @@ namespace: biological_process def: "The directed movement of acetylcholine into a cell, typically presynaptic neurons or glial cells. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues." [GOC:ai] synonym: "acetylcholine import" EXACT [GOC:dph, GOC:tb] is_a: GO:0015870 ! acetylcholine transport -is_a: GO:0098657 ! import into cell intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:15355 ! acetylcholine intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region +relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure +relationship: has_target_start_location GO:0005576 ! extracellular region [Term] id: GO:0051631 @@ -49194,6 +49143,18 @@ intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:33567 ! catecholamine relationship: has_primary_input CHEBI:33567 ! catecholamine +[Term] +id: GO:0051938 +name: L-glutamate import +namespace: biological_process +def: "The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle." [GOC:ai, GOC:jsg, GOC:mah] +synonym: "L-glutamate uptake" EXACT [GOC:dph, GOC:tb] +is_a: GO:0015800 ! acidic amino acid transport +is_a: GO:0046942 ! carboxylic acid transport +intersection_of: GO:0006810 ! transport +intersection_of: has_primary_input CHEBI:29985 ! L-glutamate(1-) +relationship: has_primary_input CHEBI:29985 ! L-glutamate(1-) + [Term] id: GO:0051952 name: regulation of amine transport @@ -49830,18 +49791,6 @@ intersection_of: GO:0048878 ! chemical homeostasis intersection_of: regulates_levels_of CHEBI:16189 ! sulfate relationship: regulates_levels_of CHEBI:16189 ! sulfate -[Term] -id: GO:0055072 -name: iron ion homeostasis -namespace: biological_process -def: "Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell." [GOC:ai, GOC:jid, GOC:mah] -synonym: "iron homeostasis" BROAD [] -is_a: GO:0055080 ! monoatomic cation homeostasis -is_a: GO:0098771 ! inorganic ion homeostasis -intersection_of: GO:0048878 ! chemical homeostasis -intersection_of: regulates_levels_of CHEBI:24875 ! iron cation -relationship: regulates_levels_of CHEBI:24875 ! iron cation - [Term] id: GO:0055078 name: sodium ion homeostasis @@ -50180,6 +50129,17 @@ synonym: "regulation of excitatory post-synaptic membrane potential" EXACT [] is_a: GO:0060078 ! regulation of postsynaptic membrane potential relationship: part_of GO:0099565 ! chemical synaptic transmission, postsynaptic +[Term] +id: GO:0060096 +name: serotonin secretion, neurotransmission +namespace: biological_process +def: "The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter." [GOC:dph] +synonym: "serotonin release, neurotransmission" RELATED [GOC:tb] +is_a: GO:0001820 ! serotonin secretion +is_a: GO:0007269 ! neurotransmitter secretion +intersection_of: GO:0007269 ! neurotransmitter secretion +intersection_of: has_primary_input CHEBI:350546 ! serotonin(1+) + [Term] id: GO:0060135 name: maternal process involved in female pregnancy @@ -51398,19 +51358,6 @@ relationship: results_in_development_of UBERON:0001004 ! respiratory system created_by: dph creation_date: 2009-04-10T08:55:42Z -[Term] -id: GO:0060548 -name: negative regulation of cell death -namespace: biological_process -def: "Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death." [GOC:BHF, GOC:dph, GOC:tb] -is_a: GO:0010941 ! regulation of cell death -is_a: GO:0048523 ! negative regulation of cellular process -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0008219 ! cell death -relationship: negatively_regulates GO:0008219 ! cell death -created_by: dph -creation_date: 2009-04-13T01:56:10Z - [Term] id: GO:0060560 name: developmental growth involved in morphogenesis @@ -51572,10 +51519,12 @@ name: multicellular organismal-level iron ion homeostasis namespace: biological_process def: "A chemical homeostatic process involved in the maintenance of a steady state level of iron within extracellular body fluids, such as blood, xylem or phloem, of a multicellular organism. This is distinct from maintenance of cellular homeostasis, which occurs within a cell." [PMID:31431773] synonym: "multicellular organismal iron ion homeostasis" EXACT [] -is_a: GO:0055072 ! iron ion homeostasis +is_a: GO:0055080 ! monoatomic cation homeostasis +is_a: GO:0098771 ! inorganic ion homeostasis is_a: GO:0140962 ! multicellular organismal-level chemical homeostasis intersection_of: GO:0048871 ! multicellular organismal-level homeostasis intersection_of: regulates_levels_of CHEBI:24875 ! iron cation +relationship: regulates_levels_of CHEBI:24875 ! iron cation property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24554" xsd:anyURI created_by: dph creation_date: 2009-05-08T02:18:21Z @@ -53053,6 +53002,7 @@ name: stomach neuroendocrine cell differentiation namespace: biological_process def: "The process in which a relatively unspecialized cell acquires specialized features of a neuroendocrine cell of the stomach epithelium." [GOC:dph, PMID:18173746] synonym: "gastric neuroendocrine cell differentiation" RELATED [GOC:dph] +is_a: GO:0035883 ! enteroendocrine cell differentiation is_a: GO:0061101 ! neuroendocrine cell differentiation intersection_of: GO:0030154 ! cell differentiation intersection_of: results_in_acquisition_of_features_of CL:1000222 ! stomach neuroendocrine cell @@ -53792,6 +53742,19 @@ intersection_of: has_primary_input CHEBI:15355 ! acetylcholine created_by: dph creation_date: 2013-06-21T15:40:39Z +[Term] +id: GO:0061533 +name: norepinephrine secretion, neurotransmission +namespace: biological_process +def: "The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter." [GOC:dph] +synonym: "noradrenaline secretion, neurotransmission" EXACT [GOC:dph] +is_a: GO:0048243 ! norepinephrine secretion +is_a: GO:0160043 ! catecholamine secretion, neurotransmission +intersection_of: GO:0007269 ! neurotransmitter secretion +intersection_of: has_primary_input CHEBI:72587 ! (R)-noradrenaline(1+) +created_by: dph +creation_date: 2013-06-21T16:05:08Z + [Term] id: GO:0061535 name: glutamate secretion, neurotransmission @@ -53799,6 +53762,9 @@ namespace: biological_process def: "The controlled release of glutamate by a cell, in which the glutamate acts as a neurotransmitter." [GOC:dph] is_a: GO:0007269 ! neurotransmitter secretion is_a: GO:0014047 ! glutamate secretion +is_a: GO:0051938 ! L-glutamate import +intersection_of: GO:0007269 ! neurotransmitter secretion +intersection_of: has_primary_input CHEBI:29985 ! L-glutamate(1-) relationship: part_of GO:0035249 ! synaptic transmission, glutamatergic created_by: dph creation_date: 2013-06-21T16:14:47Z @@ -54061,24 +54027,6 @@ relationship: results_in_morphogenesis_of UBERON:0004363 ! pharyngeal arch arter created_by: dph creation_date: 2014-05-09T15:34:06Z -[Term] -id: GO:0061629 -name: RNA polymerase II-specific DNA-binding transcription factor binding -namespace: molecular_function -alt_id: GO:0001085 -alt_id: GO:0001102 -alt_id: GO:0001103 -def: "Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription." [GOC:dph, GOC:vw] -synonym: "RNA polymerase II activating transcription factor binding" RELATED [] -synonym: "RNA polymerase II repressing transcription factor binding" RELATED [] -synonym: "RNA polymerase II sequence-specific DNA binding transcription factor binding" EXACT [] -synonym: "RNA polymerase II sequence-specific DNA-binding transcription factor binding" EXACT [] -synonym: "RNA polymerase II transcription factor binding" RELATED [] -is_a: GO:0140297 ! DNA-binding transcription factor binding -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI -created_by: dph -creation_date: 2014-05-15T09:12:24Z - [Term] id: GO:0061687 name: detoxification of inorganic compound @@ -54397,6 +54345,18 @@ intersection_of: results_in_assembly_of GO:0032991 ! protein-containing complex relationship: results_in_assembly_of GO:0032991 ! protein-containing complex property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/22580" xsd:anyURI +[Term] +id: GO:0065004 +name: protein-DNA complex assembly +namespace: biological_process +def: "The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex." [GOC:jl] +synonym: "DNA-protein complex assembly" EXACT [GOC:mah] +is_a: GO:0065003 ! protein-containing complex assembly +is_a: GO:0071824 ! protein-DNA complex organization +intersection_of: GO:0022607 ! cellular component assembly +intersection_of: results_in_assembly_of GO:0032993 ! protein-DNA complex +relationship: results_in_assembly_of GO:0032993 ! protein-DNA complex + [Term] id: GO:0065007 name: biological regulation @@ -54415,6 +54375,7 @@ def: "Any process that modulates the frequency, rate or extent of a molecular fu subset: gocheck_do_not_annotate subset: goslim_pir subset: goslim_plant +subset: term_scheduled_for_obsoletion synonym: "regulation of a molecular function" EXACT [] is_a: GO:0065007 ! biological regulation intersection_of: GO:0065007 ! biological regulation @@ -54454,16 +54415,6 @@ intersection_of: occurs_in CL:0000540 ! neuron relationship: occurs_in CL:0000540 ! neuron property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24218" xsd:anyURI -[Term] -id: GO:0070051 -name: fibrinogen binding -namespace: molecular_function -def: "Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade." [GOC:BHF, GOC:mah, GOC:vk] -is_a: GO:0044877 ! protein-containing complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0005577 ! fibrinogen complex -relationship: has_input GO:0005577 ! fibrinogen complex - [Term] id: GO:0070062 name: extracellular exosome @@ -54909,17 +54860,6 @@ is_a: GO:0099503 ! secretory vesicle intersection_of: GO:0030133 ! transport vesicle intersection_of: capable_of GO:0099500 ! vesicle fusion to plasma membrane -[Term] -id: GO:0070405 -name: ammonium ion binding -namespace: molecular_function -def: "Binding to ammonium ions (NH4+)." [CHEBI:28938, GOC:ecd] -synonym: "ammonium binding" RELATED [] -is_a: GO:0043169 ! cation binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:28938 ! ammonium -relationship: has_input CHEBI:28938 ! ammonium - [Term] id: GO:0070444 name: oligodendrocyte progenitor proliferation @@ -55093,15 +55033,6 @@ relationship: results_in_assembly_of GO:0005604 ! basement membrane created_by: mah creation_date: 2009-07-23T05:01:51Z -[Term] -id: GO:0070851 -name: growth factor receptor binding -namespace: molecular_function -def: "Binding to a growth factor receptor." [GOC:mah, GOC:vw] -is_a: GO:0005102 ! signaling receptor binding -created_by: mah -creation_date: 2009-08-07T11:23:02Z - [Term] id: GO:0070857 name: regulation of bile acid biosynthetic process @@ -55174,7 +55105,6 @@ name: regulation of glycogen metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving glycogen." [GOC:mah] synonym: "regulation of glycogen metabolism" EXACT [GOC:mah] -is_a: GO:0010675 ! regulation of cellular carbohydrate metabolic process is_a: GO:0032881 ! regulation of polysaccharide metabolic process is_a: GO:0043467 ! regulation of generation of precursor metabolites and energy intersection_of: GO:0065007 ! biological regulation @@ -55190,7 +55120,8 @@ namespace: biological_process def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving glycogen." [GOC:mah] synonym: "negative regulation of glycogen metabolism" EXACT [GOC:mah] is_a: GO:0010605 ! negative regulation of macromolecule metabolic process -is_a: GO:0010677 ! negative regulation of cellular carbohydrate metabolic process +is_a: GO:0031324 ! negative regulation of cellular metabolic process +is_a: GO:0045912 ! negative regulation of carbohydrate metabolic process is_a: GO:0070873 ! regulation of glycogen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0005977 ! glycogen metabolic process @@ -55206,6 +55137,7 @@ def: "Any process that activates or increases the frequency, rate or extent of t synonym: "positive regulation of glycogen metabolism" EXACT [GOC:mah] is_a: GO:0010604 ! positive regulation of macromolecule metabolic process is_a: GO:0010907 ! positive regulation of glucose metabolic process +is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0070873 ! regulation of glycogen metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0005977 ! glycogen metabolic process @@ -55899,18 +55831,35 @@ intersection_of: results_in_transport_across GO:0016020 ! membrane created_by: mah creation_date: 2010-09-03T02:54:26Z +[Term] +id: GO:0071824 +name: protein-DNA complex organization +namespace: biological_process +def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex." [GOC:mah] +synonym: "DNA-protein complex subunit organization" EXACT [GOC:mah] +synonym: "protein-DNA complex subunit organisation" EXACT [GOC:mah] +synonym: "protein-DNA complex subunit organization" EXACT [] +is_a: GO:0043933 ! protein-containing complex organization +intersection_of: GO:0016043 ! cellular component organization +intersection_of: results_in_organization_of GO:0032993 ! protein-DNA complex +relationship: results_in_organization_of GO:0032993 ! protein-DNA complex +created_by: mah +creation_date: 2010-09-08T10:03:26Z + [Term] id: GO:0071826 -name: ribonucleoprotein complex subunit organization +name: protein-RNA complex organization namespace: biological_process def: "Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex." [GOC:mah] synonym: "protein-RNA complex subunit organization" EXACT [GOC:mah] synonym: "ribonucleoprotein complex subunit organisation" EXACT [GOC:mah] +synonym: "ribonucleoprotein complex subunit organization" EXACT [] synonym: "RNA-protein complex subunit organization" EXACT [GOC:mah] is_a: GO:0043933 ! protein-containing complex organization intersection_of: GO:0016043 ! cellular component organization intersection_of: results_in_organization_of GO:1990904 ! ribonucleoprotein complex relationship: results_in_organization_of GO:1990904 ! ribonucleoprotein complex +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/25143" xsd:anyURI created_by: mah creation_date: 2010-09-08T10:10:35Z @@ -56048,24 +55997,28 @@ created_by: mah creation_date: 2010-09-14T12:50:40Z [Term] -id: GO:0071890 -name: bicarbonate binding -namespace: molecular_function -def: "Binding to bicarbonate ions (CHO3-)." [GOC:curators] -synonym: "CHO3- ion binding binding" EXACT [] -synonym: "hydrogencarbonate binding" EXACT [CHEBI:17544] -is_a: GO:0043168 ! anion binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:17544 ! hydrogencarbonate -relationship: has_input CHEBI:17544 ! hydrogencarbonate +id: GO:0071897 +name: DNA biosynthetic process +namespace: biological_process +def: "The biosynthetic process resulting in the formation of DNA." [GOC:mah] +synonym: "DNA anabolism" EXACT [GOC:mah] +synonym: "DNA biosynthesis" EXACT [GOC:mah] +synonym: "DNA formation" EXACT [GOC:mah] +synonym: "DNA synthesis" EXACT [GOC:mah] +is_a: GO:0006259 ! DNA metabolic process +is_a: GO:0009059 ! macromolecule biosynthetic process +is_a: GO:0034654 ! nucleobase-containing compound biosynthetic process +intersection_of: GO:0009058 ! biosynthetic process +intersection_of: has_primary_output CHEBI:16991 ! deoxyribonucleic acid +relationship: has_primary_output CHEBI:16991 ! deoxyribonucleic acid created_by: mah -creation_date: 2010-09-14T01:47:43Z +creation_date: 2010-09-15T02:14:33Z [Term] id: GO:0071944 name: cell periphery namespace: cellular_component -def: "The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures." [GOC:mah] +def: "The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures." [GOC:pdt] subset: goslim_flybase_ribbon is_a: GO:0110165 ! cellular anatomical entity created_by: mah @@ -56980,6 +56933,7 @@ id: GO:0090166 name: Golgi disassembly namespace: biological_process def: "A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance." [GOC:ascb_2009, GOC:dph, GOC:tb] +synonym: "Golgi apparatus disassembly" EXACT [] is_a: GO:0007030 ! Golgi organization is_a: GO:1903008 ! organelle disassembly intersection_of: GO:0022411 ! cellular component disassembly @@ -56994,6 +56948,7 @@ id: GO:0090168 name: Golgi reassembly namespace: biological_process def: "The reformation of the Golgi following its breakdown and partitioning contributing to Golgi inheritance." [GOC:ascb_2009, GOC:dph, GOC:tb] +synonym: "Golgi apparatus reassembly" EXACT [] is_a: GO:0007030 ! Golgi organization is_a: GO:0022607 ! cellular component assembly relationship: part_of GO:0048313 ! Golgi inheritance @@ -57308,11 +57263,12 @@ name: catecholamine uptake namespace: biological_process def: "The directed movement of catecholamine into a cell." [GOC:dph, GOC:tb] is_a: GO:0051937 ! catecholamine transport -is_a: GO:0098657 ! import into cell intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:33567 ! catecholamine intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region +relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure +relationship: has_target_start_location GO:0005576 ! extracellular region created_by: tb creation_date: 2012-10-17T11:06:17Z @@ -57481,6 +57437,22 @@ relationship: occurs_in CL:0000169 ! type B pancreatic cell created_by: pr creation_date: 2011-05-04T02:24:38Z +[Term] +id: GO:0097054 +name: L-glutamate biosynthetic process +namespace: biological_process +def: "The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid." [GOC:yaf] +synonym: "L-glutamate anabolism" EXACT [] +synonym: "L-glutamate biosynthesis" EXACT [] +synonym: "L-glutamate formation" EXACT [] +synonym: "L-glutamate synthesis" EXACT [] +is_a: GO:0006537 ! glutamate biosynthetic process +intersection_of: GO:0008152 ! metabolic process +intersection_of: has_primary_input_or_output CHEBI:29985 ! L-glutamate(1-) +relationship: has_primary_input_or_output CHEBI:29985 ! L-glutamate(1-) +created_by: pr +creation_date: 2011-05-24T04:30:38Z + [Term] id: GO:0097060 name: synaptic membrane @@ -57563,18 +57535,6 @@ relationship: occurs_in CL:0008019 ! mesenchymal cell created_by: pr creation_date: 2011-09-06T02:31:59Z -[Term] -id: GO:0097159 -name: organic cyclic compound binding -namespace: molecular_function -def: "Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure." [GOC:sjw, PMID:7583672] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33832 ! organic cyclic compound -relationship: has_input CHEBI:33832 ! organic cyclic compound -created_by: pr -creation_date: 2011-09-23T02:31:01Z - [Term] id: GO:0097164 name: ammonium ion metabolic process @@ -57754,20 +57714,6 @@ relationship: acts_on_population_of CL:0011101 ! chorionic trophoblast cell created_by: pr creation_date: 2012-07-19T10:17:37Z -[Term] -id: GO:0097367 -name: carbohydrate derivative binding -namespace: molecular_function -def: "Binding to a carbohydrate derivative." [GOC:pr] -subset: goslim_agr -subset: goslim_mouse -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:63299 ! carbohydrate derivative -relationship: has_input CHEBI:63299 ! carbohydrate derivative -created_by: pr -creation_date: 2012-08-02T13:03:39Z - [Term] id: GO:0097386 name: glial cell projection @@ -57977,18 +57923,6 @@ relationship: results_in_fusion_of GO:0005773 ! vacuole created_by: pr creation_date: 2014-02-28T09:49:31Z -[Term] -id: GO:0097690 -name: iron ion transmembrane transporter inhibitor activity -namespace: molecular_function -def: "Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter." [GOC:BHF, GOC:kom, PMID:15514116] -comment: An example of this is human hepcidin (UniProt symbol P81172), which regulates iron transport out of cells (see PMID:15514116). -synonym: "iron channel inhibitor activity" EXACT [] -is_a: GO:0140678 ! molecular function inhibitor activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_negatively_regulates GO:0005381 ! iron ion transmembrane transporter activity -relationship: directly_negatively_regulates GO:0005381 ! iron ion transmembrane transporter activity - [Term] id: GO:0097708 name: intracellular vesicle @@ -58162,43 +58096,6 @@ is_a: GO:0007155 ! cell adhesion created_by: dos creation_date: 2014-04-16T13:40:03Z -[Term] -id: GO:0098631 -name: cell adhesion mediator activity -namespace: molecular_function -def: "The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell." [GOC:vw, Wikipedia:Cell_adhesion] -subset: goslim_generic -subset: prokaryote_subset -synonym: "cell adhesion molecule" EXACT [] -synonym: "protein binding involved in cell adhesion" EXACT [] -is_a: GO:0050839 ! cell adhesion molecule binding -intersection_of: GO:0005488 ! binding -intersection_of: part_of GO:0007155 ! cell adhesion -relationship: part_of GO:0007155 ! cell adhesion -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/22959" xsd:anyURI - -[Term] -id: GO:0098632 -name: cell-cell adhesion mediator activity -namespace: molecular_function -def: "The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell." [Wikipedia:Cell_adhesion] -synonym: "cell-cell adhesion molecule" EXACT [] -synonym: "protein binding involved in cell-cell adhesion" EXACT [] -is_a: GO:0098631 ! cell adhesion mediator activity -intersection_of: GO:0005515 ! protein binding -intersection_of: part_of GO:0098609 ! cell-cell adhesion -relationship: part_of GO:0098609 ! cell-cell adhesion - -[Term] -id: GO:0098633 -name: collagen fibril binding -namespace: molecular_function -def: "Binding to a collagen fibril." [GOC:dos, PMID:21421911] -is_a: GO:0044877 ! protein-containing complex binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0098643 ! banded collagen fibril -relationship: has_input GO:0098643 ! banded collagen fibril - [Term] id: GO:0098635 name: protein complex involved in cell-cell adhesion @@ -58221,16 +58118,6 @@ intersection_of: GO:0032991 ! protein-containing complex intersection_of: capable_of_part_of GO:0007155 ! cell adhesion relationship: capable_of_part_of GO:0007155 ! cell adhesion -[Term] -id: GO:0098641 -name: cadherin binding involved in cell-cell adhesion -namespace: molecular_function -def: "Any cadherin binding that occurs as part of the process of cell-cell adhesion." [GOC:dos] -is_a: GO:0045296 ! cadherin binding -is_a: GO:0098632 ! cell-cell adhesion mediator activity -intersection_of: GO:0045296 ! cadherin binding -intersection_of: part_of GO:0098609 ! cell-cell adhesion - [Term] id: GO:0098642 name: network-forming collagen trimer @@ -58302,10 +58189,10 @@ synonym: "uptake" BROAD [] is_a: GO:0006810 ! transport intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:24431 ! chemical entity -intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure +intersection_of: has_target_end_location GO:0005737 ! cytoplasm intersection_of: has_target_start_location GO:0005576 ! extracellular region relationship: has_primary_input CHEBI:24431 ! chemical entity -relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure +relationship: has_target_end_location GO:0005737 ! cytoplasm relationship: has_target_start_location GO:0005576 ! extracellular region [Term] @@ -58413,30 +58300,13 @@ id: GO:0098771 name: inorganic ion homeostasis namespace: biological_process def: "Any process involved in the maintenance of an internal steady state of inorganic ions within an organism or cell." [GOC:dos] +subset: goslim_pombe is_a: GO:0048878 ! chemical homeostasis intersection_of: GO:0042592 ! homeostatic process intersection_of: regulates_levels_of CHEBI:36914 ! inorganic ion relationship: regulates_levels_of CHEBI:36914 ! inorganic ion property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/24455" xsd:anyURI -[Term] -id: GO:0098772 -name: molecular function regulator activity -namespace: molecular_function -def: "A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition." [GOC:dos, GOC:pt] -subset: gocheck_do_not_annotate -subset: goslim_flybase_ribbon -subset: goslim_generic -subset: prokaryote_subset -synonym: "molecular function regulator" EXACT [] -is_a: GO:0003674 ! molecular_function -intersection_of: GO:0003674 ! molecular_function -intersection_of: directly_regulates GO:0003674 ! molecular_function -relationship: directly_regulates GO:0003674 ! molecular_function -relationship: has_part GO:0005515 ! protein binding -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/20854" xsd:anyURI -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/20862" xsd:anyURI - [Term] id: GO:0098773 name: skin epidermis development @@ -59318,8 +59188,9 @@ subset: goslim_synapse is_a: GO:0007267 ! cell-cell signaling intersection_of: GO:0007267 ! cell-cell signaling intersection_of: occurs_in GO:0045202 ! synapse +relationship: in_taxon NCBITaxon:33208 {all_only="true"} ! Metazoa relationship: occurs_in GO:0045202 ! synapse -property_value: RO:0002161 NCBITaxon:4895 +relationship: only_in_taxon NCBITaxon:33208 ! Metazoa [Term] id: GO:0099537 @@ -59399,10 +59270,10 @@ namespace: biological_process def: "Cell-cell signaling between presynapse and postsynapse, across the synaptic cleft, that modulates the synaptic transmission properties of the synapse." [GOC:dos] comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. subset: goslim_synapse +is_a: GO:0050804 ! modulation of chemical synaptic transmission is_a: GO:0099537 ! trans-synaptic signaling intersection_of: GO:0099537 ! trans-synaptic signaling intersection_of: regulates GO:0007268 ! chemical synaptic transmission -relationship: regulates GO:0007268 ! chemical synaptic transmission [Term] id: GO:0099551 @@ -60002,6 +59873,7 @@ id: GO:0110112 name: regulation of lipid transporter activity namespace: biological_process def: "Any process that modulates the frequency, rate, or extent of lipid transporter activity." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:27365390] +subset: term_scheduled_for_obsoletion is_a: GO:0032368 ! regulation of lipid transport is_a: GO:0032409 ! regulation of transporter activity intersection_of: GO:0065007 ! biological regulation @@ -60015,6 +59887,7 @@ id: GO:0110113 name: positive regulation of lipid transporter activity namespace: biological_process def: "Any process that increases the frequency, rate, or extent of lipid transporter activity." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:27365390] +subset: term_scheduled_for_obsoletion is_a: GO:0032370 ! positive regulation of lipid transport is_a: GO:0032411 ! positive regulation of transporter activity is_a: GO:0110112 ! regulation of lipid transporter activity @@ -60029,6 +59902,7 @@ id: GO:0110114 name: negative regulation of lipid transporter activity namespace: biological_process def: "Any process that decreases the frequency, rate, or extent of lipid transporter activity." [GOC:BHF, GOC:BHF_miRNA, GOC:rph, PMID:27365390] +subset: term_scheduled_for_obsoletion is_a: GO:0032369 ! negative regulation of lipid transport is_a: GO:0032410 ! negative regulation of transporter activity is_a: GO:0110112 ! regulation of lipid transporter activity @@ -60131,6 +60005,7 @@ id: GO:0110165 name: cellular anatomical entity namespace: cellular_component def: "A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex but below that of an anatomical system. Or, a substance produced by a cellular organism with granularity above the level of a protein complex." [GOC:kmv] +subset: goslim_pir is_a: GO:0005575 ! cellular_component created_by: kmv creation_date: 2019-08-12T18:01:37Z @@ -60176,19 +60051,6 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: krc creation_date: 2017-03-01T16:35:45Z -[Term] -id: GO:0120023 -name: somatostatin binding -namespace: molecular_function -def: "Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin." [GOC:cvs, PMID:20472043] -is_a: GO:0017046 ! peptide hormone binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:64628 ! somatostatin -relationship: has_input CHEBI:64628 ! somatostatin -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/13143" xsd:anyURI -created_by: krc -creation_date: 2017-03-17T14:54:21Z - [Term] id: GO:0120025 name: plasma membrane bounded cell projection @@ -60641,6 +60503,21 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: pg creation_date: 2017-09-14T10:32:59Z +[Term] +id: GO:0140097 +name: catalytic activity, acting on DNA +namespace: molecular_function +def: "Catalytic activity that acts to modify DNA." [GOC:molecular_function_refactoring, GOC:pdt] +subset: goslim_generic +subset: prokaryote_subset +is_a: GO:0140640 ! catalytic activity, acting on a nucleic acid +intersection_of: GO:0003824 ! catalytic activity +intersection_of: has_input CHEBI:16991 ! deoxyribonucleic acid +relationship: has_input CHEBI:16991 ! deoxyribonucleic acid +property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/14225" xsd:anyURI +created_by: pg +creation_date: 2017-09-14T12:03:51Z + [Term] id: GO:0140098 name: catalytic activity, acting on RNA @@ -60726,6 +60603,40 @@ property_value: IAO:0000233 "https://github.com/geneontology/synapse/issues/216" created_by: pg creation_date: 2018-07-13T13:07:23Z +[Term] +id: GO:0140238 +name: presynaptic endocytosis +namespace: biological_process +def: "A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle." [PMID:24719103] +comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. +subset: goslim_synapse +is_a: GO:0006897 ! endocytosis +is_a: GO:0051649 ! establishment of localization in cell +is_a: GO:0099003 ! vesicle-mediated transport in synapse +intersection_of: GO:0006897 ! endocytosis +intersection_of: occurs_in GO:0098793 ! presynapse +relationship: occurs_in GO:0098793 ! presynapse +property_value: IAO:0000233 "https://github.com/geneontology/synapse/issues/230" xsd:anyURI +created_by: pg +creation_date: 2018-07-15T07:33:55Z + +[Term] +id: GO:0140239 +name: postsynaptic endocytosis +namespace: biological_process +def: "A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle." [PMID:12839988] +comment: Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. +subset: goslim_synapse +is_a: GO:0006897 ! endocytosis +is_a: GO:0051649 ! establishment of localization in cell +is_a: GO:0099003 ! vesicle-mediated transport in synapse +intersection_of: GO:0006897 ! endocytosis +intersection_of: occurs_in GO:0098794 ! postsynapse +relationship: occurs_in GO:0098794 ! postsynapse +property_value: IAO:0000233 "https://github.com/geneontology/synapse/issues/230" xsd:anyURI +created_by: pg +creation_date: 2018-07-15T07:38:27Z + [Term] id: GO:0140241 name: translation at synapse @@ -60925,22 +60836,6 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: pg creation_date: 2018-08-13T18:38:18Z -[Term] -id: GO:0140297 -name: DNA-binding transcription factor binding -namespace: molecular_function -alt_id: GO:0001107 -alt_id: GO:0033613 -alt_id: GO:0070491 -def: "Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription." [GOC:txnOH-2018] -synonym: "activating transcription factor binding" RELATED [] -synonym: "repressing transcription factor binding" RELATED [] -synonym: "transcription activator binding" RELATED [] -is_a: GO:0008134 ! transcription factor binding -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI -created_by: pg -creation_date: 2018-11-28T12:48:20Z - [Term] id: GO:0140318 name: protein transporter activity @@ -60997,11 +60892,12 @@ namespace: biological_process def: "The directed movement of a lipid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis." [GOC:pg] synonym: "lipid uptake" BROAD [] is_a: GO:0006869 ! lipid transport -is_a: GO:0098657 ! import into cell intersection_of: GO:0006810 ! transport intersection_of: has_primary_input CHEBI:18059 ! lipid intersection_of: has_target_end_location GO:0005622 ! intracellular anatomical structure intersection_of: has_target_start_location GO:0005576 ! extracellular region +relationship: has_target_end_location GO:0005622 ! intracellular anatomical structure +relationship: has_target_start_location GO:0005576 ! extracellular region created_by: pg creation_date: 2019-05-22T11:38:15Z @@ -61059,32 +60955,6 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: pg creation_date: 2021-05-25T12:48:12Z -[Term] -id: GO:0140677 -name: molecular function activator activity -namespace: molecular_function -def: "A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target." [GOC:curators] -is_a: GO:0098772 ! molecular function regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_positively_regulates GO:0003674 ! molecular_function -relationship: directly_positively_regulates GO:0003674 ! molecular_function -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/21782" xsd:anyURI -created_by: pg -creation_date: 2021-07-07T07:24:16Z - -[Term] -id: GO:0140678 -name: molecular function inhibitor activity -namespace: molecular_function -def: "A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target." [GOC:curators] -is_a: GO:0098772 ! molecular function regulator activity -intersection_of: GO:0098772 ! molecular function regulator activity -intersection_of: directly_negatively_regulates GO:0003674 ! molecular_function -relationship: directly_negatively_regulates GO:0003674 ! molecular_function -property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/21782" xsd:anyURI -created_by: pg -creation_date: 2021-07-07T07:24:32Z - [Term] id: GO:0140694 name: non-membrane-bounded organelle assembly @@ -61144,16 +61014,6 @@ property_value: IAO:0000233 "https://github.com/geneontology/go-ontology/issues/ created_by: pg creation_date: 2022-12-12T09:11:06Z -[Term] -id: GO:0150005 -name: enzyme activator complex -namespace: cellular_component -def: "A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active." [GOC:bhm, PMID:16244137, PMID:28710280] -is_a: GO:0032991 ! protein-containing complex -intersection_of: GO:0032991 ! protein-containing complex -intersection_of: capable_of GO:0008047 ! enzyme activator activity -relationship: capable_of GO:0008047 ! enzyme activator activity - [Term] id: GO:0150031 name: regulation of protein localization to lysosome @@ -61640,54 +61500,6 @@ relationship: positively_regulates GO:0097194 ! execution phase of apoptosis created_by: pr creation_date: 2012-02-22T11:26:27Z -[Term] -id: GO:1900120 -name: regulation of receptor binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] -synonym: "regulation of receptor ligand" NARROW [GOC:TermGenie] -is_a: GO:0043393 ! regulation of protein binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0005102 ! signaling receptor binding -relationship: regulates GO:0005102 ! signaling receptor binding -created_by: bf -creation_date: 2012-02-22T11:40:53Z - -[Term] -id: GO:1900121 -name: negative regulation of receptor binding -namespace: biological_process -def: "Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] -synonym: "down regulation of receptor binding" EXACT [GOC:TermGenie] -synonym: "down regulation of receptor-associated protein activity" RELATED [GOC:TermGenie] -synonym: "down-regulation of receptor binding" EXACT [GOC:TermGenie] -synonym: "downregulation of receptor binding" EXACT [GOC:TermGenie] -synonym: "inhibition of receptor binding" NARROW [GOC:TermGenie] -synonym: "inhibition of receptor ligand" NARROW [GOC:TermGenie] -is_a: GO:0032091 ! negative regulation of protein binding -is_a: GO:1900120 ! regulation of receptor binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0005102 ! signaling receptor binding -relationship: negatively_regulates GO:0005102 ! signaling receptor binding -created_by: bf -creation_date: 2012-02-22T11:40:57Z - -[Term] -id: GO:1900122 -name: positive regulation of receptor binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor." [GOC:signaling, GOC:TermGenie] -synonym: "activation of receptor binding" NARROW [GOC:TermGenie] -synonym: "up regulation of receptor binding" EXACT [GOC:TermGenie] -synonym: "upregulation of receptor binding" EXACT [GOC:TermGenie] -is_a: GO:0032092 ! positive regulation of protein binding -is_a: GO:1900120 ! regulation of receptor binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0005102 ! signaling receptor binding -relationship: positively_regulates GO:0005102 ! signaling receptor binding -created_by: bf -creation_date: 2012-02-22T11:41:00Z - [Term] id: GO:1900125 name: regulation of hyaluronan biosynthetic process @@ -61783,52 +61595,6 @@ relationship: positively_regulates GO:0030213 ! hyaluronan biosynthetic process created_by: yaf creation_date: 2012-02-23T01:09:33Z -[Term] -id: GO:1900130 -name: regulation of lipid binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0008289 ! lipid binding -relationship: regulates GO:0008289 ! lipid binding -created_by: pm -creation_date: 2012-02-23T04:05:03Z - -[Term] -id: GO:1900131 -name: negative regulation of lipid binding -namespace: biological_process -def: "Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] -synonym: "down regulation of lipid binding" EXACT [GOC:TermGenie] -synonym: "down-regulation of lipid binding" EXACT [GOC:TermGenie] -synonym: "downregulation of lipid binding" EXACT [GOC:TermGenie] -synonym: "inhibition of lipid binding" NARROW [GOC:TermGenie] -is_a: GO:0051100 ! negative regulation of binding -is_a: GO:1900130 ! regulation of lipid binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0008289 ! lipid binding -relationship: negatively_regulates GO:0008289 ! lipid binding -created_by: pm -creation_date: 2012-02-23T04:05:07Z - -[Term] -id: GO:1900132 -name: positive regulation of lipid binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of lipid binding." [GOC:pm, GOC:TermGenie] -synonym: "activation of lipid binding" NARROW [GOC:TermGenie] -synonym: "up regulation of lipid binding" EXACT [GOC:TermGenie] -synonym: "up-regulation of lipid binding" EXACT [GOC:TermGenie] -synonym: "upregulation of lipid binding" EXACT [GOC:TermGenie] -is_a: GO:0051099 ! positive regulation of binding -is_a: GO:1900130 ! regulation of lipid binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0008289 ! lipid binding -relationship: positively_regulates GO:0008289 ! lipid binding -created_by: pm -creation_date: 2012-02-23T04:05:11Z - [Term] id: GO:1900141 name: regulation of oligodendrocyte apoptotic process @@ -62710,7 +62476,7 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of neuron death." [GOC:rph, GOC:TermGenie] synonym: "regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "regulation of neuronal cell death" EXACT [GOC:TermGenie] -is_a: GO:0010941 ! regulation of cell death +is_a: GO:0050794 ! regulation of cellular process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0070997 ! neuron death relationship: in_taxon NCBITaxon:33208 {all_only="true"} ! Metazoa @@ -62738,7 +62504,7 @@ synonym: "inhibition of neuron death" NARROW [GOC:TermGenie] synonym: "inhibition of neuronal cell death" NARROW [GOC:TermGenie] synonym: "negative regulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "negative regulation of neuronal cell death" EXACT [GOC:TermGenie] -is_a: GO:0060548 ! negative regulation of cell death +is_a: GO:0048523 ! negative regulation of cellular process is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: negatively_regulates GO:0070997 ! neuron death @@ -62765,7 +62531,7 @@ synonym: "up-regulation of neuronal cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron cell death" EXACT [GOC:TermGenie] synonym: "upregulation of neuron death" EXACT [GOC:TermGenie] synonym: "upregulation of neuronal cell death" EXACT [GOC:TermGenie] -is_a: GO:0010942 ! positive regulation of cell death +is_a: GO:0048522 ! positive regulation of cellular process is_a: GO:1901214 ! regulation of neuron death intersection_of: GO:0065007 ! biological regulation intersection_of: positively_regulates GO:0070997 ! neuron death @@ -62890,18 +62656,6 @@ relationship: has_primary_input CHEBI:63299 ! carbohydrate derivative created_by: bf creation_date: 2012-08-16T14:51:22Z -[Term] -id: GO:1901338 -name: catecholamine binding -namespace: molecular_function -def: "Binding to catecholamine." [GOC:TermGenie] -is_a: GO:0097159 ! organic cyclic compound binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:33567 ! catecholamine -relationship: has_input CHEBI:33567 ! catecholamine -created_by: bf -creation_date: 2012-09-03T14:08:44Z - [Term] id: GO:1901342 name: regulation of vasculature development @@ -62984,18 +62738,6 @@ relationship: has_primary_output CHEBI:33832 ! organic cyclic compound created_by: bf creation_date: 2012-09-14T09:05:22Z -[Term] -id: GO:1901363 -name: heterocyclic compound binding -namespace: molecular_function -def: "Binding to heterocyclic compound." [GOC:TermGenie] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:5686 ! heterocyclic compound -relationship: has_input CHEBI:5686 ! heterocyclic compound -created_by: bf -creation_date: 2012-09-14T13:53:50Z - [Term] id: GO:1901374 name: acetate ester transport @@ -63959,19 +63701,6 @@ intersection_of: has_input CHEBI:17087 ! ketone created_by: pr creation_date: 2012-11-20T10:55:51Z -[Term] -id: GO:1901681 -name: sulfur compound binding -namespace: molecular_function -def: "Binding to a sulfur compound." [GOC:pr, GOC:TermGenie] -synonym: "sulfur molecular entity binding" EXACT [] -is_a: GO:0005488 ! binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:26835 ! sulfur molecular entity -relationship: has_input CHEBI:26835 ! sulfur molecular entity -created_by: pr -creation_date: 2012-11-26T20:45:23Z - [Term] id: GO:1901682 name: sulfur compound transmembrane transporter activity @@ -64539,6 +64268,19 @@ relationship: positively_regulates GO:0060218 ! hematopoietic stem cell differen created_by: ss creation_date: 2013-04-02T05:19:19Z +[Term] +id: GO:1902065 +name: response to L-glutamate +namespace: biological_process +def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus." [GOC:TermGenie, PMID:23574009] +is_a: GO:0010243 ! response to organonitrogen compound +is_a: GO:1901700 ! response to oxygen-containing compound +intersection_of: GO:0050896 ! response to stimulus +intersection_of: has_input CHEBI:29985 ! L-glutamate(1-) +relationship: has_input CHEBI:29985 ! L-glutamate(1-) +created_by: tb +creation_date: 2013-04-16T21:21:14Z + [Term] id: GO:1902074 name: response to salt @@ -65312,6 +65054,99 @@ relationship: capable_of GO:0022857 ! transmembrane transporter activity created_by: bhm creation_date: 2013-11-13T16:23:04Z +[Term] +id: GO:1902510 +name: regulation of apoptotic DNA fragmentation +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation." [GOC:hjd, GOC:TermGenie, PMID:15572351, PMID:15723341] +comment: DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases (see GO:0006309 'apoptotic DNA fragmentation'). Gene products involved in compartmentalization of such nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). +synonym: "regulation of chromatinolysis" BROAD [GOC:TermGenie] +synonym: "regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "regulation of DNA fragmentation" BROAD [GOC:TermGenie] +synonym: "regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +is_a: GO:1903624 ! regulation of DNA catabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006309 ! apoptotic DNA fragmentation +relationship: regulates GO:0006309 ! apoptotic DNA fragmentation +created_by: hjd +creation_date: 2013-11-15T18:28:32Z + +[Term] +id: GO:1902511 +name: negative regulation of apoptotic DNA fragmentation +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation." [GOC:hjd, GOC:TermGenie, PMID:15572351] +synonym: "down regulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "down regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "down-regulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "down-regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "downregulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "downregulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "inhibition of apoptotic DNA fragmentation" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA catabolic process during apoptosis" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA catabolism during apoptosis" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA fragmentation involved in apoptotic nuclear change" NARROW [GOC:TermGenie] +synonym: "inhibition of endonucleolytic DNA catabolic process involved in apoptosis" NARROW [GOC:TermGenie] +synonym: "negative regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "negative regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "negative regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "negative regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +is_a: GO:1902510 ! regulation of apoptotic DNA fragmentation +is_a: GO:1903625 ! negative regulation of DNA catabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006309 ! apoptotic DNA fragmentation +relationship: negatively_regulates GO:0006309 ! apoptotic DNA fragmentation +created_by: hjd +creation_date: 2013-11-15T18:28:41Z + +[Term] +id: GO:1902512 +name: positive regulation of apoptotic DNA fragmentation +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of apoptotic DNA fragmentation." [GOC:hjd, GOC:TermGenie, PMID:15572351] +synonym: "activation of apoptotic DNA fragmentation" NARROW [GOC:TermGenie] +synonym: "activation of DNA catabolic process during apoptosis" NARROW [GOC:TermGenie] +synonym: "activation of DNA catabolism during apoptosis" NARROW [GOC:TermGenie] +synonym: "activation of DNA fragmentation involved in apoptotic nuclear change" NARROW [GOC:TermGenie] +synonym: "activation of endonucleolytic DNA catabolic process involved in apoptosis" NARROW [GOC:TermGenie] +synonym: "positive regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "positive regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "positive regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "positive regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "up regulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "up regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "up-regulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "up-regulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +synonym: "upregulation of apoptotic DNA fragmentation" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA catabolic process during apoptosis" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA catabolism during apoptosis" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA fragmentation involved in apoptotic nuclear change" EXACT [GOC:TermGenie] +synonym: "upregulation of endonucleolytic DNA catabolic process involved in apoptosis" EXACT [GOC:TermGenie] +is_a: GO:1902510 ! regulation of apoptotic DNA fragmentation +is_a: GO:1903626 ! positive regulation of DNA catabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006309 ! apoptotic DNA fragmentation +relationship: positively_regulates GO:0006309 ! apoptotic DNA fragmentation +created_by: hjd +creation_date: 2013-11-15T18:28:50Z + [Term] id: GO:1902513 name: regulation of organelle transport along microtubule @@ -66328,7 +66163,6 @@ namespace: biological_process def: "Any process that modulates the frequency, rate or extent of glycoprotein metabolic process." [GO_REF:0000058, GOC:BHF, GOC:rl, GOC:TermGenie, PMID:23544079] comment: human serum amyloid P component (SAP) P02743 inhibits viral neuraminidase, NA (exo-alpha-sialidase activity) and thus the metabolism of glycoproteins, demonstrated in Figure 4A PMID:23544079, (IDA), the negative regulation term would be applied to this protein synonym: "regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] -is_a: GO:0031323 ! regulation of cellular metabolic process is_a: GO:0051246 ! regulation of protein metabolic process intersection_of: GO:0065007 ! biological regulation intersection_of: regulates GO:0009100 ! glycoprotein metabolic process @@ -66351,7 +66185,6 @@ synonym: "downregulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "inhibition of glycoprotein metabolic process" NARROW [GOC:TermGenie] synonym: "inhibition of glycoprotein metabolism" NARROW [GOC:TermGenie] synonym: "negative regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] -is_a: GO:0031324 ! negative regulation of cellular metabolic process is_a: GO:0051248 ! negative regulation of protein metabolic process is_a: GO:1903018 ! regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation @@ -66375,7 +66208,6 @@ synonym: "up-regulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "up-regulation of glycoprotein metabolism" EXACT [GOC:TermGenie] synonym: "upregulation of glycoprotein metabolic process" EXACT [GOC:TermGenie] synonym: "upregulation of glycoprotein metabolism" EXACT [GOC:TermGenie] -is_a: GO:0031325 ! positive regulation of cellular metabolic process is_a: GO:0051247 ! positive regulation of protein metabolic process is_a: GO:1903018 ! regulation of glycoprotein metabolic process intersection_of: GO:0065007 ! biological regulation @@ -67622,6 +67454,88 @@ relationship: positively_regulates GO:1903441 ! protein localization to ciliary created_by: krc creation_date: 2014-10-24T21:33:08Z +[Term] +id: GO:1903624 +name: regulation of DNA catabolic process +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of DNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:2001740] +synonym: "regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "regulation of DNA degradation" EXACT [GOC:TermGenie] +is_a: GO:0031329 ! regulation of cellular catabolic process +is_a: GO:0051052 ! regulation of DNA metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0006308 ! DNA catabolic process +relationship: regulates GO:0006308 ! DNA catabolic process +created_by: sl +creation_date: 2014-11-19T22:36:35Z + +[Term] +id: GO:1903625 +name: negative regulation of DNA catabolic process +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:2001740] +synonym: "down regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "down regulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "down-regulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "downregulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "inhibition of DNA breakdown" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA catabolic process" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA catabolism" NARROW [GOC:TermGenie] +synonym: "inhibition of DNA degradation" NARROW [GOC:TermGenie] +synonym: "negative regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "negative regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "negative regulation of DNA degradation" EXACT [GOC:TermGenie] +is_a: GO:0031330 ! negative regulation of cellular catabolic process +is_a: GO:0051053 ! negative regulation of DNA metabolic process +is_a: GO:1903624 ! regulation of DNA catabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0006308 ! DNA catabolic process +relationship: negatively_regulates GO:0006308 ! DNA catabolic process +created_by: sl +creation_date: 2014-11-19T22:36:43Z + +[Term] +id: GO:1903626 +name: positive regulation of DNA catabolic process +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of DNA catabolic process." [GO_REF:0000058, GOC:TermGenie, PMID:2001740] +synonym: "activation of DNA breakdown" NARROW [GOC:TermGenie] +synonym: "activation of DNA catabolic process" NARROW [GOC:TermGenie] +synonym: "activation of DNA catabolism" NARROW [GOC:TermGenie] +synonym: "activation of DNA degradation" NARROW [GOC:TermGenie] +synonym: "positive regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "positive regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "positive regulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "up regulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "up-regulation of DNA degradation" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA breakdown" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA catabolic process" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA catabolism" EXACT [GOC:TermGenie] +synonym: "upregulation of DNA degradation" EXACT [GOC:TermGenie] +is_a: GO:0031331 ! positive regulation of cellular catabolic process +is_a: GO:0051054 ! positive regulation of DNA metabolic process +is_a: GO:1903624 ! regulation of DNA catabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0006308 ! DNA catabolic process +relationship: positively_regulates GO:0006308 ! DNA catabolic process +created_by: sl +creation_date: 2014-11-19T22:36:51Z + [Term] id: GO:1903697 name: negative regulation of microvillus assembly @@ -69227,6 +69141,7 @@ id: GO:1904254 name: regulation of iron ion transmembrane transporter activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of an iron transmembrane transporter activity." [GO_REF:0000059, GOC:BHF, GOC:kom, GOC:TermGenie, PMID:15514116] +subset: term_scheduled_for_obsoletion synonym: "regulation of iron cation channel activity" EXACT [GOC:TermGenie] synonym: "regulation of iron channel activity" EXACT [] synonym: "regulation of iron-specific channel activity" EXACT [GOC:TermGenie] @@ -69243,6 +69158,7 @@ id: GO:1904255 name: negative regulation of iron ion transmembrane transporter activity namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of an iron transmembrane transporter activity." [GO_REF:0000059, GOC:BHF, GOC:kom, GOC:TermGenie, PMID:15514116] +subset: term_scheduled_for_obsoletion synonym: "down regulation of iron cation channel activity" EXACT [GOC:TermGenie] synonym: "down regulation of iron channel activity" EXACT [GOC:TermGenie] synonym: "down regulation of iron-specific channel activity" EXACT [GOC:TermGenie] @@ -69272,6 +69188,7 @@ id: GO:1904256 name: positive regulation of iron ion transmembrane transporter activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of an iron transmembrane transporter activity." [GO_REF:0000059, GOC:BHF, GOC:kom, GOC:TermGenie, PMID:15514116] +subset: term_scheduled_for_obsoletion synonym: "activation of iron cation channel activity" NARROW [GOC:TermGenie] synonym: "activation of iron channel activity" NARROW [GOC:TermGenie] synonym: "activation of iron-specific channel activity" NARROW [GOC:TermGenie] @@ -69698,6 +69615,20 @@ relationship: positively_regulates GO:1990778 ! protein localization to cell per created_by: sl creation_date: 2015-06-22T22:09:37Z +[Term] +id: GO:1904390 +name: cone retinal bipolar cell differentiation +namespace: biological_process +def: "The process in which a relatively unspecialized cell acquires the specialized features of a cone retinal bipolar cell." [GO_REF:0000086, GOC:TermGenie, PMID:24123365] +synonym: "cone bipolar cell differentiation" EXACT [PMID:14745032] +synonym: "retinal cone bipolar cell differentiation" EXACT [] +is_a: GO:0060040 ! retinal bipolar neuron differentiation +intersection_of: GO:0030154 ! cell differentiation +intersection_of: results_in_acquisition_of_features_of CL:0000752 ! cone retinal bipolar cell +relationship: results_in_acquisition_of_features_of CL:0000752 ! cone retinal bipolar cell +created_by: sl +creation_date: 2015-06-23T19:01:16Z + [Term] id: GO:1904396 name: regulation of neuromuscular junction development @@ -69966,74 +69897,6 @@ relationship: has_target_end_location GO:0035869 ! ciliary transition zone created_by: kmv creation_date: 2015-07-17T20:43:21Z -[Term] -id: GO:1904526 -name: regulation of microtubule binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] -synonym: "regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -is_a: GO:0043393 ! regulation of protein binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0008017 ! microtubule binding -relationship: regulates GO:0008017 ! microtubule binding -created_by: als -creation_date: 2015-07-30T10:32:13Z - -[Term] -id: GO:1904527 -name: negative regulation of microtubule binding -namespace: biological_process -def: "Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] -synonym: "down regulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "down regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "down regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "down-regulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "down-regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "down-regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "downregulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "downregulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "downregulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "inhibition of microtubule binding" NARROW [GOC:TermGenie] -synonym: "inhibition of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "inhibition of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "negative regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "negative regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -is_a: GO:0032091 ! negative regulation of protein binding -is_a: GO:1904526 ! regulation of microtubule binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0008017 ! microtubule binding -relationship: negatively_regulates GO:0008017 ! microtubule binding -created_by: als -creation_date: 2015-07-30T10:32:29Z - -[Term] -id: GO:1904528 -name: positive regulation of microtubule binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of microtubule binding." [GO_REF:0000059, GOC:als, GOC:TermGenie, PMID:24520051] -synonym: "activation of microtubule binding" NARROW [GOC:TermGenie] -synonym: "activation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "activation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "positive regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "positive regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "up regulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "up regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "up regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "up-regulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "up-regulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "up-regulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -synonym: "upregulation of microtubule binding" EXACT [GOC:TermGenie] -synonym: "upregulation of microtubule severing activity" RELATED [GOC:TermGenie] -synonym: "upregulation of microtubule/chromatin interaction" RELATED [GOC:TermGenie] -is_a: GO:0032092 ! positive regulation of protein binding -is_a: GO:1904526 ! regulation of microtubule binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0008017 ! microtubule binding -relationship: positively_regulates GO:0008017 ! microtubule binding -created_by: als -creation_date: 2015-07-30T10:32:36Z - [Term] id: GO:1904587 name: response to glycoprotein @@ -71051,52 +70914,6 @@ relationship: positively_regulates GO:0072697 ! protein localization to cell cor created_by: es creation_date: 2015-10-29T16:55:15Z -[Term] -id: GO:1904793 -name: regulation of euchromatin binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of euchromatin binding." [GO_REF:0000059, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:22723415] -is_a: GO:0035561 ! regulation of chromatin binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:1990188 ! euchromatin binding -relationship: regulates GO:1990188 ! euchromatin binding -created_by: nc -creation_date: 2015-11-09T11:43:04Z - -[Term] -id: GO:1904794 -name: negative regulation of euchromatin binding -namespace: biological_process -def: "Any process that stops, prevents or reduces the frequency, rate or extent of euchromatin binding." [GO_REF:0000059, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:22723415] -synonym: "down regulation of euchromatin binding" EXACT [GOC:TermGenie] -synonym: "down-regulation of euchromatin binding" EXACT [GOC:TermGenie] -synonym: "downregulation of euchromatin binding" EXACT [GOC:TermGenie] -synonym: "inhibition of euchromatin binding" NARROW [GOC:TermGenie] -is_a: GO:0035562 ! negative regulation of chromatin binding -is_a: GO:1904793 ! regulation of euchromatin binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:1990188 ! euchromatin binding -relationship: negatively_regulates GO:1990188 ! euchromatin binding -created_by: nc -creation_date: 2015-11-09T11:43:12Z - -[Term] -id: GO:1904795 -name: positive regulation of euchromatin binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of euchromatin binding." [GO_REF:0000059, GOC:BHF, GOC:BHF_telomere, GOC:nc, GOC:TermGenie, PMID:22723415] -synonym: "activation of euchromatin binding" NARROW [GOC:TermGenie] -synonym: "up regulation of euchromatin binding" EXACT [GOC:TermGenie] -synonym: "up-regulation of euchromatin binding" EXACT [GOC:TermGenie] -synonym: "upregulation of euchromatin binding" EXACT [GOC:TermGenie] -is_a: GO:0035563 ! positive regulation of chromatin binding -is_a: GO:1904793 ! regulation of euchromatin binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:1990188 ! euchromatin binding -relationship: positively_regulates GO:1990188 ! euchromatin binding -created_by: nc -creation_date: 2015-11-09T11:43:19Z - [Term] id: GO:1904817 name: serous membrane development @@ -71897,6 +71714,52 @@ relationship: positively_regulates GO:0014895 ! smooth muscle hypertrophy created_by: bc creation_date: 2016-04-15T12:47:24Z +[Term] +id: GO:1905153 +name: regulation of membrane invagination +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:26589353] +is_a: GO:0051128 ! regulation of cellular component organization +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0010324 ! membrane invagination +relationship: regulates GO:0010324 ! membrane invagination +created_by: bf +creation_date: 2016-04-18T15:43:54Z + +[Term] +id: GO:1905154 +name: negative regulation of membrane invagination +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:26589353] +synonym: "down regulation of membrane invagination" EXACT [GOC:TermGenie] +synonym: "down-regulation of membrane invagination" EXACT [GOC:TermGenie] +synonym: "downregulation of membrane invagination" EXACT [GOC:TermGenie] +synonym: "inhibition of membrane invagination" NARROW [GOC:TermGenie] +is_a: GO:0051129 ! negative regulation of cellular component organization +is_a: GO:1905153 ! regulation of membrane invagination +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0010324 ! membrane invagination +relationship: negatively_regulates GO:0010324 ! membrane invagination +created_by: bf +creation_date: 2016-04-18T15:44:04Z + +[Term] +id: GO:1905155 +name: positive regulation of membrane invagination +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of membrane invagination." [GO_REF:0000058, GOC:bf, GOC:PARL, GOC:TermGenie] +synonym: "activation of membrane invagination" NARROW [GOC:TermGenie] +synonym: "up regulation of membrane invagination" EXACT [GOC:TermGenie] +synonym: "up-regulation of membrane invagination" EXACT [GOC:TermGenie] +synonym: "upregulation of membrane invagination" EXACT [GOC:TermGenie] +is_a: GO:0051130 ! positive regulation of cellular component organization +is_a: GO:1905153 ! regulation of membrane invagination +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0010324 ! membrane invagination +relationship: positively_regulates GO:0010324 ! membrane invagination +created_by: bf +creation_date: 2016-04-18T15:44:12Z + [Term] id: GO:1905165 name: regulation of lysosomal protein catabolic process @@ -72115,52 +71978,6 @@ relationship: negatively_regulates GO:0007076 ! mitotic chromosome condensation created_by: vw creation_date: 2016-06-03T08:41:08Z -[Term] -id: GO:1905214 -name: regulation of RNA binding -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie] -is_a: GO:0051098 ! regulation of binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0003723 ! RNA binding -relationship: regulates GO:0003723 ! RNA binding -created_by: bf -creation_date: 2016-06-06T10:20:56Z - -[Term] -id: GO:1905215 -name: negative regulation of RNA binding -namespace: biological_process -def: "Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie] -synonym: "down regulation of RNA binding" EXACT [GOC:TermGenie] -synonym: "down-regulation of RNA binding" EXACT [GOC:TermGenie] -synonym: "downregulation of RNA binding" EXACT [GOC:TermGenie] -synonym: "inhibition of RNA binding" NARROW [GOC:TermGenie] -is_a: GO:0051100 ! negative regulation of binding -is_a: GO:1905214 ! regulation of RNA binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0003723 ! RNA binding -relationship: negatively_regulates GO:0003723 ! RNA binding -created_by: bf -creation_date: 2016-06-06T10:21:04Z - -[Term] -id: GO:1905216 -name: positive regulation of RNA binding -namespace: biological_process -def: "Any process that activates or increases the frequency, rate or extent of RNA binding." [GO_REF:0000059, GOC:bf, GOC:PARL, GOC:TermGenie, PMID:25116364] -synonym: "activation of RNA binding" NARROW [GOC:TermGenie] -synonym: "up regulation of RNA binding" EXACT [GOC:TermGenie] -synonym: "up-regulation of RNA binding" EXACT [GOC:TermGenie] -synonym: "upregulation of RNA binding" EXACT [GOC:TermGenie] -is_a: GO:0051099 ! positive regulation of binding -is_a: GO:1905214 ! regulation of RNA binding -intersection_of: GO:0065007 ! biological regulation -intersection_of: positively_regulates GO:0003723 ! RNA binding -relationship: positively_regulates GO:0003723 ! RNA binding -created_by: bf -creation_date: 2016-06-06T10:21:12Z - [Term] id: GO:1905223 name: epicardium morphogenesis @@ -72177,6 +71994,20 @@ relationship: results_in_morphogenesis_of UBERON:0002348 ! epicardium created_by: rl creation_date: 2016-06-07T10:02:32Z +[Term] +id: GO:1905232 +name: cellular response to L-glutamate +namespace: biological_process +def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus." [GO_REF:0000071, GOC:TermGenie, PMID:25962137] +synonym: "cellular response to L-glutamate(1-)" RELATED [] +is_a: GO:0071417 ! cellular response to organonitrogen compound +is_a: GO:1901701 ! cellular response to oxygen-containing compound +is_a: GO:1902065 ! response to L-glutamate +intersection_of: GO:0070887 ! cellular response to chemical stimulus +intersection_of: has_input CHEBI:29985 ! L-glutamate(1-) +created_by: sl +creation_date: 2016-06-07T17:30:08Z + [Term] id: GO:1905268 name: negative regulation of chromatin organization @@ -74864,18 +74695,6 @@ property_value: RO:0002161 NCBITaxon:4890 created_by: hjd creation_date: 2013-09-04T21:08:14Z -[Term] -id: GO:1990188 -name: euchromatin binding -namespace: molecular_function -def: "Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin." [GOC:vw, PMID:22431512] -is_a: GO:0003682 ! chromatin binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input GO:0000791 ! euchromatin -relationship: has_input GO:0000791 ! euchromatin -created_by: tb -creation_date: 2013-09-11T19:18:38Z - [Term] id: GO:1990234 name: transferase complex @@ -74888,19 +74707,6 @@ relationship: capable_of GO:0016740 ! transferase activity created_by: bhm creation_date: 2013-11-12T13:20:12Z -[Term] -id: GO:1990239 -name: steroid hormone binding -namespace: molecular_function -def: "Binding to a steroid hormone." [GOC:ln] -is_a: GO:0005496 ! steroid binding -is_a: GO:0042562 ! hormone binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:26764 ! steroid hormone -relationship: has_input CHEBI:26764 ! steroid hormone -created_by: pr -creation_date: 2013-11-15T09:26:18Z - [Term] id: GO:1990266 name: neutrophil migration @@ -75311,43 +75117,6 @@ relationship: positively_regulates GO:0071888 ! macrophage apoptotic process created_by: mah creation_date: 2010-09-15T01:44:21Z -[Term] -id: GO:2000112 -name: regulation of cellular macromolecule biosynthetic process -namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] -synonym: "regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] -synonym: "regulation of cellular macromolecule anabolism" EXACT [GOC:obol] -synonym: "regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] -synonym: "regulation of cellular macromolecule formation" EXACT [GOC:obol] -synonym: "regulation of cellular macromolecule synthesis" EXACT [GOC:obol] -is_a: GO:0010556 ! regulation of macromolecule biosynthetic process -is_a: GO:0031326 ! regulation of cellular biosynthetic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0034645 ! cellular macromolecule biosynthetic process -relationship: regulates GO:0034645 ! cellular macromolecule biosynthetic process -created_by: tb -creation_date: 2010-09-15T08:55:45Z - -[Term] -id: GO:2000113 -name: negative regulation of cellular macromolecule biosynthetic process -namespace: biological_process -def: "Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process." [GOC:obol] -synonym: "negative regulation of cellular biopolymer biosynthetic process" EXACT [GOC:obol] -synonym: "negative regulation of cellular macromolecule anabolism" EXACT [GOC:obol] -synonym: "negative regulation of cellular macromolecule biosynthesis" EXACT [GOC:obol] -synonym: "negative regulation of cellular macromolecule formation" EXACT [GOC:obol] -synonym: "negative regulation of cellular macromolecule synthesis" EXACT [GOC:obol] -is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process -is_a: GO:0031327 ! negative regulation of cellular biosynthetic process -is_a: GO:2000112 ! regulation of cellular macromolecule biosynthetic process -intersection_of: GO:0065007 ! biological regulation -intersection_of: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process -relationship: negatively_regulates GO:0034645 ! cellular macromolecule biosynthetic process -created_by: tb -creation_date: 2010-09-15T08:55:48Z - [Term] id: GO:2000114 name: regulation of establishment of cell polarity @@ -75870,6 +75639,43 @@ relationship: positively_regulates GO:0044346 ! fibroblast apoptotic process created_by: jl creation_date: 2010-11-23T01:07:29Z +[Term] +id: GO:2000278 +name: regulation of DNA biosynthetic process +namespace: biological_process +def: "Any process that modulates the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] +synonym: "regulation of DNA anabolism" EXACT [GOC:obol] +synonym: "regulation of DNA biosynthesis" EXACT [GOC:obol] +synonym: "regulation of DNA formation" EXACT [GOC:obol] +synonym: "regulation of DNA synthesis" EXACT [GOC:obol] +is_a: GO:0010556 ! regulation of macromolecule biosynthetic process +is_a: GO:0031326 ! regulation of cellular biosynthetic process +is_a: GO:0051052 ! regulation of DNA metabolic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: regulates GO:0071897 ! DNA biosynthetic process +relationship: regulates GO:0071897 ! DNA biosynthetic process +created_by: yaf +creation_date: 2010-12-08T04:48:15Z + +[Term] +id: GO:2000279 +name: negative regulation of DNA biosynthetic process +namespace: biological_process +def: "Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] +synonym: "negative regulation of DNA anabolism" EXACT [GOC:obol] +synonym: "negative regulation of DNA biosynthesis" EXACT [GOC:obol] +synonym: "negative regulation of DNA formation" EXACT [GOC:obol] +synonym: "negative regulation of DNA synthesis" EXACT [GOC:obol] +is_a: GO:0010558 ! negative regulation of macromolecule biosynthetic process +is_a: GO:0031327 ! negative regulation of cellular biosynthetic process +is_a: GO:0051053 ! negative regulation of DNA metabolic process +is_a: GO:2000278 ! regulation of DNA biosynthetic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: negatively_regulates GO:0071897 ! DNA biosynthetic process +relationship: negatively_regulates GO:0071897 ! DNA biosynthetic process +created_by: yaf +creation_date: 2010-12-08T04:48:20Z + [Term] id: GO:2000282 name: regulation of cellular amino acid biosynthetic process @@ -76518,6 +76324,25 @@ relationship: positively_regulates GO:0097026 ! dendritic cell dendrite assembly created_by: ebc creation_date: 2011-04-03T07:22:06Z +[Term] +id: GO:2000573 +name: positive regulation of DNA biosynthetic process +namespace: biological_process +def: "Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process." [GOC:obol] +synonym: "positive regulation of DNA anabolism" EXACT [GOC:obol] +synonym: "positive regulation of DNA biosynthesis" EXACT [GOC:obol] +synonym: "positive regulation of DNA formation" EXACT [GOC:obol] +synonym: "positive regulation of DNA synthesis" EXACT [GOC:obol] +is_a: GO:0010557 ! positive regulation of macromolecule biosynthetic process +is_a: GO:0031328 ! positive regulation of cellular biosynthetic process +is_a: GO:0051054 ! positive regulation of DNA metabolic process +is_a: GO:2000278 ! regulation of DNA biosynthetic process +intersection_of: GO:0065007 ! biological regulation +intersection_of: positively_regulates GO:0071897 ! DNA biosynthetic process +relationship: positively_regulates GO:0071897 ! DNA biosynthetic process +created_by: yaf +creation_date: 2011-04-04T10:01:20Z + [Term] id: GO:2000647 name: negative regulation of stem cell proliferation @@ -76549,6 +76374,7 @@ id: GO:2000649 name: regulation of sodium ion transmembrane transporter activity namespace: biological_process def: "Any process that modulates the frequency, rate or extent of sodium ion transmembrane transporter activity." [GOC:obol] +subset: term_scheduled_for_obsoletion synonym: "regulation of sodium transporter activity" EXACT [GOC:obol] is_a: GO:0032412 ! regulation of monoatomic ion transmembrane transporter activity is_a: GO:1902305 ! regulation of sodium ion transmembrane transport @@ -76563,6 +76389,7 @@ id: GO:2000650 name: negative regulation of sodium ion transmembrane transporter activity namespace: biological_process def: "Any process that stops, prevents or reduces the frequency, rate or extent of sodium ion transmembrane transporter activity." [GOC:obol] +subset: term_scheduled_for_obsoletion synonym: "negative regulation of sodium transporter activity" EXACT [GOC:obol] is_a: GO:0032413 ! negative regulation of ion transmembrane transporter activity is_a: GO:1902306 ! negative regulation of sodium ion transmembrane transport @@ -76578,6 +76405,7 @@ id: GO:2000651 name: positive regulation of sodium ion transmembrane transporter activity namespace: biological_process def: "Any process that activates or increases the frequency, rate or extent of sodium ion transmembrane transporter activity." [GOC:obol] +subset: term_scheduled_for_obsoletion synonym: "positive regulation of sodium transporter activity" EXACT [GOC:obol] is_a: GO:0032414 ! positive regulation of ion transmembrane transporter activity is_a: GO:1902307 ! positive regulation of sodium ion transmembrane transport @@ -77279,20 +77107,6 @@ relationship: positively_regulates GO:0097152 ! mesenchymal cell apoptotic proce created_by: yaf creation_date: 2011-09-08T02:50:09Z -[Term] -id: GO:2001069 -name: glycogen binding -namespace: molecular_function -def: "Binding to glycogen." [GOC:mengo_curators] -synonym: "animal starch binding" RELATED [GOC:obol] -synonym: "liver starch binding" RELATED [GOC:obol] -is_a: GO:0030247 ! polysaccharide binding -intersection_of: GO:0005488 ! binding -intersection_of: has_input CHEBI:28087 ! glycogen -relationship: has_input CHEBI:28087 ! glycogen -created_by: jl -creation_date: 2011-09-14T12:01:06Z - [Term] id: GO:2001141 name: regulation of RNA biosynthetic process @@ -103793,7 +103607,7 @@ name: system def: "A material entity consisting of multiple components that are causally integrated." [] is_a: BFO:0000040 ! material entity property_value: editor_note "May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "http://www.jbiomedsem.com/content/4/1/43" xsd:string [Term] @@ -103933,8 +103747,7 @@ xref: NCIT:C12465 xref: neuronames:3232 xref: SCTID:362292005 xref: TAO:0000142 -xref: UMLS:C0206417 {source="ncithesaurus:Peripheral_Nervous_System"} -xref: UMLS:C0206417 {source="BIRNLEX:1111"} +xref: UMLS:C0206417 {source="ncithesaurus:Peripheral_Nervous_System", source="BIRNLEX:1111"} xref: UMLS:C1305921 {source="BIRNLEX:1111"} xref: VHOG:0000399 xref: Wikipedia:Peripheral_nervous_system @@ -103980,8 +103793,7 @@ xref: MIAA:0000101 xref: NCIT:C12764 xref: SCTID:362496006 xref: TAO:0001575 -xref: UMLS:C0030510 {source="ncithesaurus:Parasympathetic_Nervous_System"} -xref: UMLS:C0030510 {source="BIRNLEX:2517"} +xref: UMLS:C0030510 {source="BIRNLEX:2517", source="ncithesaurus:Parasympathetic_Nervous_System"} xref: UMLS:C1305770 {source="BIRNLEX:2517"} xref: VHOG:0000755 xref: Wikipedia:Parasympathetic_nervous_system @@ -104045,8 +103857,7 @@ xref: MIAA:0000100 xref: NCIT:C12795 xref: SCTID:362484004 xref: TAO:0001576 -xref: UMLS:C0039044 {source="ncithesaurus:Sympathetic_Nervous_System"} -xref: UMLS:C0039044 {source="BIRNLEX:2516"} +xref: UMLS:C0039044 {source="BIRNLEX:2516", source="ncithesaurus:Sympathetic_Nervous_System"} xref: UMLS:C1269646 {source="BIRNLEX:2516"} xref: VHOG:0000384 xref: Wikipedia:Sympathetic_nervous_system @@ -104253,8 +104064,7 @@ xref: MA:0000261 xref: NCIT:C12401 xref: SCTID:181143004 xref: TAO:0000107 -xref: UMLS:C0015392 {source="BIRNLEX:1169"} -xref: UMLS:C0015392 {source="ncithesaurus:Eye"} +xref: UMLS:C0015392 {source="BIRNLEX:1169", source="ncithesaurus:Eye"} xref: UMLS:C1280202 {source="BIRNLEX:1169"} xref: VHOG:0000275 xref: XAO:0000179 @@ -104486,8 +104296,7 @@ xref: SCTID:302548004 xref: SPD:0000016 xref: TAO:0001114 xref: TGMA:0000002 -xref: UMLS:C0018670 {source="ncithesaurus:Head"} -xref: UMLS:C0018670 {source="BIRNLEX:1230"} +xref: UMLS:C0018670 {source="ncithesaurus:Head", source="BIRNLEX:1230"} xref: VHOG:0001644 xref: WBbt:0005739 xref: Wikipedia:Head @@ -105095,7 +104904,7 @@ xref: VHOG:0000720 xref: Wikipedia:Zona_pellucida xref: ZFA:0001111 is_a: PR:000050567 ! protein-containing material entity -is_a: UBERON:0000476 ! acellular anatomical structure +is_a: UBERON:0005764 ! acellular membrane relationship: bounding_layer_of CL:0000023 ! oocyte relationship: has_part CHEBI:17089 ! glycoprotein relationship: part_of UBERON:0000992 ! ovary @@ -105714,8 +105523,7 @@ synonym: "anal canal viewed anatomically" EXACT [] synonym: "anal pad" RELATED [] synonym: "anatomical anal canal" EXACT [] synonym: "anus" RELATED [] -synonym: "canalis analis" RELATED LATIN [Wikipedia:Anal_canal] -synonym: "canalis analis" RELATED [BTO:0001978] +synonym: "canalis analis" RELATED LATIN [BTO:0001978, Wikipedia:Anal_canal] synonym: "cloaca" RELATED [] synonym: "cloacal chamber" RELATED [] synonym: "mesenteron" RELATED [] @@ -105866,8 +105674,7 @@ synonym: "cavum oris" RELATED [BTO:0001090] synonym: "mouth cavity" RELATED [BTO:0001090] synonym: "oral region" RELATED [EHDAA2:0001326] synonym: "oral vestibule" RELATED [BTO:0001090] -synonym: "regio oralis" EXACT [BTO:0004698] -synonym: "regio oralis" EXACT LATIN [FMA:49184, FMA:TA] +synonym: "regio oralis" EXACT LATIN [BTO:0004698, FMA:49184, FMA:TA] synonym: "rima oris" RELATED [BTO:0001090] synonym: "stoma" RELATED [] synonym: "stomatodaeum" RELATED [VHOG:0000812] @@ -106423,8 +106230,7 @@ synonym: "mucosal region" EXACT [FMA:85358] synonym: "mucous membrane" EXACT [FMA:85355] synonym: "organ mucosa" EXACT [FMA:85355] synonym: "region of mucosa" RELATED [FMA:85358] -synonym: "tunica mucosa" RELATED LATIN [Wikipedia:Mucous_membrane] -synonym: "tunica mucosa" RELATED [BTO:0000886] +synonym: "tunica mucosa" RELATED LATIN [BTO:0000886, Wikipedia:Mucous_membrane] xref: AEO:0000199 xref: BTO:0000886 xref: CALOHA:TS-2031 @@ -106487,8 +106293,7 @@ alt_id: UBERON:0003344 def: "A mucosa that is part of a pharynx [Automatically generated definition]." [OBOL:automatic] synonym: "mucosa of organ of pharynx" EXACT [OBOL:automatic] synonym: "mucosa of pharynx" EXACT [OBOL:automatic] -synonym: "mucous membrane of pharynx" EXACT [OBOL:automatic] -synonym: "mucous membrane of pharynx" EXACT [FMA:55031] +synonym: "mucous membrane of pharynx" EXACT [FMA:55031, OBOL:automatic] synonym: "mucous membrane of the pharynx" RELATED [BTO:0001047] synonym: "organ mucosa of pharynx" EXACT [OBOL:automatic] synonym: "pharynx mucosa" EXACT [OBOL:automatic] @@ -106687,8 +106492,7 @@ synonym: "mucosa of organ of trachea" EXACT [OBOL:automatic] synonym: "mucosa of organ of windpipe" EXACT [OBOL:automatic] synonym: "mucosa of trachea" EXACT [OBOL:automatic] synonym: "mucosa of windpipe" EXACT [OBOL:automatic] -synonym: "mucous membrane of trachea" EXACT [FMA:7471] -synonym: "mucous membrane of trachea" EXACT [OBOL:automatic] +synonym: "mucous membrane of trachea" EXACT [FMA:7471, OBOL:automatic] synonym: "mucous membrane of windpipe" EXACT [OBOL:automatic] synonym: "organ mucosa of trachea" EXACT [OBOL:automatic] synonym: "organ mucosa of windpipe" EXACT [OBOL:automatic] @@ -106717,6 +106521,7 @@ name: musculature of body namespace: uberon def: "The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified]." [VSAO:0000033] subset: efo_slim +subset: human_reference_atlas subset: pheno_slim synonym: "muscle system" EXACT [] synonym: "muscle system of body" EXACT [] @@ -106746,6 +106551,7 @@ relationship: composed_primarily_of UBERON:0001015 ! musculature relationship: only_in_taxon NCBITaxon:6072 ! Eumetazoa property_value: editor_note "consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77" xsd:string property_value: RO:0002161 NCBITaxon:6040 +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Anatomical system that consists of the muscles of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000033", ontology="VSAO", source="VSAO:curator"} property_value: UBPROP:0000012 "we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA" xsd:string {external_ontology="MA"} @@ -106798,8 +106604,7 @@ def: "An epithelium that is part of a colon [Automatically generated definition] subset: human_reference_atlas subset: vertebrate_core synonym: "colon epithelial tissue" EXACT [OBOL:automatic] -synonym: "colon epithelium" EXACT [FMA:17302] -synonym: "colon epithelium" EXACT [OBOL:automatic] +synonym: "colon epithelium" EXACT [FMA:17302, OBOL:automatic] synonym: "epithelial tissue of colon" EXACT [OBOL:automatic] synonym: "epithelial tissue of large bowel" EXACT [OBOL:automatic] synonym: "epithelium of colon" EXACT [OBOL:automatic] @@ -106867,8 +106672,7 @@ synonym: "mucosa of organ of bronchial trunk" EXACT [OBOL:automatic] synonym: "mucosa of organ of bronchus" EXACT [OBOL:automatic] synonym: "mucous membrane of bronchi" EXACT [OBOL:automatic] synonym: "mucous membrane of bronchial trunk" EXACT [OBOL:automatic] -synonym: "mucous membrane of bronchus" EXACT [FMA:62652] -synonym: "mucous membrane of bronchus" EXACT [OBOL:automatic] +synonym: "mucous membrane of bronchus" EXACT [FMA:62652, OBOL:automatic] synonym: "organ mucosa of bronchi" EXACT [OBOL:automatic] synonym: "organ mucosa of bronchial trunk" EXACT [OBOL:automatic] synonym: "organ mucosa of bronchus" EXACT [OBOL:automatic] @@ -107360,25 +107164,12 @@ property_value: RO:0002175 NCBITaxon:4751 id: UBERON:0000477 name: anatomical cluster namespace: uberon -def: "Anatomical group that has its parts adjacent to one another." [http://orcid.org/0000-0001-9114-8737] +def: "Anatomical group whose component anatomical structures lie in close proximity to each other." [FBbt:00007277] subset: common_anatomy subset: upper_level -xref: AAO:0010009 -xref: AEO:0000041 -xref: BILA:0000041 -xref: CARO:0000041 -xref: EHDAA2:0003041 xref: FBbt:00007277 -xref: FMA:49443 -xref: HAO:0000041 -xref: TADS:0000605 -xref: TAO:0001478 -xref: TGMA:0001842 xref: VHOG:0001737 -xref: XAO:0003160 -xref: ZFA:0001478 is_a: UBERON:0034923 ! disconnected anatomical group -property_value: editor_note "Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3]" xsd:string property_value: RO:0002175 NCBITaxon:33090 property_value: RO:0002175 NCBITaxon:33208 property_value: RO:0002175 NCBITaxon:4751 @@ -108358,8 +108149,7 @@ xref: neuronames:21 {source="BIRNLEX:796"} xref: PBA:3999 xref: SCTID:258335003 xref: TAO:0000008 -xref: UMLS:C0006104 {source="ncithesaurus:Brain"} -xref: UMLS:C0006104 {source="BIRNLEX:796"} +xref: UMLS:C0006104 {source="ncithesaurus:Brain", source="BIRNLEX:796"} xref: UMLS:C1269537 {source="BIRNLEX:796"} xref: VHOG:0000157 xref: Wikipedia:Brain @@ -108423,8 +108213,7 @@ xref: NCIT:C12443 xref: neuronames:39 {source="BIRNLEX:1494"} xref: PBA:128011354 xref: SCTID:362880003 -xref: UMLS:C0007776 {source="BIRNLEX:1494"} -xref: UMLS:C0007776 {source="ncithesaurus:Cortex"} +xref: UMLS:C0007776 {source="ncithesaurus:Cortex", source="BIRNLEX:1494"} xref: VHOG:0000722 xref: Wikipedia:Cerebral_cortex is_a: UBERON:0011215 ! central nervous system cell part cluster @@ -108556,14 +108345,14 @@ property_value: UBPROP:0000008 "Compared to terrestial animals, the cornea of ze id: UBERON:0000965 name: lens of camera-type eye namespace: uberon -def: "Transparent part of camera-type eye that helps to refract light to be focused on the retina." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Lens_(anatomy)] -comment: The lens is avascular and nourished by diffusion from the aqueous and vitreous +def: "A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina." [http://orcid.org/0000-0002-6601-2165, Wikipedia:Lens_(anatomy)] +comment: The lens is avascular and nourished by diffusion from the aqueous and vitreous humors. subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "camera-type eye lens" EXACT [GO:0002088] -synonym: "crystalline lens" RELATED [BTO:0000723] +synonym: "crystalline lens" RELATED [BTO:0000723, PMID:36055924] synonym: "eye lens" EXACT SENSU [] synonym: "lens" EXACT SENSU [] synonym: "lens crystallina" EXACT [Wikipedia:Lens_(anatomy)] @@ -108637,8 +108426,7 @@ xref: neuronames:1862 xref: NIFSTD_RETIRED:birnlex_1156 xref: SCTID:181171005 xref: TAO:0000152 -xref: UMLS:C0035298 {source="BIRNLEX:1153"} -xref: UMLS:C0035298 {source="ncithesaurus:Retina"} +xref: UMLS:C0035298 {source="BIRNLEX:1153", source="ncithesaurus:Retina"} xref: UMLS:C1278894 {source="BIRNLEX:1153"} xref: VHOG:0000229 xref: Wikipedia:Retina @@ -108797,7 +108585,7 @@ property_value: UBPROP:0000012 "In MA, is_a cavity lining (which we equate to pa id: UBERON:0000982 name: skeletal joint namespace: uberon -def: "Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000101, Wikipedia:Joint] +def: "Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]." [GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070, VSAO:0000101, Wikipedia:Joint] subset: efo_slim subset: organ_slim subset: pheno_slim @@ -108872,8 +108660,7 @@ xref: MIAA:0000115 xref: NCIT:C12511 xref: neuronames:547 {source="BIRNLEX:733"} xref: SCTID:279103004 -xref: UMLS:C0032639 {source="BIRNLEX:733"} -xref: UMLS:C0032639 {source="ncithesaurus:Pons_Varolii"} +xref: UMLS:C0032639 {source="BIRNLEX:733", source="ncithesaurus:Pons_Varolii"} xref: UMLS:C1280999 {source="BIRNLEX:733"} xref: VHOG:0001176 xref: Wikipedia:Pons @@ -109644,8 +109431,7 @@ xref: NCIT:C12438 xref: neuronames:854 xref: SCTID:278199004 xref: TAO:0000012 -xref: UMLS:C0927232 {source="ncithesaurus:Central_Nervous_System"} -xref: UMLS:C0927232 {source="BIRNLEX:1099"} +xref: UMLS:C0927232 {source="ncithesaurus:Central_Nervous_System", source="BIRNLEX:1099"} xref: VHOG:0000293 xref: Wikipedia:Central_nervous_system xref: XAO:0000215 @@ -110365,8 +110151,7 @@ synonym: "inferior caval vein" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "inferior vena cava" EXACT [Wikipedia:Venae_cavae] synonym: "postcava" RELATED [] synonym: "posterior vena cava" EXACT [Wikipedia:Venae_cavae] -synonym: "vena cava inferior" RELATED [BTO:0002682] -synonym: "vena cava inferior" RELATED LATIN [Wikipedia:Inferior_vena_cava] +synonym: "vena cava inferior" RELATED LATIN [BTO:0002682, Wikipedia:Inferior_vena_cava] xref: AAO:0011083 xref: BTO:0002682 xref: EHDAA2:0000611 @@ -110816,7 +110601,7 @@ xref: ncithesaurus:Heart_Muscle xref: TAO:0005280 xref: Wikipedia:Cardiac_muscle xref: ZFA:0005280 -is_a: UBERON:0002036 ! striated muscle tissue +is_a: UBERON:8600006 ! visceral striated muscle tissue intersection_of: UBERON:0002036 ! striated muscle tissue intersection_of: has_part CL:0000746 ! cardiac muscle cell disjoint_from: UBERON:0001134 ! skeletal muscle tissue @@ -111193,8 +110978,7 @@ name: body of stomach namespace: uberon def: "The body of stomach is the part of the stomach that lies between the fundus above and the pyloric antrum below; its boundaries are poorly defined[GO]." [GO:0014845, Wikipedia:Body_of_stomach] subset: uberon_slim -synonym: "corpus gastricum" RELATED [BTO:0000505] -synonym: "corpus gastricum" RELATED LATIN [Wikipedia:Body_of_stomach] +synonym: "corpus gastricum" RELATED LATIN [BTO:0000505, Wikipedia:Body_of_stomach] synonym: "corpus gastricum (ventriculare)" EXACT [] synonym: "corpus ventriculare" RELATED [BTO:0000505] synonym: "corpus ventriculi" RELATED [BTO:0000505] @@ -111226,8 +111010,7 @@ synonym: "antrum" BROAD [] synonym: "antrum of stomach" EXACT [] synonym: "antrum of Willis" RELATED [BTO:0001732] synonym: "antrum pylori" RELATED [BTO:0001732] -synonym: "antrum pyloricum" RELATED LATIN [Wikipedia:Pyloric_antrum] -synonym: "antrum pyloricum" RELATED [BTO:0001732] +synonym: "antrum pyloricum" RELATED LATIN [BTO:0001732, Wikipedia:Pyloric_antrum] synonym: "gastric antrum" RELATED [BTO:0001732] synonym: "stomach antrum" RELATED [] synonym: "stomach pyloric antrum" EXACT [] @@ -111580,8 +111363,7 @@ namespace: uberon def: "Anatomical cavity bounded by visceral and parietal peritoneum." [http://orcid.org/0000-0002-6601-2165, https://github.com/obophenotype/uberon/issues/86, Wikipedia:Peritoneal_cavity] subset: pheno_slim subset: uberon_slim -synonym: "cavitas peritonealis" RELATED [BTO:0001782] -synonym: "cavitas peritonealis" RELATED LATIN [Wikipedia:Peritoneal_cavity] +synonym: "cavitas peritonealis" RELATED LATIN [BTO:0001782, Wikipedia:Peritoneal_cavity] synonym: "saccus serosus peritonei" RELATED LATIN [Wikipedia:Peritoneal_cavity] xref: BTO:0001782 xref: EHDAA2:0001446 @@ -111718,8 +111500,7 @@ synonym: "stomach mucous membrane" EXACT [OBOL:automatic] synonym: "stomach organ mucosa" EXACT [OBOL:automatic] synonym: "tunica mucosa (gaster)" EXACT [] synonym: "tunica mucosa gastricae" EXACT LATIN [FMA:14907, FMA:TA] -synonym: "tunica mucosa gastris" RELATED [BTO:0001308] -synonym: "tunica mucosa gastris" RELATED LATIN [Wikipedia:Gastric_mucosa] +synonym: "tunica mucosa gastris" RELATED LATIN [BTO:0001308, Wikipedia:Gastric_mucosa] synonym: "ventriculus mucosa" EXACT [OBOL:automatic] synonym: "ventriculus mucosa of organ" EXACT [OBOL:automatic] synonym: "ventriculus mucous membrane" EXACT [OBOL:automatic] @@ -113280,7 +113061,6 @@ subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "aorta descendens" RELATED LATIN [Wikipedia:Descending_aorta] -synonym: "aorta descendens" RELATED [Wikipedia:Descending_aorta] synonym: "pars descendens aortae" EXACT [FMA:3784] synonym: "pars descendens aortae" RELATED LATIN [Wikipedia:Descending_aorta] xref: EMAPA:18606 @@ -113342,12 +113122,10 @@ subset: pheno_slim subset: uberon_slim synonym: "abdominal part of aorta" EXACT [FMA:3789] synonym: "abdominal part of aorta" RELATED [BTO:0002976] -synonym: "aorta abdominalis" RELATED [BTO:0002976] -synonym: "aorta abdominalis" RELATED LATIN [Wikipedia:Abdominal_aorta] +synonym: "aorta abdominalis" RELATED LATIN [BTO:0002976, Wikipedia:Abdominal_aorta] synonym: "descending abdominal aorta" EXACT [FMA:3789] synonym: "pars abdominalis aortae" EXACT [FMA:3789] -synonym: "pars abdominalis aortae" RELATED LATIN [Wikipedia:Abdominal_aorta] -synonym: "pars abdominalis aortae" RELATED [BTO:0002976] +synonym: "pars abdominalis aortae" RELATED LATIN [BTO:0002976, Wikipedia:Abdominal_aorta] xref: BTO:0002976 xref: EFO:0002524 xref: EMAPA:17856 @@ -113675,6 +113453,7 @@ id: UBERON:0001568 name: muscle of larynx namespace: uberon def: "The muscles associated with the larynx." [MP:0002263] +subset: human_reference_atlas subset: pheno_slim synonym: "laryngeal muscle" EXACT [] synonym: "larynx muscle" EXACT [] @@ -113698,12 +113477,14 @@ intersection_of: part_of UBERON:0001737 ! larynx relationship: contributes_to_morphology_of UBERON:0001015 ! musculature relationship: contributes_to_morphology_of UBERON:0001737 ! larynx relationship: part_of UBERON:0004478 {source="prolog"} ! musculature of larynx +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0001571 name: genioglossus muscle namespace: uberon def: "Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue." [VHOG:0000847, Wikipedia:Genioglossus_muscle] +subset: human_reference_atlas subset: uberon_slim synonym: "genioglossus" EXACT [] synonym: "m. genioglossus" EXACT [] @@ -113725,6 +113506,7 @@ relationship: develops_from UBERON:0010059 {source="EHDAA2"} ! hypoglossal cord relationship: has_muscle_insertion UBERON:0009471 {source="Wikipedia"} ! dorsum of tongue relationship: has_muscle_origin UBERON:0006606 ! mandibular symphysis property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/7/7e/Genioglossus.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000847", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/genioglossus"} property_value: UBPROP:0000001 "Makes up bulk of tongue in frogs and salamanders; makes up entire tongue in caecilians.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010660", ontology="AAO", source="AAO:BMZ"} property_value: UBPROP:0000001 "see Intrinsic Tongue.[FEED]" xsd:string {date_retrieved="2012-07-02", ontology="FEED", url="http://www.feedexp.org"} @@ -113737,6 +113519,7 @@ id: UBERON:0001572 name: hyoglossus muscle namespace: uberon def: "A muscle that attaches to the hyopid bone and to the tongue and is innervated by cranial nerve XII." [FEED:rd] +subset: human_reference_atlas subset: uberon_slim synonym: "hyoglossus" EXACT [Wikipedia:Hyoglossus] synonym: "m. hyoglossus" EXACT [] @@ -113759,6 +113542,7 @@ relationship: attaches_to UBERON:0001723 ! tongue relationship: has_muscle_insertion UBERON:0001723 ! tongue relationship: has_muscle_origin UBERON:0001685 {notes="lingual process in horse", source="dbpedia"} ! hyoid bone property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/7/7e/Hyoglossus.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Makes up part of the tongue in frogs and salamanders.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010663", ontology="AAO", source="AAO:BMZ"} property_value: UBPROP:0000001 "The hyoglossus is a muscle that attaches to the hyoid and tongue and is innervated by Cranial Nerve XII.[FEED]" xsd:string {date_retrieved="2012-07-02", ontology="FEED", url="http://www.feedexp.org"} property_value: UBPROP:0000002 "relationship loss: subclass hyobranchial muscles (AAO:0000224)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010663", ontology="AAO"} @@ -113768,6 +113552,7 @@ id: UBERON:0001575 name: extrinsic muscle of tongue namespace: uberon def: "A muscle organ that attaches the tongue to some other structure." [https://github.com/obophenotype/uberon/issues/331, Wikipedia:Muscles_of_tongue] +subset: human_reference_atlas synonym: "extrinsic lingual muscle" EXACT [] synonym: "extrinsic tongue muscle" EXACT [] xref: EHDAA2:0002063 @@ -113785,6 +113570,7 @@ intersection_of: innervated_by UBERON:0001650 ! hypoglossal nerve relationship: attaches_to UBERON:0004765 ! skeletal element relationship: immediate_transformation_of UBERON:0011332 ! extrinsic tongue pre-muscle mass relationship: innervated_by UBERON:0001650 {notes="check palatoglossus", source="Wikipedia"} ! hypoglossal nerve +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000003 "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000825", ontology="VHOG", source="DOI:10.1002/dvdy.20587 Kusakabe R, Kuratani S, Evolution and developmental patterning of the vertebrate skeletal muscles: perspectives from the lamprey. Developmental Dynamics (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000009 "main functions are altering the tongue's position allowing for protrusion, retraction, and side-to-side movement" xsd:string {source="WP"} property_value: UBPROP:0000010 "All intrinsic and extrinsic muscles of the tongue are supplied by the hypoglossal nerve (CN XII), except for one of the extrinsic muscles, palatoglossus, which is innervated by the Vagus nerve CN X of the pharyngeal plexus." xsd:string {source="WP"} @@ -113794,6 +113580,7 @@ id: UBERON:0001576 name: intrinsic muscle of tongue namespace: uberon def: "The intrinsic tongue muscles are an integral part of the tongue and completely contained within the tongue that are innervated by Cranial Nerve XII." [http://www.feedexp.org/wiki/Mammalian_Muscle_Ontology_Workshop] +subset: human_reference_atlas synonym: "intrinsic lingual muscle" EXACT [] synonym: "intrinsic tongue muscle" EXACT [] xref: EHDAA2:0002064 @@ -113812,6 +113599,7 @@ intersection_of: part_of UBERON:0001723 ! tongue relationship: develops_from UBERON:0010059 {source="EHDAA2"} ! hypoglossal cord relationship: innervated_by UBERON:0001650 {source="FEED", source="Wikipedia"} ! hypoglossal nerve relationship: part_of UBERON:0001723 ! tongue +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "The intrinsic tongue muscles are an integral part of the tongue that are innervated by Cranial Nerve XII.[FEED]" xsd:string {date_retrieved="2012-07-02", ontology="FEED", url="http://www.feedexp.org"} property_value: UBPROP:0000003 "The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000748", ontology="VHOG", source="DOI:10.1002/dvdy.20587 Kusakabe R, Kuratani S, Evolution and developmental patterning of the vertebrate skeletal muscles: perspectives from the lamprey. Developmental Dynamics (2005)", source="http://bgee.unil.ch/"} property_value: UBPROP:0000009 "The main function of the intrinsic muscles is to provide shape. They are not involved with changing the position of the tongue and are not attached to bone" xsd:string {source="WP"} @@ -113854,8 +113642,7 @@ synonym: "cranial vena cava" RELATED [VHOG:0001195] synonym: "precava" RELATED [] synonym: "superior caval vein" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "superior vena cava" EXACT [FMA:4720] -synonym: "vena cava superior" RELATED [BTO:0002683] -synonym: "vena cava superior" RELATED LATIN [Wikipedia:Superior_vena_cava] +synonym: "vena cava superior" RELATED LATIN [BTO:0002683, Wikipedia:Superior_vena_cava] synonym: "vena maxima" RELATED LATIN [Wikipedia:Superior_vena_cava] xref: BTO:0002683 xref: EHDAA2:0001962 @@ -113938,6 +113725,7 @@ id: UBERON:0001605 name: ciliary muscle namespace: uberon def: "The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]." [Wikipedia:Ciliary_muscle] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "Bowman`s muscles" RELATED [BTO:0000654] @@ -113957,6 +113745,7 @@ is_a: UBERON:0010314 ! structure with developmental contribution from neural cre is_a: UBERON:0011222 {source="FMA"} ! intra-ocular muscle relationship: part_of UBERON:0001775 {source="FMA"} ! ciliary body property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0001606 @@ -114030,6 +113819,7 @@ id: UBERON:0001608 name: dilatator pupillae namespace: uberon def: "A smooth muscle of the eye, running radially in the iris that functions as a dilator. [WP,unvetted]." [Wikipedia:Iris_dilator_muscle] +subset: human_reference_atlas subset: uberon_slim synonym: "dilator muscle of pupil" EXACT [] synonym: "dilator of pupil" EXACT [] @@ -114064,6 +113854,7 @@ relationship: has_muscle_antagonist UBERON:0001607 {source="dbpedia"} ! sphincte relationship: has_muscle_insertion UBERON:0001769 {notes="inner margins of iris", source="dbpedia"} ! iris relationship: has_muscle_origin UBERON:0001769 {notes="outer margins of iris", source="dbpedia"} ! iris property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray878.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000009 "It is innervated by the sympathetic system, which acts by releasing noradrenaline, which acts on alpha1-receptors. Thus, when presented with a threatening stimuli that activates the fight-or-flight response, this innervation dilates the iris, thus temporarily letting more light reach the retina" xsd:string [Term] @@ -114368,7 +114159,6 @@ synonym: "coeliac artery" EXACT [Wikipedia:Celiac_artery] synonym: "coeliac axis" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunck" RELATED [Wikipedia:Celiac_artery] synonym: "coeliac trunk" RELATED [Wikipedia:Celiac_artery] -synonym: "truncus coeliacus" RELATED [Wikipedia:Celiac_artery] synonym: "truncus coeliacus" RELATED LATIN [Wikipedia:Celiac_artery] synonym: "truncus cœliacus" RELATED LATIN [Wikipedia:Celiac_artery] xref: EHDAA2:0004519 @@ -114435,8 +114225,7 @@ xref: NCIT:C12806 xref: neuronames:549 {source="BIRNLEX:869"} xref: SCTID:362459002 xref: TAO:0000697 -xref: UMLS:C0040996 {source="BIRNLEX:869"} -xref: UMLS:C0040996 {source="ncithesaurus:Trigeminal_Nerve"} +xref: UMLS:C0040996 {source="ncithesaurus:Trigeminal_Nerve", source="BIRNLEX:869"} xref: VHOG:0000704 xref: Wikipedia:Trigeminal_nerve xref: XAO:0003092 @@ -114497,8 +114286,7 @@ xref: NCIT:C12723 xref: neuronames:701 {source="BIRNLEX:899"} xref: SCTID:362465002 xref: TAO:0000668 -xref: UMLS:C0017679 {source="BIRNLEX:899"} -xref: UMLS:C0017679 {source="ncithesaurus:Glossopharyngeal_Nerve"} +xref: UMLS:C0017679 {source="BIRNLEX:899", source="ncithesaurus:Glossopharyngeal_Nerve"} xref: UMLS:C1305752 {source="BIRNLEX:899"} xref: VHOG:0000701 xref: Wikipedia:Glossopharyngeal_nerve @@ -114554,8 +114342,7 @@ xref: MESH:D007002 xref: NCIT:C12732 xref: neuronames:704 {source="BIRNLEX:820"} xref: SCTID:362471008 -xref: UMLS:C0020614 {source="BIRNLEX:820"} -xref: UMLS:C0020614 {source="ncithesaurus:Hypoglossal_Nerve"} +xref: UMLS:C0020614 {source="BIRNLEX:820", source="ncithesaurus:Hypoglossal_Nerve"} xref: VHOG:0000693 xref: Wikipedia:Hypoglossal_nerve xref: XAO:0004215 @@ -114702,8 +114489,7 @@ synonym: "fused trigeminal ganglion" NARROW SENSU [NCBITaxon:32524] synonym: "ganglion of trigeminal complex" EXACT [http://orcid.org/0000-0002-6601-2165] synonym: "ganglion of trigeminal nerve" RELATED [BTO:0001231] synonym: "ganglion semilunare" RELATED LATIN [Wikipedia:Trigeminal_ganglion] -synonym: "ganglion trigeminale" RELATED LATIN [Wikipedia:Trigeminal_ganglion] -synonym: "ganglion trigeminale" RELATED [BTO:0001231] +synonym: "ganglion trigeminale" RELATED LATIN [BTO:0001231, Wikipedia:Trigeminal_ganglion] synonym: "Gasser's ganglion" RELATED [BTO:0001231] synonym: "Gasserian ganglia" RELATED PLURAL [Wikipedia:Trigeminal_ganglion] synonym: "Gasserian ganglion" EXACT [Wikipedia:Trigeminal_ganglion] @@ -114752,6 +114538,7 @@ id: UBERON:0001676 name: occipital bone namespace: uberon def: "The bone at the lower, posterior part of the skull." [ISBN:0-683-40008-8, MP:0005269] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "occipital complex" RELATED [http://palaeos.com/vertebrates/bones/braincase/occiput.html] @@ -114775,6 +114562,7 @@ relationship: overlaps UBERON:0003113 {notes="interparietal (postparietal)"} ! d relationship: part_of UBERON:0005902 {source="FMA"} ! occipital region relationship: surrounds UBERON:0003687 ! foramen magnum property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/2/27/Gray194.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000008 "formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII" xsd:string {source="PMID:11523816"} property_value: UBPROP:0000008 "fusion of basi-, exo- and supra-occipitals (and maybe tabular)" xsd:string {source="Kardong"} @@ -114783,6 +114571,7 @@ id: UBERON:0001678 name: temporal bone namespace: uberon def: "The large, irregular bone located at the base and side of the skull; consists of three parts at birth: squamous, tympanic, and petrous." [ISBN:0-683-40008-8, MP:0005272] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "os temporale" RELATED LATIN [Wikipedia:Temporal_bone] @@ -114802,6 +114591,7 @@ relationship: overlaps UBERON:0002241 {notes="petrosal"} ! chondrocranium relationship: overlaps UBERON:0003113 {notes="squamosal plus angular", notes="temporal series"} ! dermatocranium relationship: overlaps UBERON:0008895 {notes="styloid process"} ! splanchnocranium property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000008 "fusion of squamosal + angular (tympanic annulus) [derm.] + petrosal (prootic + opisthotic)" xsd:string {source="chond."} property_value: UBPROP:0000008 "In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone + styloid process" xsd:string property_value: UBPROP:0000010 "The temporal bone consists of four parts: * Squama temporalis * Mastoid portion * Petrous portion (Petrosal ridge) * Tympanic part[WP]." xsd:string {source="[WP]"} @@ -114812,13 +114602,13 @@ id: UBERON:0001685 name: hyoid bone namespace: uberon def: "A horseshoe shaped bone situated in the anterior midline of the neck between the chin and the thyroid cartilage. The hyoid bone provides attachment to the muscles of the floor of the mouth and the tongue above, the larynx below, and the epiglottis and pharynx behind. [WP,modified]." [Wikipedia:Hyoid_bone] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "hyoid" RELATED [Wikipedia:Hyoid_bone] synonym: "hyoid bone" RELATED [Wikipedia:Hyoid_bone] synonym: "hyoideum" RELATED [Wikipedia:Hyoid_bone] synonym: "lingual bone" RELATED [Wikipedia:Hyoid_bone] -synonym: "os hyoideum" RELATED [Wikipedia:Hyoid_bone] synonym: "os hyoideum" RELATED LATIN [Wikipedia:Hyoid_bone] xref: AAO:0000684 xref: EMAPA:18650 @@ -114836,6 +114626,7 @@ relationship: has_developmental_contribution_from UBERON:0003066 {source="Wikipe relationship: has_developmental_contribution_from UBERON:0003114 {source="Wikipedia"} ! pharyngeal arch 3 relationship: part_of UBERON:0010272 ! hyoid apparatus property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/1/1f/Gray186.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000684", ontology="AAO", source="AAO:LAP"} property_value: UBPROP:0000002 "relationship loss: part_of hyoid plate (AAO:0000664)[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000684", ontology="AAO"} property_value: UBPROP:0000008 "The hyoid bone is derived from the lower half of the second gill arch in fish, which separates the first gill slit from the spiracle. In many animals, it also incorporates elements of other gill arches, and has a correspondingly greater number of cornua. Amphibians and reptiles may have many cornua, while mammals (including humans) have two pairs, and birds only one. In birds, and some reptiles, the body of the hyoid is greatly extended forward, creating a solid bony support for the tongue. The howler monkey Alouatta has a pneumatized hyoid bone, one of the few cases of postcranial pneumatization of bones outside Saurischia." xsd:string {seeAlso="https://github.com/obophenotype/uberon/issues/548", source="WP"} @@ -114874,6 +114665,7 @@ id: UBERON:0001703 name: neurocranium namespace: uberon def: "Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof." [PMID:11523816, TAO:MAH, Wikipedia:Neuroranium, ZFA:0001580] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core @@ -114896,6 +114688,7 @@ relationship: develops_from UBERON:0004761 ! cartilaginous neurocranium relationship: location_of UBERON:0000955 ! brain relationship: part_of UBERON:0003128 ! cranium relationship: protects UBERON:0000955 ! brain +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001580", ontology="TAO", source="TAO:MAH"} property_value: UBPROP:0000007 "neurocranial" xsd:string property_value: UBPROP:0000010 "It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton" xsd:string @@ -115109,8 +114902,7 @@ xref: FMA:54819 xref: MA:0001593 xref: NCIT:C33258 xref: SCTID:368728006 -xref: UMLS:C0226964 {source="ncithesaurus:Papilla_of_the_Tongue"} -xref: UMLS:C0226964 {source="BIRNLEX:4102"} +xref: UMLS:C0226964 {source="ncithesaurus:Papilla_of_the_Tongue", source="BIRNLEX:4102"} xref: UMLS:C1289183 {source="BIRNLEX:4102"} is_a: UBERON:0000064 ! organ part relationship: part_of UBERON:0005020 ! mucosa of tongue @@ -115125,7 +114917,6 @@ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "caliculus gustatorius" RELATED PLURAL [Wikipedia:Taste_bud] -synonym: "caliculus gustatorius" RELATED LATIN [Wikipedia:Taste_bud] synonym: "taste buds" RELATED PLURAL [Wikipedia:Taste_bud] synonym: "taste-bud" RELATED [Wikipedia:Taste_bud] synonym: "tastebud" EXACT [Wikipedia:Taste_bud] @@ -115143,8 +114934,7 @@ xref: MESH:D013650 xref: NCIT:C96518 xref: SCTID:362099006 xref: TAO:0001074 -xref: UMLS:C0039337 {source="ncithesaurus:Taste_Bud"} -xref: UMLS:C0039337 {source="BIRNLEX:4101"} +xref: UMLS:C0039337 {source="ncithesaurus:Taste_Bud", source="BIRNLEX:4101"} xref: VHOG:0000130 xref: Wikipedia:Taste_bud xref: XAO:0000445 @@ -115288,8 +115078,7 @@ synonym: "10n" BROAD ABBREVIATION [BIRNLEX:801, NIFSTD:NeuroNames_abbrevSource] synonym: "CN-X" RELATED [] synonym: "cranial nerve X" RELATED [] synonym: "nerve X" RELATED [NeuroNames:702] -synonym: "nervus vagus" RELATED [BTO:0003472] -synonym: "nervus vagus" RELATED LATIN [Wikipedia:Vagus_nerve] +synonym: "nervus vagus" RELATED LATIN [BTO:0003472, Wikipedia:Vagus_nerve] synonym: "nervus vagus [x]" EXACT LATIN [FMA:5731, FMA:TA] synonym: "pneuomgastric nerve" RELATED [BTO:0003472] synonym: "tenth cranial nerve" EXACT [] @@ -115317,8 +115106,7 @@ xref: NCIT:C12812 xref: neuronames:702 {source="BIRNLEX:801"} xref: SCTID:362466001 xref: TAO:0000453 -xref: UMLS:C0042276 {source="ncithesaurus:Vagus_Nerve"} -xref: UMLS:C0042276 {source="BIRNLEX:801"} +xref: UMLS:C0042276 {source="ncithesaurus:Vagus_Nerve", source="BIRNLEX:801"} xref: UMLS:C1305910 {source="BIRNLEX:801"} xref: VHOG:0000737 xref: Wikipedia:Vagus_nerve @@ -115505,6 +115293,7 @@ name: sclera namespace: uberon def: "Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]." [Wikipedia:Sclera, ZFIN:ZDB-PUB-050701-15] comment: Disease notes: implicated in rheumatoid arthritis. +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core @@ -115532,6 +115321,7 @@ relationship: has_part CL:0000347 {source="ZFA"} ! scleral cell relationship: has_quality PATO:0000963 ! opaque relationship: part_of UBERON:0012430 {source="FMA"} ! tunica fibrosa of eyeball property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]." xsd:string {source="Wikipedia:Sclera"} property_value: UBPROP:0000001 "The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001274", ontology="VHOG", source="http://bgee.unil.ch/", source="http://medical-dictionary.thefreedictionary.com/sclera"} property_value: UBPROP:0000007 "scleral" xsd:string @@ -115582,7 +115372,6 @@ subset: vertebrate_core synonym: "anterior uvea" RELATED [] synonym: "ciliary bodies" RELATED PLURAL [VHOG:0000102] synonym: "corpus ciliare" RELATED LATIN [Wikipedia:Ciliary_body] -synonym: "corpus ciliare" RELATED [Wikipedia:Ciliary_body] synonym: "ocular ciliary body" EXACT [] xref: AAO:0010341 xref: BTO:0000260 @@ -115842,8 +115631,7 @@ xref: NCIT:C12700 xref: neuronames:1227 xref: SCTID:244447006 xref: TAO:0000641 -xref: UMLS:C0010268 {source="BIRNLEX:1623"} -xref: UMLS:C0010268 {source="ncithesaurus:Cranial_Nerve"} +xref: UMLS:C0010268 {source="BIRNLEX:1623", source="ncithesaurus:Cranial_Nerve"} xref: UMLS:C1269897 {source="BIRNLEX:1623"} xref: VHOG:0000279 xref: Wikipedia:Cranial_nerve @@ -116087,8 +115875,7 @@ subset: uberon_slim synonym: "ganglion of sympathetic nervous system" EXACT [OBOL:automatic] synonym: "ganglion of sympathetic part of autonomic division of nervous system" EXACT [OBOL:automatic] synonym: "ganglion sympatheticum" EXACT [] -synonym: "ganglion sympathicum" RELATED LATIN [Wikipedia:Sympathetic_ganglion] -synonym: "ganglion sympathicum" RELATED [BTO:0001333] +synonym: "ganglion sympathicum" RELATED LATIN [BTO:0001333, Wikipedia:Sympathetic_ganglion] synonym: "sympathetic nervous system ganglion" EXACT [OBOL:automatic] synonym: "sympathetic part of autonomic division of nervous system ganglion" EXACT [OBOL:automatic] xref: AAO:0010773 @@ -116119,8 +115906,7 @@ namespace: uberon def: "Ganglion containing neurons that receive innervation from parasympathetic neurons in the central nervous system and subserves parasympathetic functions through innervation of smooth muscle, cardiac muscle and glands." [NLXANAT:100303] subset: pheno_slim subset: uberon_slim -synonym: "ganglion parasympathicum" RELATED LATIN [Wikipedia:Parasympathetic_ganglion] -synonym: "ganglion parasympathicum" RELATED [BTO:0001256] +synonym: "ganglion parasympathicum" RELATED LATIN [BTO:0001256, Wikipedia:Parasympathetic_ganglion] xref: BTO:0001256 xref: EHDAA2:0001400 xref: EMAPA:32813 @@ -116285,8 +116071,7 @@ subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "diaphragmatic nerve" RELATED [BTO:0001063] -synonym: "nervus phrenicus" RELATED [BTO:0001063] -synonym: "nervus phrenicus" RELATED LATIN [Wikipedia:Phrenic_nerve] +synonym: "nervus phrenicus" RELATED LATIN [BTO:0001063, Wikipedia:Phrenic_nerve] synonym: "phrenic" RELATED [BTO:0001063] xref: BAMS:phn xref: BTO:0001063 @@ -116343,8 +116128,7 @@ xref: NCIT:C40185 xref: neuronames:27 {source="BIRNLEX:1509"} xref: SCTID:362291003 xref: TAO:0000109 -xref: UMLS:C0085140 {source="ncithesaurus:Fore-Brain"} -xref: UMLS:C0085140 {source="BIRNLEX:1509"} +xref: UMLS:C0085140 {source="ncithesaurus:Fore-Brain", source="BIRNLEX:1509"} xref: VHOG:0000383 xref: Wikipedia:Forebrain xref: XAO:0000011 @@ -116400,8 +116184,7 @@ xref: neuronames:462 {source="BIRNLEX:1667"} xref: RETIRED_EHDAA2:0001104 xref: SCTID:279099009 xref: TAO:0000128 -xref: UMLS:C0025462 {source="ncithesaurus:Mesencephalon"} -xref: UMLS:C0025462 {source="BIRNLEX:1667"} +xref: UMLS:C0025462 {source="BIRNLEX:1667", source="ncithesaurus:Mesencephalon"} xref: VHOG:0000069 xref: Wikipedia:Midbrain xref: XAO:0000014 @@ -116572,8 +116355,7 @@ xref: neuronames:288 {source="BIRNLEX:1503"} xref: PBA:128013010 xref: SCTID:279328001 xref: TAO:0000101 -xref: UMLS:C0012144 {source="BIRNLEX:1503"} -xref: UMLS:C0012144 {source="ncithesaurus:Diencephalon"} +xref: UMLS:C0012144 {source="ncithesaurus:Diencephalon", source="BIRNLEX:1503"} xref: VHOG:0000318 xref: Wikipedia:Diencephalon xref: XAO:0000013 @@ -116674,8 +116456,7 @@ xref: NCIT:C12442 xref: neuronames:698 {source="BIRNLEX:957"} xref: SCTID:279104005 xref: TAO:0000545 -xref: UMLS:C0025148 {source="ncithesaurus:Medulla_Oblongata"} -xref: UMLS:C0025148 {source="BIRNLEX:957"} +xref: UMLS:C0025148 {source="ncithesaurus:Medulla_Oblongata", source="BIRNLEX:957"} xref: UMLS:C1269575 {source="BIRNLEX:957"} xref: VHOG:0000181 xref: Wikipedia:Bone_marrow_of_ovary_oblongata @@ -116786,6 +116567,7 @@ id: UBERON:0001916 name: endothelium of arteriole namespace: uberon def: "An endothelium that is part of an arteriole [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "arteriole endothelium" EXACT [] xref: EMAPA:36286 xref: FMA:62115 @@ -116797,6 +116579,7 @@ is_a: UBERON:0008339 ! microvascular endothelium intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:0001980 ! arteriole relationship: part_of UBERON:0001980 ! arteriole +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0001917 @@ -116973,6 +116756,7 @@ id: UBERON:0001956 name: cartilage of bronchus namespace: uberon def: "The hyaline cartilaginous structures that support the bronchi, present as irregular rings in the larger bronchi (and not as regular as in the trachea), and as small plates and islands in the smaller bronchi; as the branching continues through the bronchial tree, the amount of hyaline cartilage in the walls decreases until it is absent in the smallest bronchioles[MP]." [MP:0010988] +subset: human_reference_atlas subset: pheno_slim synonym: "bronchi cartilage" EXACT [OBOL:automatic] synonym: "bronchial cartilage" EXACT [] @@ -116995,6 +116779,7 @@ intersection_of: part_of UBERON:0002185 ! bronchus relationship: composed_primarily_of UBERON:0001994 {source="MP"} ! hyaline cartilage tissue relationship: contributes_to_morphology_of UBERON:0002185 ! bronchus relationship: part_of UBERON:0002185 ! bronchus +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0001957 @@ -117363,6 +117148,7 @@ name: blood vessel namespace: uberon def: "A vessel through which blood circulates in the body." [BTO:0001102, Wikipedia:Blood_vessel] subset: efo_slim +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core @@ -117406,6 +117192,7 @@ relationship: has_quality PATO:0002045 ! dendritic relationship: part_of UBERON:0004537 ! blood vasculature property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg" xsd:anyURI property_value: editor_note "consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus" xsd:string +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="http://bgee.unil.ch/"} property_value: UBPROP:0000001 "Any of the vessels through which blood circulates in the body.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0011004", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000003 "The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0001250", ontology="VHOG", source="DOI:10.1196/annals.1341.002 Bishopric NH, Evolution of the heart from bacteria to man. Annals of the New York Academy of Sciences (2006)", source="http://bgee.unil.ch/"} @@ -117806,8 +117593,7 @@ xref: MESH:D000055 xref: NCIT:C32041 xref: neuronames:2085 xref: SCTID:362469008 -xref: UMLS:C0000905 {source="ncithesaurus:Accessory_Nerve"} -xref: UMLS:C0000905 {source="BIRNLEX:812"} +xref: UMLS:C0000905 {source="ncithesaurus:Accessory_Nerve", source="BIRNLEX:812"} xref: UMLS:C1305777 {source="BIRNLEX:812"} xref: VHOG:0000699 xref: Wikipedia:Spinal_accessory_nerve @@ -117946,8 +117732,7 @@ xref: NCIT:C40336 xref: neuronames:540 {source="BIRNLEX:942"} xref: SCTID:303456008 xref: TAO:0000029 -xref: UMLS:C0035507 {source="ncithesaurus:Hind-Brain"} -xref: UMLS:C0035507 {source="BIRNLEX:942"} +xref: UMLS:C0035507 {source="ncithesaurus:Hind-Brain", source="BIRNLEX:942"} xref: UMLS:C1522180 {source="BIRNLEX:942"} xref: VHOG:0000070 xref: Wikipedia:Rhombencephalon @@ -118392,8 +118177,7 @@ subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core -synonym: "corium" RELATED [BTO:0000294] -synonym: "corium" RELATED LATIN [Wikipedia:Dermis] +synonym: "corium" RELATED LATIN [BTO:0000294, Wikipedia:Dermis] synonym: "cutis" RELATED [BTO:0000294] synonym: "vertebrate dermis" EXACT [] xref: AAO:0000128 @@ -118825,6 +118609,7 @@ name: appendicular skeleton namespace: uberon def: "Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm]." [https://orcid.org/0000-0002-6601-2165, UBERONREF:0000003, Wikipedia:Appendicular_skeleton] subset: efo_slim +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim subset: vertebrate_core @@ -118852,6 +118637,7 @@ relationship: only_in_taxon NCBITaxon:7776 ! Gnathostomata relationship: overlaps UBERON:0000026 ! appendage relationship: part_of UBERON:0011249 ! appendicular skeletal system property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/7/7c/Appendicular_skeleton_diagram.svg" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/Appendages-and-the-appendicular-skeleton" xsd:anyURI property_value: UBPROP:0000001 "Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000076", ontology="VSAO", source="PSPUB:0000170", source="https://orcid.org/0000-0002-6601-2165"} property_value: UBPROP:0000001 "Skeletal system that consists of the paired fins (pectoral or pelvic fins).[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000027", ontology="TAO", source="TAO:wd"} @@ -119268,8 +119054,7 @@ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "anterior intestine" RELATED [] -synonym: "intestinum tenue" RELATED LATIN [Wikipedia:Small_intestine] -synonym: "intestinum tenue" RELATED [BTO:0000651] +synonym: "intestinum tenue" RELATED LATIN [BTO:0000651, Wikipedia:Small_intestine] synonym: "mid intestine" RELATED [] synonym: "small bowel" EXACT [] synonym: "small intestine" EXACT [] @@ -119579,8 +119364,7 @@ xref: NCIT:C97333 xref: neuronames:583 {source="BIRNLEX:905"} xref: SCTID:369016004 xref: TAO:0000539 -xref: UMLS:C0023951 {source="BIRNLEX:905"} -xref: UMLS:C0023951 {source="ncithesaurus:Locus_Coeruleus"} +xref: UMLS:C0023951 {source="ncithesaurus:Locus_Coeruleus", source="BIRNLEX:905"} xref: Wikipedia:Locus_ceruleus xref: ZFA:0000539 is_a: UBERON:0006331 ! brainstem nucleus @@ -120239,6 +120023,7 @@ namespace: uberon def: "Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO)." [BIRNLEX:1709] subset: cumbo subset: efo_slim +subset: human_reference_atlas subset: major_organ subset: organ_slim subset: pheno_slim @@ -120248,8 +120033,7 @@ synonym: "cerebro-cerebellar fissure" RELATED [NeuroNames:22] synonym: "cerebrocerebellar fissure" RELATED [NeuroNames:22] synonym: "fissura cerebro-cerebellaris" RELATED LATIN [NeuroNames:22] synonym: "fissura cerebrocerebellaris" RELATED LATIN [NeuroNames:22] -synonym: "medulla spinalis" RELATED LATIN [Wikipedia:Spinal_cord] -synonym: "medulla spinalis" RELATED [BTO:0001279] +synonym: "medulla spinalis" RELATED LATIN [BTO:0001279, Wikipedia:Spinal_cord] synonym: "SpC" RELATED ABBREVIATION [] synonym: "spinal cord structure" RELATED [ZFA:0000075] synonym: "spinal medulla" RELATED [BTO:0001279] @@ -120277,8 +120061,7 @@ xref: NCIT:C12464 xref: neuronames:22 {source="BIRNLEX:1709"} xref: SCTID:180959008 xref: TAO:0000075 -xref: UMLS:C0037925 {source="ncithesaurus:Spinal_Cord"} -xref: UMLS:C0037925 {source="BIRNLEX:1709"} +xref: UMLS:C0037925 {source="ncithesaurus:Spinal_Cord", source="BIRNLEX:1709"} xref: VHOG:0000601 xref: Wikipedia:Spinal_cord xref: XAO:0000020 @@ -120295,6 +120078,7 @@ relationship: part_of UBERON:0001017 ! central nervous system property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg" xsd:anyURI property_value: editor_note "TODO - add superclass to unify with VNC?" xsd:string property_value: RO:0002171 UBERON:0000955 {exceptions="ZFA", source="https://github.com/obophenotype/uberon/issues/378", status="pending"} +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010151", ontology="AAO", source="AAO:BJB"} property_value: UBPROP:0000003 "(...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000601", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.28, ISBN:978-0072528305 Kardong KV, Vertebrates: Comparative Anatomy, Function, Evolution (2006) p.165", source="http://bgee.unil.ch/"} @@ -120379,8 +120163,7 @@ namespace: uberon def: "A composite substructure of the brainstem that consists of the midbrain reticular formation, the pontine reticular formation and the medullary reticular formation ( Carpenter-1983 )." [NeuroNames:1223] subset: uberon_slim synonym: "brain stem reticular formation" EXACT [NeuroNames:1223] -synonym: "brainstem reticular formation" EXACT [MA:0003185] -synonym: "brainstem reticular formation" EXACT [NeuroNames:1223] +synonym: "brainstem reticular formation" EXACT [MA:0003185, NeuroNames:1223] synonym: "reticular formation (classical)" EXACT [NeuroNames:1223] synonym: "reticular formation of the brainstem" EXACT [NeuroNames:1223] xref: BAMS:RET @@ -120495,8 +120278,7 @@ xref: NCIT:C12441 xref: neuronames:236 {source="BIRNLEX:1565"} xref: SCTID:180925009 xref: TAO:0002156 -xref: UMLS:C0006121 {source="BIRNLEX:1565"} -xref: UMLS:C0006121 {source="ncithesaurus:Brain_Stem"} +xref: UMLS:C0006121 {source="BIRNLEX:1565", source="ncithesaurus:Brain_Stem"} xref: VHOG:0001457 xref: Wikipedia:Brainstem xref: ZFA:0001707 @@ -120719,6 +120501,7 @@ id: UBERON:0002324 name: muscle of back namespace: uberon def: "Any muscle organ that is part of a back [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "back muscle" EXACT [] synonym: "back muscle organ" EXACT [OBOL:automatic] synonym: "muscle organ of back" EXACT [OBOL:automatic] @@ -120730,6 +120513,7 @@ is_a: UBERON:0005174 ! dorsal region element intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0001137 ! dorsum relationship: part_of UBERON:0004469 {source="prolog"} ! musculature of back +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0002328 @@ -121126,8 +120910,7 @@ subset: pheno_slim subset: uberon_slim subset: vertebrate_core synonym: "cardiac muscle" RELATED [ZFA:0001319] -synonym: "heart muscle" RELATED [ZFA:0001319] -synonym: "heart muscle" RELATED [FMA:9462] +synonym: "heart muscle" RELATED [FMA:9462, ZFA:0001319] synonym: "heart myocardium" EXACT [] synonym: "muscle of heart" EXACT [FMA:9462] xref: AAO:0010410 @@ -121636,6 +121419,7 @@ alt_id: UBERON:0003899 def: "Any skeletal muscle that is part of the head region." [http://orcid.org/0000-0002-6601-2165] comment: defined generically so could in theory encompass FBbt:00003260 'skeletal muscle of head', or the muscle of a starfish Aristotle's lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984) subset: efo_slim +subset: human_reference_atlas subset: uberon_slim subset: vertebrate_core synonym: "adult head muscle organ" NARROW [OBOL:automatic] @@ -121667,12 +121451,14 @@ relationship: attaches_to UBERON:0003129 ! skull relationship: develops_from UBERON:0006904 {source="EHDAA2-abduced"} ! head mesenchyme from mesoderm relationship: has_developmental_contribution_from UBERON:0002342 {gci_relation="part_of", gci_filler="NCBITaxon:7742", source="https://github.com/obophenotype/uberon/wiki/The-neural-crest"} ! neural crest relationship: part_of UBERON:0004461 {source="https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships"} ! skeletal musculature of head +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0002377 name: muscle of neck namespace: uberon def: "Any muscle that is part of the cervical (neck) region." [http://orcid.org/0000-0002-6601-2165] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "muscle organ of neck" EXACT [OBOL:automatic] @@ -121691,12 +121477,14 @@ is_a: UBERON:0010959 ! craniocervical muscle intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0000974 ! neck relationship: part_of UBERON:0004465 {source="prolog"} ! musculature of neck +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0002378 name: muscle of abdomen namespace: uberon def: "Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis." [Wikipedia:Abdominal_muscle] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "abdomen muscle" EXACT [] @@ -121721,6 +121509,7 @@ intersection_of: UBERON:0014892 ! skeletal muscle organ intersection_of: part_of UBERON:0000916 ! abdomen relationship: part_of UBERON:0002343 {source="prolog"} ! abdomen musculature relationship: part_of UBERON:0003697 ! abdominal wall +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0002384 @@ -122171,8 +121960,7 @@ xref: NCIT:C12673 xref: neuronames:2054 xref: SCTID:362481007 xref: TAO:0001574 -xref: UMLS:C0004388 {source="ncithesaurus:Autonomic_Nervous_System"} -xref: UMLS:C0004388 {source="BIRNLEX:1123"} +xref: UMLS:C0004388 {source="ncithesaurus:Autonomic_Nervous_System", source="BIRNLEX:1123"} xref: UMLS:C1305381 {source="BIRNLEX:1123"} xref: VHOG:0000396 xref: Wikipedia:Autonomic_nervous_system @@ -122458,8 +122246,7 @@ xref: MA:0000945 xref: NCIT:C49347 xref: neuronames:189 {source="BIRNLEX:711"} xref: SCTID:361691006 -xref: UMLS:C0152295 {source="ncithesaurus:Cerebral_White_Matter"} -xref: UMLS:C0152295 {source="BIRNLEX:711"} +xref: UMLS:C0152295 {source="ncithesaurus:Cerebral_White_Matter", source="BIRNLEX:711"} xref: UMLS:C1284115 {source="BIRNLEX:711"} is_a: UBERON:0011299 ! white matter of telencephalon intersection_of: UBERON:0002316 ! white matter @@ -122510,8 +122297,7 @@ synonym: "extraembryonic part of placenta" RELATED [http://orcid.org/0000-0002-6 synonym: "extraembryonic placenta" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "maternal decidual layer" RELATED [MP:0004256] synonym: "maternal part of placenta" RELATED [http://orcid.org/0000-0002-6601-2165] -synonym: "maternal placenta" RELATED [EMAPA:35269] -synonym: "maternal placenta" RELATED [GOC:dph] +synonym: "maternal placenta" RELATED [EMAPA:35269, GOC:dph] synonym: "placenta maternal decidual layer" RELATED [] synonym: "uterine decidua" RELATED [BTO:0001360] xref: BTO:0001360 @@ -122814,8 +122600,7 @@ namespace: uberon def: "The middle layer of an artery or vein. [WP,unvetted]." [Wikipedia:Tunica_media] comment: May be composed of smooth muscle and elastic tissue subset: uberon_slim -synonym: "tunica media vasorum" RELATED LATIN [Wikipedia:Tunica_media] -synonym: "tunica media vasorum" RELATED [BTO:0002011] +synonym: "tunica media vasorum" RELATED LATIN [BTO:0002011, Wikipedia:Tunica_media] xref: BTO:0002011 xref: EMAPA:36298 xref: FMA:55590 @@ -122871,8 +122656,7 @@ subset: efo_slim subset: pheno_slim subset: uberon_slim synonym: "Druese" RELATED [BTO:0000522] -synonym: "glandula" RELATED [BTO:0000522] -synonym: "glandula" RELATED LATIN [Wikipedia:Gland] +synonym: "glandula" RELATED LATIN [BTO:0000522, Wikipedia:Gland] synonym: "glandular organ" EXACT [http://orcid.org/0000-0002-6601-2165] xref: AAO:0000212 xref: AEO:0000096 @@ -123093,6 +122877,7 @@ id: UBERON:0002726 name: cervical spinal cord namespace: uberon def: "A spinal cord segment that adjacent_to a cervical region." [OBOL:automatic] +subset: human_reference_atlas synonym: "cervical segment of spinal cord" EXACT [FMA:71166] synonym: "cervical segments of spinal cord [1-8]" EXACT [FMA:71166] synonym: "cervical spinal cord" EXACT [FMA:71166] @@ -123104,14 +122889,14 @@ xref: MA:0003081 xref: NCIT:C12892 xref: neuronames:1654 xref: SCTID:180960003 -xref: UMLS:C0581619 {source="BIRNLEX:1499"} -xref: UMLS:C0581619 {source="ncithesaurus:Cervical_Spinal_Cord"} +xref: UMLS:C0581619 {source="BIRNLEX:1499", source="ncithesaurus:Cervical_Spinal_Cord"} xref: UMLS:C1278837 {source="BIRNLEX:1499"} is_a: UBERON:0005844 ! spinal cord segment intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: adjacent_to UBERON:0005434 ! cervical region relationship: adjacent_to UBERON:0005434 ! cervical region relationship: only_in_taxon NCBITaxon:8287 ! Sarcopterygii +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0002812 @@ -123179,8 +122964,7 @@ xref: NCIT:C12899 xref: ncithesaurus:Nucleus_of_the_Hypoglossal_Nerve xref: neuronames:757 {source="BIRNLEX:2644"} xref: SCTID:47361005 -xref: UMLS:C0228802 {source="ncithesaurus:Hypoglossal_Nucleus"} -xref: UMLS:C0228802 {source="BIRNLEX:2644"} +xref: UMLS:C0228802 {source="BIRNLEX:2644", source="ncithesaurus:Hypoglossal_Nucleus"} xref: VHOG:0001358 xref: Wikipedia:Hypoglossal_nucleus is_a: UBERON:0000126 ! cranial nerve nucleus @@ -123301,6 +123085,7 @@ id: UBERON:0003038 name: thoracic spinal cord namespace: uberon def: "The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted]." [Wikipedia:Thoracic_spinal_cord] +subset: human_reference_atlas subset: uberon_slim synonym: "pars thoracica medullae spinalis" EXACT LATIN [FMA:71167, FMA:TA] synonym: "segmenta thoracica medullae spinalis [1-12]" EXACT LATIN [FMA:71167, FMA:TA] @@ -123314,14 +123099,14 @@ xref: MA:0003082 xref: NCIT:C12894 xref: neuronames:1718 xref: SCTID:278750009 -xref: UMLS:C0581620 {source="ncithesaurus:Thoracic_Spinal_Cord"} -xref: UMLS:C0581620 {source="BIRNLEX:966"} +xref: UMLS:C0581620 {source="ncithesaurus:Thoracic_Spinal_Cord", source="BIRNLEX:966"} xref: Wikipedia:Thoracic_spinal_cord is_a: UBERON:0005844 ! spinal cord segment intersection_of: UBERON:0005844 ! spinal cord segment intersection_of: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0008231 ! dorsal thoracic segment of trunk property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/6/68/Gray820.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0003041 @@ -123503,8 +123288,6 @@ xref: Wikipedia:Blood_island_of_umbilical_vesicle xref: XAO:0000067 xref: ZFA:0000094 is_a: UBERON:0006598 ! presumptive structure -relationship: contains_process GO:0001525 {source="ISBN:0073040584"} ! angiogenesis -relationship: contains_process GO:0030097 {source="ISBN:0073040584"} ! hemopoiesis relationship: develops_from UBERON:0003081 ! lateral plate mesoderm relationship: has_potential_to_develop_into UBERON:0002390 ! hematopoietic system property_value: UBPROP:0000001 "Nests of developing blood cells arising late in the segmentation period from the intermediate mass, and located in the anterior-ventral tail, just posterior to the yolk extension. Kimmel et al, 1995.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0000094", ontology="TAO", source="ZFIN:curator"} @@ -124895,8 +124678,7 @@ name: skeleton of lower jaw namespace: uberon def: "A subdivision of the skeleton that corresponds to the lower part of the mouth. The lower jaw skeleton includes the following elements, when present: lower jaw teeth, the mandible and other lower jaw bones, and Meckel's cartilage." [http://orcid.org/0000-0002-6601-2165] subset: pheno_slim -synonym: "lower jaw" BROAD [MA:0001906] -synonym: "lower jaw" BROAD [ZFA:0001273] +synonym: "lower jaw" BROAD [MA:0001906, ZFA:0001273] synonym: "lower jaw skeleton" EXACT [AAO:0000274] synonym: "mandible" BROAD [ZFA:0001273] synonym: "mandibles" RELATED PLURAL [TAO:0001273] @@ -125261,6 +125043,7 @@ id: UBERON:0003315 name: mesenchyme of ovary namespace: uberon def: "Mesenchyme that is part of a developing ovary [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "female reproductive system gonad mesenchyme" EXACT [OBOL:automatic] synonym: "female reproductive system gonada mesenchyme" EXACT [OBOL:automatic] synonym: "gonad of female reproductive system mesenchyme" EXACT [OBOL:automatic] @@ -125277,6 +125060,7 @@ is_a: UBERON:0003855 ! gonad mesenchyme intersection_of: UBERON:0003104 ! mesenchyme intersection_of: part_of UBERON:0000992 ! ovary relationship: part_of UBERON:0000992 ! ovary +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0003316 @@ -125444,6 +125228,7 @@ id: UBERON:0003336 name: serosa of duodenum namespace: uberon def: "A serous membrane that is part of a duodenum [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "doudenal serosa" EXACT [FMA:14948] synonym: "duodenal serosa" EXACT [FMA:14948] synonym: "duodenum serosa" EXACT [OBOL:automatic] @@ -125458,6 +125243,7 @@ is_a: UBERON:0001206 ! serosa of small intestine intersection_of: UBERON:0000042 ! serous membrane intersection_of: part_of UBERON:0002114 ! duodenum relationship: part_of UBERON:0002114 ! duodenum +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000010 "1st part serosa, 2nd - 4th adventitia" xsd:string [Term] @@ -125659,8 +125445,7 @@ namespace: uberon def: "An epithelium that is part of a midgut." [OBOL:automatic] synonym: "epithelial tissue of midgut" EXACT [OBOL:automatic] synonym: "midgut epithelial tissue" EXACT [OBOL:automatic] -synonym: "midgut epithelium" EXACT [BTO:0005053] -synonym: "midgut epithelium" EXACT [OBOL:automatic] +synonym: "midgut epithelium" EXACT [BTO:0005053, OBOL:automatic] xref: BTO:0005053 xref: EHDAA2:0001195 xref: EMAPA:16569 @@ -125770,7 +125555,6 @@ namespace: uberon alt_id: UBERON:0005232 def: "An unilaminar epithelium that surrounds a pelvic appendage bud." [OBOL:automatic] synonym: "hindlimb bud ectoderm" NARROW SENSU [EMAPA:16780] -synonym: "hindlimb bud ectoderm" NARROW SENSU [] synonym: "hindlimb ectoderm" EXACT [VHOG:0001048] synonym: "hindlimb ectoderm" NARROW SENSU [VHOG:0001048] synonym: "leg ectoderm" RELATED [OBOL:automatic] @@ -125797,7 +125581,6 @@ alt_id: UBERON:0005663 def: "An unilaminar epithelium that surrounds a pectoral appendage bud." [OBOL:automatic] synonym: "arm ectoderm" RELATED [OBOL:automatic] synonym: "forelimb bud ectoderm" NARROW SENSU [EMAPA:16407] -synonym: "forelimb bud ectoderm" NARROW SENSU [] synonym: "forelimb ectoderm" NARROW SENSU [VHOG:0001047] synonym: "pectoral fin bud ectoderm" NARROW SENSU [] synonym: "upper limb bud ectoderm" NARROW SENSU [EHDAA2:0002134] @@ -125836,6 +125619,7 @@ id: UBERON:0003379 name: cardiac muscle of right atrium namespace: uberon def: "A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "cardiac muscle of cardiac right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle of heart right atrium" EXACT [OBOL:automatic] synonym: "cardiac muscle tissue of heart right atrium" EXACT [OBOL:automatic] @@ -125856,6 +125640,7 @@ is_a: UBERON:0004490 ! cardiac muscle tissue of atrium intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002078 ! right cardiac atrium relationship: part_of UBERON:0002078 ! right cardiac atrium +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0003380 @@ -125922,6 +125707,7 @@ id: UBERON:0003383 name: cardiac muscle tissue of interventricular septum namespace: uberon def: "A portion of cardiac muscle tissue that is part of an interventricular septum [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "cardiac muscle of interventricular septum" EXACT [] synonym: "cardiac muscle tissue of interventricular septum" EXACT [FMA:84084] synonym: "interventricular septum cardiac muscle" EXACT [VHOG:0000999] @@ -125936,6 +125722,7 @@ is_a: UBERON:0004492 ! cardiac muscle tissue of cardiac septum is_a: UBERON:0004667 ! interventricular septum muscular part intersection_of: UBERON:0001133 ! cardiac muscle tissue intersection_of: part_of UBERON:0002094 ! interventricular septum +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0003384 @@ -127677,6 +127464,7 @@ id: UBERON:0003617 name: trachea elastic tissue namespace: uberon def: "An elastic tissue that is part of a trachea [Automatically generated definition]." [OBOL:automatic] +subset: human_reference_atlas synonym: "cartilaginous trachea elastic connective tissue" EXACT [OBOL:automatic] synonym: "cartilaginous trachea elastic tissue" EXACT [OBOL:automatic] synonym: "cartilaginous trachea textus connectivus elasticus" EXACT [OBOL:automatic] @@ -127701,6 +127489,7 @@ is_a: UBERON:0003611 ! respiratory system elastic tissue intersection_of: UBERON:0002521 ! elastic tissue intersection_of: part_of UBERON:0003126 ! trachea relationship: part_of UBERON:0002202 ! submucosa of trachea +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0003618 @@ -127768,8 +127557,7 @@ name: abdominal cavity namespace: uberon def: "The part of the ventral body cavity that is within the abdomen proper (excluding the pelvic cavity)." [UBERON:cjm] subset: efo_slim -synonym: "cavitas abdominis" RELATED LATIN [Wikipedia:Abdominal_cavity] -synonym: "cavitas abdominis" RELATED [GAID:17] +synonym: "cavitas abdominis" RELATED LATIN [GAID:17, Wikipedia:Abdominal_cavity] synonym: "cavity of abdominal compartment" EXACT [FMA:12266] synonym: "cavity of compartment of abdomen" EXACT [FMA:12266] synonym: "space of abdominal compartment" EXACT [FMA:12266] @@ -127956,10 +127744,8 @@ synonym: "brachiocephalic venous tree" EXACT [FMA:4723] synonym: "innomiate vein" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "innominate trunk" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "innominate vein" EXACT [FMA:4723] -synonym: "innominate vein" RELATED [GAID:529] -synonym: "innominate vein" RELATED [Wikipedia:Brachiocephalic_vein] +synonym: "innominate vein" RELATED [GAID:529, Wikipedia:Brachiocephalic_vein] synonym: "innominate veins" RELATED [Wikipedia:Brachiocephalic_vein] -synonym: "vena brachiocephalica" RELATED [Wikipedia:Brachiocephalic_vein] synonym: "vena brachiocephalica" RELATED LATIN [Wikipedia:Brachiocephalic_vein] synonym: "venae anonyma" RELATED LATIN [Wikipedia:Brachiocephalic_vein] xref: EHDAA2:0000182 @@ -128824,6 +128610,7 @@ id: UBERON:0003902 name: retinal neural layer namespace: uberon def: "The part of the retina that contains neurons and photoreceptor cells[GO]." [GO:0003407] +subset: human_reference_atlas subset: pheno_slim subset: vertebrate_core synonym: "neural layer of retina" EXACT [FMA:58628] @@ -128854,6 +128641,7 @@ intersection_of: immediate_transformation_of UBERON:0005425 ! presumptive neural relationship: developmentally_induced_by UBERON:0005426 ! lens vesicle relationship: has_part CL:0000210 ! photoreceptor cell relationship: immediate_transformation_of UBERON:0005425 {source="Bgee:AN"} ! presumptive neural retina +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000003 "(...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000535", ontology="VHOG", source="ISBN:978-0030223693 Liem KF, Bemis WE, Walker WF, Grande L, Functional Anatomy of the Vertebrates: An Evolutionary Perspective (2001) p.429", source="http://bgee.unil.ch/"} [Term] @@ -129074,6 +128862,7 @@ synonym: "gut epithelium" EXACT [EHDAA2:0004567, MA:0003201, ZFA:0005123] xref: BTO:0000956 xref: EHDAA2:0004567 xref: EMAPA:32928 +xref: FBbt:00047143 xref: MA:0003201 xref: NCIT:C12963 xref: TAO:0005123 @@ -130670,6 +130459,7 @@ name: skeleton namespace: uberon def: "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body." [VSAO:0000026] subset: efo_slim +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "set of all bones" EXACT [] @@ -130694,6 +130484,7 @@ disjoint_from: UBERON:0004770 ! articular system relationship: has_member UBERON:0004765 ! skeletal element relationship: part_of UBERON:0001434 ! skeletal system property_value: RO:0002171 UBERON:0000383 +property_value: RO:0002175 NCBITaxon:9606 property_value: seeAlso "https://github.com/obophenotype/uberon/wiki/The-skeletal-system" xsd:anyURI property_value: UBPROP:0000001 "Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000026", ontology="VSAO", source="GO_REF:0000034, http://dx.plos.org/10.1371/journal.pone.0051070"} property_value: UBPROP:0000007 "skeletal" xsd:string @@ -131444,13 +131235,11 @@ id: UBERON:0004515 name: smooth muscle tissue of bronchiole namespace: uberon def: "A portion of smooth muscle tissue that is part of a bronchiole [Automatically generated definition]." [OBOL:automatic] -subset: human_reference_atlas xref: FMA:261045 is_a: UBERON:0004233 ! lower respiratory tract smooth muscle intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0002186 ! bronchiole relationship: part_of UBERON:0002186 ! bronchiole -property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0004516 @@ -131843,8 +131632,7 @@ subset: vertebrate_core synonym: "nuclei raphes" EXACT LATIN [FMA:84017, FMA:TA] synonym: "nuclei raphes" RELATED LATIN [Wikipedia:Raphe_nuclei] synonym: "raphe cluster" RELATED [Wikipedia:Raphe_nuclei] -synonym: "raphe nuclei" EXACT [FMA:84017] -synonym: "raphe nuclei" EXACT [NLXANAT:20090205] +synonym: "raphe nuclei" EXACT [FMA:84017, NLXANAT:20090205] synonym: "raphe nuclei set" EXACT [FMA:84017] synonym: "raphe nucleus" RELATED [ZFA:0001429] synonym: "raphe of mesenchephalon" RELATED [BAMS:RA] @@ -132417,6 +132205,7 @@ id: UBERON:0004766 name: cranial bone namespace: uberon def: "A bone that is part of a cranium." [UBERON:automatic] +subset: human_reference_atlas synonym: "cranium bone" EXACT [UBERON:automatic] xref: SCTID:181792001 is_a: UBERON:0003457 ! head bone @@ -132424,6 +132213,7 @@ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0003128 ! cranium relationship: part_of UBERON:0003128 ! cranium property_value: IAO:0000232 "here cranium = skull - mandible" xsd:string +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0004768 @@ -133398,6 +133188,7 @@ namespace: uberon def: "A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila." [http://orcid.org/0000-0002-6601-2165] comment: for the vertebrate-specific structure, see UBERON:0000941 (cranial nerve II) subset: grouping_class +subset: human_reference_atlas subset: pheno_slim synonym: "optic nerve" BROAD [BTO:0000966] synonym: "optic nerve (generic)" EXACT [] @@ -133412,12 +133203,13 @@ intersection_of: extends_fibers_into UBERON:0005388 ! photoreceptor array relationship: extends_fibers_into UBERON:0000955 ! brain relationship: extends_fibers_into UBERON:0005388 ! photoreceptor array relationship: part_of UBERON:0002104 ! visual system +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0004905 name: articulation namespace: uberon -def: "Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] +def: "Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "joint" NARROW [] xref: FBbt:00005811 @@ -133629,6 +133421,7 @@ namespace: uberon def: "A proximal-distal subdivision of the digestive tract." [http://orcid.org/0000-0002-6601-2165] subset: non_informative synonym: "alimentary system subdivision" RELATED [FMA:71131] +synonym: "gut section" RELATED [FBbt:00100315] synonym: "intestinal tract" RELATED [] synonym: "segment of intestinal tract" RELATED [] synonym: "subdivision of alimentary system" RELATED [FMA:71131] @@ -133739,8 +133532,7 @@ namespace: uberon def: "A submucosa that is part of a pylorus [Automatically generated definition]." [OBOL:automatic] synonym: "pyloric part of stomach submucosa" EXACT [OBOL:automatic] synonym: "pyloric submucosa" EXACT [] -synonym: "pylorus submucosa" EXACT [OBOL:automatic] -synonym: "pylorus submucosa" EXACT [FMA:17462] +synonym: "pylorus submucosa" EXACT [FMA:17462, OBOL:automatic] synonym: "stomach pyloric region submucosa" EXACT [OBOL:automatic] synonym: "submucosa of pyloric part of stomach" EXACT [OBOL:automatic] synonym: "submucosa of stomach pyloric region" EXACT [OBOL:automatic] @@ -134776,8 +134568,8 @@ xref: SCTID:197423006 is_a: UBERON:8410077 ! airway submucosal gland intersection_of: UBERON:0011148 ! submucosal gland intersection_of: has_part CL:0000159 ! seromucus secreting cell -intersection_of: part_of UBERON:0002202 ! submucosa of trachea -relationship: part_of UBERON:0002202 ! submucosa of trachea +intersection_of: part_of UBERON:0003126 ! trachea +relationship: part_of UBERON:0003126 ! trachea property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000009 "These glands secrete mucus, lysozyme, defensins, and other agents that help protect the lungs from particles and infectious agents." xsd:string @@ -136181,8 +135973,7 @@ namespace: uberon def: "A mesothelium that is part of a peritoneal cavity." [OBOL:automatic] synonym: "mesothelium of peritoneal component" EXACT [EMAPA:16139] synonym: "mesothelium of peritoneum" EXACT [FMA:18147] -synonym: "peritoneal mesothelium" EXACT [EMAPA:16139] -synonym: "peritoneal mesothelium" EXACT [BTO:0003156] +synonym: "peritoneal mesothelium" EXACT [BTO:0003156, EMAPA:16139] synonym: "peritoneum" BROAD INCONSISTENT [EMAPA:16139] synonym: "peritoneum mesothelium" EXACT [FMA:18147] xref: BTO:0003156 @@ -136852,6 +136643,7 @@ id: UBERON:0005944 name: axial skeleton plus cranial skeleton namespace: uberon def: "Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]." [FMA:71221, https://github.com/obophenotype/uberon/issues/44, https://github.com/obophenotype/uberon/wiki/The-axial-skeleton, VSAO:0000056, Wikipedia:Axial_skeleton] +subset: human_reference_atlas subset: pheno_slim subset: uberon_slim synonym: "skeleton axiale" RELATED LATIN [Wikipedia:Axial_skeleton] @@ -136871,6 +136663,7 @@ relationship: contributes_to_morphology_of UBERON:0001434 ! skeletal system relationship: develops_from UBERON:0003089 ! sclerotome relationship: part_of UBERON:0011137 ! axial skeletal system property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/8/8b/Axial_skeleton_diagram.svg" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: seeAlso "http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton" xsd:anyURI property_value: UBPROP:0000001 "Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO]" xsd:string {date_retrieved="2012-08-14", external_class="VSAO:0000056", ontology="VSAO", source="PSPUB:0000170"} @@ -136896,8 +136689,7 @@ synonym: "arterial cone" RELATED [MP:0010428] synonym: "conus arteriosus" RELATED [MP:0010428] synonym: "conus arteriosus (infundibulum)" EXACT [FMA:7216] synonym: "infundibulum" BROAD [Wikipedia:Conus_arteriosus] -synonym: "infundibulum of right ventricle" EXACT [FMA:7216] -synonym: "infundibulum of right ventricle" EXACT [MP:0010428] +synonym: "infundibulum of right ventricle" EXACT [FMA:7216, MP:0010428] synonym: "outflow tract of right ventricle" EXACT [FMA:7216] synonym: "pulmonary cone" RELATED [MP:0010428] synonym: "pulmonary conus" EXACT [FMA:7216] @@ -136923,8 +136715,7 @@ name: outflow part of left ventricle namespace: uberon def: "Anterosuperior fibrous portion of the left ventricle that connects to the ascending aorta." [MP:0010429] subset: pheno_slim -synonym: "aortic vestibule" EXACT [MP:0010429] -synonym: "aortic vestibule" EXACT [FMA:9473] +synonym: "aortic vestibule" EXACT [FMA:9473, MP:0010429] synonym: "heart left ventricle outflow tract" EXACT [MP:0010429] synonym: "left ventricular outflow" EXACT [FMA:9473] synonym: "left ventricular outflow tract" EXACT [HP:0011103] @@ -137696,6 +137487,7 @@ xref: MIAA:0000049 is_a: UBERON:0004921 ! subdivision of digestive tract relationship: only_in_taxon NCBITaxon:33213 ! Bilateria property_value: IAO:0000232 "currently this is an extremely generic class, encompassing both protostomes and deuterostomes." xsd:string +property_value: IAO:0006012 "2023-04-20" xsd:string property_value: UBPROP:0000007 "branchial" xsd:string property_value: UBPROP:0000007 "pharyngeal" xsd:string @@ -138080,11 +137872,11 @@ namespace: uberon def: "The edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm." [MP:0013477] comment: This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343 subset: efo_slim +subset: human_reference_atlas subset: pheno_slim subset: vertebrate_core synonym: "cornea limbus" EXACT [] -synonym: "corneal limbus" EXACT [GAID:896] -synonym: "corneal limbus" EXACT [FMA:58342] +synonym: "corneal limbus" EXACT [FMA:58342, GAID:896] synonym: "corneal-scleral limbus" EXACT [PMID:17051547] synonym: "corneoscleral junction" EXACT [GAID:896] synonym: "limbus corneae" EXACT LATIN [Wikipedia:Corneal_limbus] @@ -138107,6 +137899,7 @@ relationship: connects UBERON:0000964 ! cornea relationship: connects UBERON:0001773 ! sclera relationship: part_of UBERON:0000019 ! camera-type eye property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/3/3d/Limbus.png" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0006799 @@ -138165,7 +137958,6 @@ namespace: uberon def: "A subdivision of a the reproductive tract in a female organism that is the site of embryo development." [http://orcid.org/0000-0002-6601-2165] subset: grouping_class synonym: "uterus" BROAD SENSU [FBbt:00004924] -xref: FBbt:00004924 xref: TADS:0000421 xref: WBbt:0006760 is_a: UBERON:0005156 ! reproductive structure @@ -139124,7 +138916,6 @@ id: UBERON:0007195 name: stroma of bone marrow namespace: uberon def: "The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis." [Wikipedia:Bone_marrow#Stroma] -subset: human_reference_atlas synonym: "bone marrow stroma" EXACT [FMA:21426] xref: CALOHA:TS-0085 xref: FMA:21426 @@ -139137,7 +138928,6 @@ relationship: has_part CL:0002240 ! marrow fibroblast relationship: has_part UBERON:0000332 ! yellow bone marrow relationship: has_part UBERON:0003909 ! sinusoid relationship: part_of UBERON:0002371 ! bone marrow -property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0007196 @@ -139998,6 +139788,7 @@ id: UBERON:0007617 name: synovial cavity of joint namespace: uberon def: "An anatomical cavity that surrounded_by a synovial joint." [OBOL:automatic] +subset: human_reference_atlas synonym: "articular cavity (synovial joint)" EXACT [FMA:11356] synonym: "cavitas articularis (junctura synovialis)" EXACT [FMA:11356] synonym: "cavity of synovial joint" EXACT [FMA:11356] @@ -140008,6 +139799,7 @@ is_a: UBERON:0002553 ! anatomical cavity intersection_of: UBERON:0002553 ! anatomical cavity intersection_of: luminal_space_of UBERON:0002217 ! synovial joint relationship: luminal_space_of UBERON:0002217 ! synovial joint +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0007625 @@ -140249,6 +140041,7 @@ id: UBERON:0007798 name: vascular system namespace: uberon def: "Anatomical system that consists of all blood and lymph vessels." [http://orcid.org/0000-0002-6601-2165] +subset: human_reference_atlas subset: pheno_slim xref: BTO:0001085 xref: CALOHA:TS-2053 @@ -140260,6 +140053,7 @@ xref: UMLS:C0489903 {source="ncithesaurus:Vascular_System"} is_a: UBERON:0000467 ! anatomical system relationship: part_of UBERON:0004535 {source="MA"} ! cardiovascular system property_value: editor_note "consider merging with vasculature" xsd:string +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]." xsd:string {source="ncithesaurus:Vascular_System"} property_value: UBPROP:0000012 "in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system" xsd:string {external_ontology="MA"} @@ -140363,6 +140157,7 @@ id: UBERON:0007829 name: pectoral girdle bone namespace: uberon def: "A bone that is part of a pectoral girdle region." [OBOL:automatic] +subset: human_reference_atlas subset: vertebrate_core synonym: "bone of pectoral girdle" EXACT [] xref: EMAPA:35669 @@ -140372,12 +140167,14 @@ is_a: UBERON:0010741 ! bone of pectoral complex intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0001421 ! pectoral girdle region relationship: part_of UBERON:0007831 ! pectoral girdle skeleton +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0007830 name: pelvic girdle bone/zone namespace: uberon def: "A bone element or fused bone that is part of pelvic girdle." [https://orcid.org/0000-0002-6601-2165] +subset: human_reference_atlas subset: pheno_slim subset: vertebrate_core synonym: "bone of pelvic girdle" EXACT [] @@ -140396,6 +140193,7 @@ intersection_of: UBERON:0001474 ! bone element intersection_of: part_of UBERON:0007832 ! pelvic girdle skeleton relationship: part_of UBERON:0007832 ! pelvic girdle skeleton property_value: editor_note "check sacrum, coccyx (MA does NOT include these)" xsd:string +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000008 "typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone" xsd:string [Term] @@ -140710,8 +140508,7 @@ xref: FMA:24217 xref: MA:0000028 xref: SCTID:362666008 is_a: UBERON:0000475 ! organism subdivision -relationship: part_of UBERON:0000915 {source="MA"} ! thoracic segment of trunk -relationship: part_of UBERON:0000915 {source="FMA"} ! thoracic segment of trunk +relationship: part_of UBERON:0000915 {source="FMA", source="MA"} ! thoracic segment of trunk relationship: part_of UBERON:0011270 {source="FMA"} ! dorsal trunk [Term] @@ -140831,7 +140628,7 @@ xref: EHDAA2:0000187 xref: FMA:293041 xref: NCIT:C34248 xref: UMLS:C1519038 {source="ncithesaurus:Pharyngeal_Apparatus"} -is_a: UBERON:0000477 ! anatomical cluster +is_a: UBERON:0034921 ! multi organ part structure relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0000922 ! embryo relationship: part_of UBERON:0009145 ! pharyngeal region of foregut @@ -141091,6 +140888,7 @@ id: UBERON:0008895 name: splanchnocranium namespace: uberon def: "Subdivision of endoskeleton derived from pharyngeal arches." [https://orcid.org/0000-0002-6601-2165, ISBN:0073040584, Wikipedia:Facial_skeleton] +subset: human_reference_atlas synonym: "branchial arch skeleton" RELATED [] synonym: "gill arch skeleton" RELATED [] synonym: "pharyngeal arch" RELATED INCONSISTENT [VSAO:0000149] @@ -141114,6 +140912,7 @@ relationship: develops_from UBERON:0002539 {source="https://github.com/obophenot relationship: has_developmental_contribution_from UBERON:0003099 {notes="redundant", source="Grays", source="PMID:11237469"} ! cranial neural crest relationship: overlaps UBERON:0011156 {gci_relation="part_of", gci_filler="NCBITaxon:89593"} ! facial skeleton property_value: depicted:by "http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg" xsd:anyURI +property_value: RO:0002175 NCBITaxon:9606 property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO]" xsd:string {date_retrieved="2012-08-14", external_class="TAO:0001216", ontology="TAO", source="ZFIN:curator"} property_value: UBPROP:0000001 "Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0010157", ontology="AAO", source="AAO:EJS"} property_value: UBPROP:0000001 "The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG]" xsd:string {date_retrieved="2012-09-17", external_class="VHOG:0000315", ontology="VHOG", source="http://bgee.unil.ch/"} @@ -141989,9 +141788,11 @@ relationship: part_of UBERON:0005256 {source="EHDAA2"} ! trunk mesenchyme id: UBERON:0009644 name: trachea non-cartilage connective tissue namespace: uberon +subset: human_reference_atlas xref: EMAPA:35878 xref: MA:0001859 is_a: UBERON:0003571 {source="MA"} ! trachea connective tissue +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0009652 @@ -145397,8 +145198,7 @@ name: transverse cervical artery namespace: uberon def: "The transverse cervical artery (transverse artery of neck, transversa colli artery) is a branch of the thyrocervical trunk, running at a higher level than the suprascapular artery." [Wikipedia:Transverse_cervical_artery] subset: human_reference_atlas -synonym: "cervical artery" RELATED [Wikipedia:Transverse_cervical_artery] -synonym: "cervical artery" RELATED [MA:0001936] +synonym: "cervical artery" RELATED [MA:0001936, Wikipedia:Transverse_cervical_artery] synonym: "cervical transverse artery" RELATED [Wikipedia:Transverse_cervical_artery] synonym: "descending branch of the transverse cervical" RELATED [Wikipedia:Transverse_cervical_artery] synonym: "transversalis artery colli" RELATED [Wikipedia:Transverse_cervical_artery] @@ -146581,6 +146381,7 @@ id: UBERON:0014477 name: thoracic skeleton namespace: uberon def: "Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum." [https://orcid.org/0000-0002-6601-2165, Wikipedia:Rib_cage] +subset: human_reference_atlas subset: pheno_slim synonym: "skeleton of thorax" EXACT [] synonym: "thoracic part of axial skeleton" EXACT [] @@ -146591,6 +146392,7 @@ xref: Wikipedia:Thoracic_skeleton is_a: UBERON:0010912 ! subdivision of skeleton relationship: part_of UBERON:0000915 ! thoracic segment of trunk relationship: part_of UBERON:0002090 ! postcranial axial skeleton +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014530 @@ -146634,6 +146436,7 @@ id: UBERON:0014610 name: thoracic spinal cord ventral horn namespace: uberon def: "A ventral horn of spinal cord that is part of a thoracic spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "thoracic spinal cord anterior horn" RELATED [BIRNLEX:1410] synonym: "thoracic spinal cord ventral horn" EXACT HUMAN_PREFERRED [BIRNLEX:1410] xref: BIRNLEX:1410 @@ -146644,12 +146447,14 @@ is_a: UBERON:0002257 ! ventral horn of spinal cord intersection_of: UBERON:0002257 ! ventral horn of spinal cord intersection_of: part_of UBERON:0003038 ! thoracic spinal cord relationship: part_of UBERON:0003038 ! thoracic spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014613 name: cervical spinal cord gray matter namespace: uberon def: "A gray matter of spinal cord that is part of a cervical spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "cervical spinal cord gray matter" EXACT HUMAN_PREFERRED [BIRNLEX:1521] xref: BIRNLEX:1521 xref: SCTID:362438009 @@ -146658,12 +146463,14 @@ is_a: UBERON:0002315 ! gray matter of spinal cord intersection_of: UBERON:0002315 ! gray matter of spinal cord intersection_of: part_of UBERON:0002726 ! cervical spinal cord relationship: part_of UBERON:0002726 ! cervical spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014614 name: cervical spinal cord white matter namespace: uberon def: "A white matter of spinal cord that is part of a cervical spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "cervical spinal cord white matter" EXACT HUMAN_PREFERRED [BIRNLEX:1531] xref: BIRNLEX:1531 xref: SCTID:174829001 @@ -146672,12 +146479,14 @@ is_a: UBERON:0002318 ! white matter of spinal cord intersection_of: UBERON:0002318 ! white matter of spinal cord intersection_of: part_of UBERON:0002726 ! cervical spinal cord relationship: part_of UBERON:0002726 ! cervical spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014621 name: cervical spinal cord ventral horn namespace: uberon def: "A ventral horn of spinal cord that is part of a cervical spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "cervical spinal cord anterior horn" RELATED [BIRNLEX:1680] synonym: "cervical spinal cord ventral horn" EXACT HUMAN_PREFERRED [BIRNLEX:1680] xref: BIRNLEX:1680 @@ -146688,12 +146497,14 @@ is_a: UBERON:0002257 ! ventral horn of spinal cord intersection_of: UBERON:0002257 ! ventral horn of spinal cord intersection_of: part_of UBERON:0002726 ! cervical spinal cord relationship: part_of UBERON:0002726 ! cervical spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014636 name: thoracic spinal cord gray matter namespace: uberon def: "A gray matter of spinal cord that is part of a thoracic spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "thoracic spinal cord gray matter" EXACT HUMAN_PREFERRED [BIRNLEX:980] xref: BIRNLEX:980 xref: SCTID:362441000 @@ -146702,12 +146513,14 @@ is_a: UBERON:0002315 ! gray matter of spinal cord intersection_of: UBERON:0002315 ! gray matter of spinal cord intersection_of: part_of UBERON:0003038 ! thoracic spinal cord relationship: part_of UBERON:0003038 ! thoracic spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014637 name: thoracic spinal cord white matter namespace: uberon def: "A white matter of spinal cord that is part of a thoracic spinal cord." [OBOL:automatic] +subset: human_reference_atlas synonym: "thoracic spinal cord white matter" EXACT HUMAN_PREFERRED [BIRNLEX:999] xref: BIRNLEX:999 xref: SCTID:367881009 @@ -146717,6 +146530,7 @@ is_a: UBERON:0002318 ! white matter of spinal cord intersection_of: UBERON:0002318 ! white matter of spinal cord intersection_of: part_of UBERON:0003038 ! thoracic spinal cord relationship: part_of UBERON:0003038 ! thoracic spinal cord +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0014649 @@ -148550,6 +148364,7 @@ id: UBERON:0034713 name: cranial neuron projection bundle namespace: uberon def: "Any of the cranial nerves, or their central nervous system analogs (the optic tract, the epiphyseal tract). These analogs are not true nerves, and are instead evaginated sensory afferents emanating from the brain." [http://orcid.org/0000-0002-6601-2165, ISBN:0471888893] +subset: human_reference_atlas synonym: "cranial nerve fiber bundle" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cranial nerve fiber tract" RELATED [http://orcid.org/0000-0002-6601-2165] synonym: "cranial nerve or tract" RELATED [http://orcid.org/0000-0002-6601-2165] @@ -148559,6 +148374,7 @@ is_a: UBERON:0015212 ! lateral structure relationship: extends_fibers_into UBERON:0000955 ! brain relationship: in_lateral_side_of UBERON:0000033 ! head relationship: only_in_taxon NCBITaxon:89593 ! Craniata +property_value: RO:0002175 NCBITaxon:9606 [Term] id: UBERON:0034717 @@ -149140,8 +148956,7 @@ name: ocular adnexa namespace: uberon def: "The parts of the orbital region that are outside of the the eyeball, including the lacrimal apparatus, the extraocular muscles and the eyelids, eyelashes, eyebrows and the conjunctiva." [HPO:pr, http://medical-dictionary.thefreedictionary.com/ocular+adnexa, https://github.com/obophenotype/uberon/issues/1132, UBERON:cjm] synonym: "accessory parts of orbital region" RELATED [] -synonym: "accessory visual structures" RELATED [Wikipedia:Accessory_visual_structures] -synonym: "accessory visual structures" RELATED [FMA:76554] +synonym: "accessory visual structures" RELATED [FMA:76554, Wikipedia:Accessory_visual_structures] synonym: "accessory visual structures set" RELATED [FMA:76554] synonym: "adnexa oculi" EXACT LATIN [http://medical-dictionary.thefreedictionary.com/ocular+adnexa] synonym: "adnexal parts of orbital region" RELATED [] @@ -149155,7 +148970,7 @@ xref: NCIT:C32574 xref: SCTID:120612006 xref: UMLS:C0229243 xref: Wikipedia:Accessory_visual_structures -is_a: UBERON:0000477 ! anatomical cluster +is_a: UBERON:0034921 ! multi organ part structure relationship: part_of UBERON:0004088 ! orbital region [Term] @@ -150098,7 +149913,7 @@ relationship: part_of UBERON:0001213 ! intestinal villus id: UBERON:8410004 name: small intestine arteriole namespace: uberon -def: "Arteriole of villus of small intestine." [http://orcid.org/0000-0003-4183-8865/] +def: "Arteriole of villus of small intestine." [http://orcid.org/0000-0003-4183-8865] subset: location_grouping synonym: "arteriole of small intestine" EXACT [] synonym: "arteriole of villus of small intestine" EXACT [] @@ -150137,7 +149952,7 @@ relationship: part_of UBERON:8410050 ! anorectum id: UBERON:8410015 name: arteriole of colon namespace: uberon -def: "An arteriole located in the colon." [http://orcid.org/0000-0003-3440-1876, http://orcid.org/0000-0003-4183-8865/] +def: "An arteriole located in the colon." [http://orcid.org/0000-0003-3440-1876, http://orcid.org/0000-0003-4183-8865] is_a: UBERON:0001980 ! arteriole intersection_of: UBERON:0001980 ! arteriole intersection_of: part_of UBERON:0001155 ! colon @@ -150256,7 +150071,7 @@ is_a: UBERON:0011148 ! submucosal gland is_a: UBERON:0036225 ! respiratory system gland intersection_of: UBERON:0011148 ! submucosal gland intersection_of: part_of UBERON:0000065 ! respiratory tract -relationship: dc-contributor http://orcid.org/0000-0002-2825-0621 +relationship: dc-contributor https://orcid.org/0000-0002-2825-0621 relationship: part_of UBERON:0000065 ! respiratory tract property_value: http://purl.org/dc/terms/date "2022-03-24T14:21:59Z" xsd:dateTime @@ -150309,7 +150124,7 @@ def: "Blood located in the placenta." [http://orcid.org/0000-0001-6595-0902, htt is_a: UBERON:0000178 ! blood intersection_of: UBERON:0000178 ! blood intersection_of: located_in UBERON:0001987 ! placenta -relationship: dc-contributor http://orcid.org/0000-0002-1773-2692 +relationship: dc-contributor https://orcid.org/0000-0002-1773-2692 relationship: located_in UBERON:0001987 ! placenta property_value: http://purl.org/dc/terms/date "2022-04-04T11:06:09Z" xsd:dateTime @@ -150322,7 +150137,7 @@ is_a: UBERON:0001982 ! capillary is_a: UBERON:0003499 ! brain blood vessel intersection_of: UBERON:0001982 ! capillary intersection_of: part_of UBERON:0000955 ! brain -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 property_value: http://purl.org/dc/terms/date "2022-06-24T09:28:31Z" xsd:dateTime [Term] @@ -150333,7 +150148,7 @@ def: "A portion of smooth muscle tissue that is part of the thoracic aorta." [ht is_a: UBERON:0004178 ! aorta smooth muscle tissue intersection_of: UBERON:0001135 ! smooth muscle tissue intersection_of: part_of UBERON:0001515 ! thoracic aorta -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:0001515 ! thoracic aorta property_value: http://purl.org/dc/terms/date "2022-06-24T09:30:54Z" xsd:dateTime @@ -150347,7 +150162,7 @@ is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0005292 ! extraembryonic tissue intersection_of: UBERON:0001986 ! endothelium intersection_of: part_of UBERON:8480007 ! placental artery -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:8480007 ! placental artery property_value: http://purl.org/dc/terms/date "2022-06-24T09:34:25Z" xsd:dateTime @@ -150360,7 +150175,7 @@ is_a: UBERON:0001637 ! artery is_a: UBERON:0022358 ! placenta blood vessel intersection_of: UBERON:0001637 ! artery intersection_of: part_of UBERON:0001987 ! placenta -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 property_value: http://purl.org/dc/terms/date "2022-06-24T11:25:24Z" xsd:dateTime [Term] @@ -150372,7 +150187,7 @@ is_a: UBERON:0001638 ! vein is_a: UBERON:0022358 ! placenta blood vessel intersection_of: UBERON:0001638 ! vein intersection_of: part_of UBERON:0001987 ! placenta -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 property_value: http://purl.org/dc/terms/date "2022-06-27T09:30:52Z" xsd:dateTime [Term] @@ -150383,7 +150198,7 @@ def: "A zone of skin that is above the clavicle zone in the pectoral girdle regi is_a: UBERON:0000014 ! zone of skin intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0001421 ! pectoral girdle region -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:0001421 ! pectoral girdle region property_value: http://purl.org/dc/terms/date "2022-08-29T14:17:12Z" xsd:dateTime @@ -150396,7 +150211,7 @@ synonym: "skin of posterior iliac crest region" BROAD [] is_a: UBERON:0001415 ! skin of pelvis intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0007830 ! pelvic girdle bone/zone -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:0007830 ! pelvic girdle bone/zone property_value: http://purl.org/dc/terms/date "2022-08-29T14:19:16Z" xsd:dateTime @@ -150409,7 +150224,7 @@ is_a: UBERON:0000014 ! zone of skin is_a: UBERON:0005156 ! reproductive structure intersection_of: UBERON:0000014 ! zone of skin intersection_of: part_of UBERON:0004176 ! external genitalia -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:0004176 ! external genitalia property_value: http://purl.org/dc/terms/date "2022-08-30T06:55:06Z" xsd:dateTime @@ -150424,10 +150239,43 @@ is_a: UBERON:0005156 ! reproductive structure is_a: UBERON:0012375 ! subserosa intersection_of: UBERON:0012375 ! subserosa intersection_of: part_of UBERON:0003889 ! fallopian tube -relationship: dc-contributor http://orcid.org/0000-0002-0819-0473 +relationship: dc-contributor https://orcid.org/0000-0002-0819-0473 relationship: part_of UBERON:0003889 ! fallopian tube property_value: http://purl.org/dc/terms/date "2022-10-21T08:55:11Z" xsd:dateTime +[Term] +id: UBERON:8600004 +name: visceral muscle tissue +namespace: uberon +def: "A muscle tissue that is associated with soft internal organs (viscera)." [BTO:0002780, CLAO:0001295] +comment: It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated. {xref="https://en.wikipedia.org/wiki/Smooth_muscle", xref="FBbt:00005070", comment="PMID:8720463"} +synonym: "visceral muscle" EXACT [] {comment="BTO:0002780"} +is_a: UBERON:0002385 ! muscle tissue +relationship: composed_primarily_of CL:0008007 ! visceral muscle cell +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +property_value: http://purl.org/dc/terms/date "2023-02-16T10:17:46Z" xsd:dateTime + +[Term] +id: UBERON:8600006 +name: visceral striated muscle tissue +namespace: uberon +def: "A striated muscle tissue that is associated with soft internal organs (viscera)." [https://pressbooks.pub/rbtallitsch/chapter/chapter-6-muscle-tissue/, PMID:8720463] +synonym: "striated visceral muscle tissue" EXACT [] +is_a: UBERON:0002036 ! striated muscle tissue +is_a: UBERON:8600004 ! visceral muscle tissue +relationship: dc-contributor https://orcid.org/0000-0001-6677-8489 +property_value: http://purl.org/dc/terms/date "2023-02-16T10:34:43Z" xsd:dateTime + +[Typedef] +id: CL:4030045 +name: lacks_part +expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y" [] + +[Typedef] +id: CL:4030046 +name: lacks_plasma_membrane_part +expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" [] + [Typedef] id: RO:0000052 name: characteristic of @@ -150553,7 +150401,7 @@ inverse_of: has_boundary ! has 2D boundary id: RO:0002006 name: has synaptic terminal of property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 is_a: overlaps ! overlaps inverse_of: RO:0002130 ! has synaptic terminal in @@ -150653,7 +150501,7 @@ id: RO:0002100 name: has soma location def: "Relation between a neuron and an anatomical structure that its soma is part of." [] property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: RO:0001900 RO:0001901 domain: CL:0000540 ! neuron is_a: overlaps ! overlaps @@ -150666,9 +150514,8 @@ name: axon synapses in def: "Relation between a neuron and some structure its axon forms (chemical) synapses in." [] property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: RO:0001900 RO:0001901 domain: CL:0000540 ! neuron is_a: RO:0002113 ! has presynaptic terminal in @@ -150681,9 +150528,9 @@ name: has plasma membrane part def: "Holds between a cell c and a protein complex or protein p if and only if that cell has as part a plasma_membrane[GO:0005886], and that plasma membrane has p as part." [] property_value: IAO:0000112 "Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814]" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Alexander Diehl" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Lindsay Cowell" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9990-8331 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0003-1617-8244 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/19243617 property_value: RO:0001900 RO:0001901 is_a: has_part ! has part @@ -150695,8 +150542,8 @@ name: has postsynaptic terminal in def: "Relation between a neuron and some structure (e.g.- a brain region) in which it receives (chemical) synaptic input. " [] property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "synapsed in" xsd:string property_value: RO:0001900 RO:0001901 domain: CL:0000540 ! neuron @@ -150718,13 +150565,26 @@ is_a: RO:0002130 ! has synaptic terminal in transitive_over: part_of ! part_of expand_expression_to: "BFO_0000051 some (GO_0042734 that BFO_0000050 some (GO_0045202 that BFO_0000050 some Y?)" [] +[Typedef] +id: RO:0002120 +name: synapsed to +def: " Relation between a neuron and an anatomical structure (including cells) that it chemically synapses to.\n " [] +comment: N1 synapsed_to some N2 \nExpands to:\nN1 SubclassOf ( \n has_part some (\n ‘pre-synaptic membrane ; GO:0042734’ that part_of some ( \n ‘synapse ; GO:0045202’ that has_part some (\n ‘post-synaptic membrane ; GO:0045211’ that part_of some N2)))) +property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 +property_value: IAO:0000114 IAO:0000125 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 +property_value: RO:0001900 RO:0001901 +is_a: RO:0002486 ! sends output to +expand_expression_to: "BFO_0000051 some (GO_0042734 that part_of some (GO_0045202 that BFO_0000051 some (GO_0045211 that BFO_0000050 some Y?)))" [] + [Typedef] id: RO:0002130 name: has synaptic terminal in def: "A general relation between a neuron and some structure in which it either chemically synapses to some target or in which it receives (chemical) synaptic input." [] property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "has synapse in" xsd:string property_value: RO:0001900 RO:0001901 domain: CL:0000540 ! neuron @@ -150739,7 +150599,7 @@ def: "A is spatially_disjoint_from B if and only if they have no parts in common subset: ro-eco property_value: editor_note "There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. " xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: IAO:0000232 "Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy" xsd:string property_value: RO:0001900 RO:0001901 @@ -150753,9 +150613,9 @@ name: develops into def: "inverse of develops from" [] subset: RO:0002259 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string -property_value: IAO:0000117 "Terry Meehan" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 +property_value: IAO:0000117 https://orcid.org/0000-0003-1980-3228 is_transitive: true is_a: has_potential_to_develop_into ! has potential to develop into is_a: RO:0002286 ! developmentally succeeded by @@ -150777,7 +150637,7 @@ comment: A relation that holds between two occurrents. This is a grouping relati subset: ro-eco property_value: http://purl.org/dc/terms/source "https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1" xsd:anyURI property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 https://en.wikipedia.org/wiki/Allen%27s_interval_algebra property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends." xsd:string domain: BFO:0000003 ! occurrent @@ -150789,7 +150649,7 @@ name: developmentally contributes to def: "inverse of has developmental contribution from" [] subset: RO:0002259 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: RO:0002203 part_of is_a: has_potential_to_developmentally_contribute_to ! has potential to developmentally contribute to is_a: RO:0002286 ! developmentally succeeded by @@ -150799,7 +150659,7 @@ id: RO:0002257 name: developmentally induces def: "Inverse of developmentally induced by" [] property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002286 ! developmentally succeeded by is_a: RO:0002386 ! has potential to developmentally induce @@ -150810,7 +150670,7 @@ def: "Candidate definition: x developmentally related to y if and only if there comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from property_value: editor_note "false" xsd:boolean property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "In general you should not use this relation to make assertions - use one of the more specific relations below this one" xsd:string domain: BFO:0000002 ! continuant range: BFO:0000002 ! continuant @@ -150843,7 +150703,7 @@ id: RO:0002286 name: developmentally succeeded by def: "Inverse of developmentally preceded by" [] property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002384 ! has developmental potential involving [Typedef] @@ -150851,7 +150711,7 @@ id: RO:0002287 name: part of developmental precursor of property_value: IAO:0000112 "'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: part_of RO:0002210 is_a: RO:0002286 ! developmentally succeeded by @@ -150860,7 +150720,7 @@ id: RO:0002314 name: characteristic of part of def: "q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w." [] property_value: editor_note "Because part_of is transitive, inheres in is a sub-relation of characteristic of part of" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "inheres in part of" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 property_value: RO:0001900 RO:0001901 @@ -150873,7 +150733,7 @@ transitive_over: part_of ! part_of id: RO:0002320 name: evolutionarily related to def: "A relationship that holds via some environmental process" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution." xsd:string [Typedef] @@ -150882,14 +150742,14 @@ name: ecologically related to def: "A relationship that is mediated in some way by the environment or environmental feature (ENVO:00002297)" [] subset: ro-eco property_value: editor_note "Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving ecological interactions" xsd:string [Typedef] id: RO:0002323 name: mereotopologically related to def: "A mereological relationship or a topological relationship" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships" xsd:string property_value: RO:0001900 RO:0001901 @@ -150897,7 +150757,7 @@ property_value: RO:0001900 RO:0001901 id: RO:0002324 name: developmentally related to def: "A relationship that holds between entities participating in some developmental process (GO:0032502)" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development" xsd:string [Typedef] @@ -150906,7 +150766,7 @@ name: enables def: "c enables p iff c is capable of p and c acts to execute p." [] subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: IAO:0000112 "a particular instances of akt-2 enables some instance of protein kinase activity" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "catalyzes" xsd:string property_value: IAO:0000118 "executes" xsd:string property_value: IAO:0000118 "has" xsd:string @@ -150922,7 +150782,7 @@ transitive_over: RO:0002017 ! has component activity id: RO:0002329 name: part of structure that is capable of def: "this relation holds between c and p when c is part of some c', and c' is capable of p." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "false" xsd:boolean holds_over_chain: part_of capable_of {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to @@ -150931,7 +150791,7 @@ is_a: functionally_related_to ! functionally related to id: RO:0002331 name: involved in def: "c involved_in p if and only if c enables some process p', and p' is part of p" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "actively involved in" xsd:string property_value: IAO:0000118 "enables part of" xsd:string property_value: seeAlso Involved:in @@ -150945,7 +150805,7 @@ id: RO:0002333 name: enabled by def: "inverse of enables" [] subset: http://purl.obolibrary.org/obo/valid_for_gocam -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: functionally_related_to ! functionally related to is_a: has_participant ! has participant @@ -150953,7 +150813,7 @@ is_a: has_participant ! has participant id: RO:0002337 name: related via localization to def: "A relationship that holds via some process of localization" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is a grouping relation." xsd:string domain: BFO:0000015 ! process range: BFO:0000002 ! continuant @@ -150973,7 +150833,7 @@ inverse_of: has_member ! has member [Typedef] id: RO:0002354 name: formed as result of -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: output_of ! output of [Typedef] @@ -150981,7 +150841,7 @@ id: RO:0002375 name: in branching relationship with def: "A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network." [] property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships" xsd:string property_value: IAO:0000232 "This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves)" xsd:string property_value: RO:0004036 BFO:0000050 @@ -150996,7 +150856,7 @@ id: RO:0002379 name: spatially coextensive with def: "x spatially_coextensive_with y if and inly if x and y have the same location" [] property_value: IAO:0000112 "A lump of clay and a statue" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "This relation is added for formal completeness. It is unlikely to be used in many practical scenarios" xsd:string is_a: overlaps ! overlaps @@ -151005,7 +150865,7 @@ id: RO:0002384 name: has developmental potential involving def: "x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction)." [] property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002324 ! developmentally related to [Typedef] @@ -151013,7 +150873,7 @@ id: RO:0002386 name: has potential to developmentally induce def: "x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y" [] property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002384 ! has developmental potential involving [Typedef] @@ -151021,14 +150881,14 @@ id: RO:0002388 name: has potential to directly develop into def: "x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y" [] property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: has_potential_to_develop_into ! has potential to develop into [Typedef] id: RO:0002407 name: indirectly positively regulates def: "p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "indirectly activates" xsd:string property_value: RO:0002579 RO:0002213 holds_over_chain: directly_positively_regulates directly_positively_regulates @@ -151043,7 +150903,7 @@ transitive_over: directly_positively_regulates ! directly positively regulates id: RO:0002409 name: indirectly negatively regulates def: "p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "indirectly inhibits" xsd:string property_value: RO:0002579 RO:0002212 holds_over_chain: directly_negatively_regulates directly_negatively_regulates @@ -151058,14 +150918,14 @@ id: RO:0002410 name: causally related to def: "relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause." [https://en.wikipedia.org/wiki/Causality] property_value: editor_note "This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents.\n\nTo define causal relations in an activity-flow type network, we make use of 3 primitives:\n\n * Temporal: how do the intervals of the two occurrents relate? \n * Is the causal relation regulatory?\n * Is the influence positive or negative?\n\nThe first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified.\n\nFor the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule.\n\nFor the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral.\n\nEach of these 3 primitives can be composed to yield a cross-product of different relation types." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string [Typedef] id: RO:0002428 name: involved in regulation of def: "c involved in regulation of p if c is involved in some p' and p' regulates some p" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: RO:0002327 regulates holds_over_chain: RO:0002331 regulates is_a: RO:0002263 ! acts upstream of @@ -151075,7 +150935,7 @@ is_a: RO:0002431 ! involved in or involved in regulation of id: RO:0002429 name: involved in positive regulation of def: "c involved in regulation of p if c is involved in some p' and p' positively regulates some p" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002428 holds_over_chain: RO:0002327 positively_regulates holds_over_chain: RO:0002331 positively_regulates @@ -151085,7 +150945,7 @@ is_a: RO:0002428 ! involved in regulation of id: RO:0002430 name: involved in negative regulation of def: "c involved in regulation of p if c is involved in some p' and p' negatively regulates some p" [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002428 holds_over_chain: RO:0002327 negatively_regulates holds_over_chain: RO:0002331 negatively_regulates @@ -151096,7 +150956,7 @@ id: RO:0002431 name: involved in or involved in regulation of def: "c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p" [] property_value: editor_note "OWL does not allow defining object properties via a Union" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "involved in or reguates" xsd:string is_a: functionally_related_to ! functionally related to is_a: RO:0002264 ! acts upstream of or within @@ -151108,7 +150968,7 @@ name: is active in def: "c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure." [GOC:cjm, GOC:dos] synonym: "enables activity in" EXACT [] property_value: IAO:0000112 "A protein that enables activity in a cytosol." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "executes activity in" xsd:string holds_over_chain: RO:0002327 occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} is_a: functionally_related_to ! functionally related to @@ -151123,7 +150983,7 @@ synonym: "in pairwise interaction with" EXACT [] property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0914" xsd:anyURI property_value: editor_note "Considering relabeling as 'pairwise interacts with'" xsd:anyURI property_value: editor_note "This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules." xsd:string property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI domain: BFO:0000040 ! material entity @@ -151135,7 +150995,7 @@ id: RO:0002436 name: molecularly interacts with def: "An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other." [] property_value: closeMatch "http://purl.obolibrary.org/obo/MI_0915" xsd:anyURI -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "binds" xsd:string property_value: IAO:0000118 "molecularly binds with" xsd:string property_value: seeAlso ECO:0000353 @@ -151146,7 +151006,7 @@ is_a: RO:0002434 ! interacts with id: RO:0002447 name: phosphorylates property_value: editor_note "Axiomatization to GO to be added later" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y." xsd:string is_a: RO:0002436 ! molecularly interacts with @@ -151155,8 +151015,8 @@ id: RO:0002448 name: directly regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B.\n\nA and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B." [] synonym: "molecularly controls" EXACT [] -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Vasundra Touré" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002436 ! molecularly interacts with @@ -151167,8 +151027,8 @@ id: RO:0002449 name: directly negatively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B." [] synonym: "molecularly decreases activity of" EXACT [] -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Vasundra Touré" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000118 "directly inhibits" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity @@ -151179,8 +151039,8 @@ id: RO:0002450 name: directly positively regulates activity of def: "The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. \nFor example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B." [] synonym: "molecularly increases activity of" EXACT [] -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Vasundra Touré" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000118 "directly activates" xsd:string domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity @@ -151189,7 +151049,7 @@ is_a: RO:0002448 ! directly regulates activity of [Typedef] id: RO:0002464 name: helper property (not for use in curation) -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning." xsd:string [Typedef] @@ -151197,7 +151057,7 @@ id: RO:0002479 name: has part that occurs in def: "p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c." [] subset: ro-eco -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 domain: BFO:0000003 ! occurrent range: BFO:0000004 ! independent continuant holds_over_chain: has_part occurs_in {http://purl.obolibrary.org/obo/RO_0002581="true"} @@ -151205,13 +151065,28 @@ holds_over_chain: has_part occurs_in {http://purl.obolibrary.org/obo/RO_0002581= [Typedef] id: RO:0002481 name: is kinase activity -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002564 ! molecular interaction relation helper property +[Typedef] +id: RO:0002485 +name: receives input from +property_value: editor_note "See notes for inverse relation" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +is_a: connected_to ! connected to +inverse_of: RO:0002486 ! sends output to + +[Typedef] +id: RO:0002486 +name: sends output to +property_value: editor_note "This is an exploratory relation. The label is taken from the FMA. It needs aligned with the neuron-specific relations such as has postsynaptic terminal in." xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +is_a: connected_to ! connected to + [Typedef] id: RO:0002487 name: relation between physical entity and a process or stage -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage." xsd:string domain: BFO:0000004 ! independent continuant range: BFO:0000003 ! occurrent @@ -151221,7 +151096,7 @@ id: RO:0002490 name: existence overlaps def: "x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))" [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002487 ! relation between physical entity and a process or stage [Typedef] @@ -151236,7 +151111,7 @@ inverse_of: process_has_causal_agent ! process has causal agent id: RO:0002501 name: causal relation between processes def: "p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string domain: BFO:0000003 ! occurrent @@ -151246,7 +151121,7 @@ is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002502 name: depends on -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso BFO:0000169 [Typedef] @@ -151254,7 +151129,7 @@ id: RO:0002503 name: towards def: "q towards e2 if and only if q is a relational quality such that q inheres-in some e, and e != e2 and q is dependent on e2" [] property_value: editor_note "This relation is provided in order to support the use of relational qualities such as 'concentration of'; for example, the concentration of C in V is a quality that inheres in V, but pertains to C." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20064205 is_a: RO:0002502 ! depends on @@ -151262,7 +151137,7 @@ is_a: RO:0002502 ! depends on id: RO:0002506 name: causal relation between entities property_value: editor_note "The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string domain: BFO:0000002 ! continuant @@ -151272,7 +151147,7 @@ is_a: RO:0002410 ! causally related to [Typedef] id: RO:0002559 name: causally influenced by -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influenced by (entity-centric)" xsd:string is_a: RO:0002506 ! causal relation between entities @@ -151281,7 +151156,7 @@ inverse_of: RO:0002566 ! causally influences [Typedef] id: RO:0002563 name: interaction relation helper property -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso http://ontologydesignpatterns.org/wiki/Submissions:N-Ary_Relation_Pattern_%28OWL_2%29 property_value: seeAlso "http://purl.obolibrary.org/obo/ro/docs/interaction-relations/" xsd:anyURI is_a: RO:0002464 ! helper property (not for use in curation) @@ -151289,15 +151164,15 @@ is_a: RO:0002464 ! helper property (not for use in curation) [Typedef] id: RO:0002564 name: molecular interaction relation helper property -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002563 ! interaction relation helper property [Typedef] id: RO:0002566 name: causally influences def: "The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size)." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Vasundra Touré" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "causally influences (entity-centric)" xsd:string domain: BFO:0000002 ! continuant @@ -151308,7 +151183,7 @@ is_a: RO:0002506 ! causal relation between entities id: RO:0002567 name: biomechanically related to def: "A relation that holds between elements of a musculoskeletal system or its analogs." [] -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes." xsd:string is_a: functionally_related_to ! functionally related to @@ -151317,7 +151192,7 @@ id: RO:0002584 name: has part structure that is capable of def: "s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p" [] property_value: IAO:0000112 "gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: has_part capable_of is_a: functionally_related_to ! functionally related to is_a: RO:0002595 ! causal relation between material entity and a process @@ -151333,7 +151208,7 @@ id: RO:0002595 name: causal relation between material entity and a process def: "A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity." [] property_value: editor_note "Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations domain: BFO:0000040 ! material entity range: BFO:0000015 ! process @@ -151377,7 +151252,7 @@ name: enables subfunction def: "Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P." [] holds_over_chain: RO:0002327 has_part is_a: functionally_related_to ! functionally related to -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-25T23:20:13Z [Typedef] @@ -151388,7 +151263,7 @@ property_value: RO:0004049 RO:0002264 property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of_or_within,_positive_effect holds_over_chain: RO:0002327 RO:0004047 is_a: RO:0002264 ! acts upstream of or within -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:49:30Z [Typedef] @@ -151398,7 +151273,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_gp2term property_value: RO:0004050 RO:0002264 holds_over_chain: RO:0002327 RO:0004046 is_a: RO:0002264 ! acts upstream of or within -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:49:51Z [Typedef] @@ -151411,7 +151286,7 @@ property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of, holds_over_chain: RO:0002327 causally_upstream_of,_positive_effect is_a: RO:0002263 ! acts upstream of is_a: RO:0004032 ! acts upstream of or within, positive effect -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:53:14Z [Typedef] @@ -151424,7 +151299,7 @@ property_value: seeAlso http://wiki.geneontology.org/index.php/Acts_upstream_of, holds_over_chain: RO:0002327 causally_upstream_of,_negative_effect is_a: RO:0002263 ! acts upstream of is_a: RO:0004033 ! acts upstream of or within, negative effect -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-01-26T23:53:22Z [Typedef] @@ -151432,7 +151307,7 @@ id: RO:0004046 name: causally upstream of or within, negative effect property_value: RO:0004050 RO:0002418 is_a: causally_upstream_of_or_within ! causally upstream of or within -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:05Z [Typedef] @@ -151440,14 +151315,14 @@ id: RO:0004047 name: causally upstream of or within, positive effect property_value: RO:0004049 RO:0002418 is_a: causally_upstream_of_or_within ! causally upstream of or within -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-03-13T23:55:19Z [Typedef] id: RO:0011002 name: regulates activity of def: "The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B." [] -property_value: IAO:0000117 "Vasundra Touré" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0003-4639-4431 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity is_a: RO:0002566 ! causally influences @@ -151541,8 +151416,8 @@ name: device utilizes material def: "X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y." [] synonym: "utilizes" BROAD [] property_value: IAO:0000112 "A diagnostic testing device utilizes a specimen." xsd:string -property_value: IAO:0000117 "https://orcid.org/0000-0001-9625-1899" xsd:string -property_value: IAO:0000117 "https://orcid.org/0000-0003-2620-0345" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9625-1899 +property_value: IAO:0000117 https://orcid.org/0000-0003-2620-0345 property_value: IAO:0000232 "A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input." xsd:string property_value: IAO:0000232 "See github ticket https://github.com/oborel/obo-relations/issues/497" xsd:string holds_over_chain: capable_of has_input @@ -151577,7 +151452,7 @@ property_value: IAO:0000112 "The epidermis layer of a vertebrate is adjacent to property_value: IAO:0000112 "The plasma membrane of a cell is adjacent to the cytoplasm, and also to the cell lumen which the cytoplasm occupies." xsd:string property_value: IAO:0000112 "The skin of the forelimb is adjacent to the skin of the torso if these are considered anatomical subdivisions with a defined border. Otherwise a relation such as continuous_with would be used." xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0001900 RO:0001901 domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant @@ -151605,7 +151480,7 @@ namespace: uberon def: "a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a" [] subset: ro-eco xref: RO:0002371 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000589 "attached to (anatomical structure to anatomical structure)" xsd:string is_symmetric: true is_a: attaches_to_part_of ! attached to part of @@ -151648,7 +151523,7 @@ def: "X outer_layer_of Y iff:\n. X :continuant that bearer_of some PATO:laminar\ comment: A relationship that applies between a continuant and its outer, bounding layer. Examples include the relationship between a multicellular organism and its integument, between an animal cell and its plasma membrane, and between a membrane bound organelle and its outer/bounding membrane. subset: ro-eco xref: RO:0002007 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 range: BFO:0000040 ! material entity is_a: part_of ! part_of @@ -151660,7 +151535,7 @@ def: "x is a branching part of y if and only if x is part of y and x is connecte subset: ro-eco xref: RO:0002380 property_value: IAO:0000112 "In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso "FMA:85994" xsd:string property_value: seeAlso https://github.com/obophenotype/uberon/issues/2212 is_a: part_of ! part_of @@ -151677,7 +151552,7 @@ subset: ro-eco xref: RO:0002215 property_value: IAO:0000112 "mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)" xsd:string property_value: IAO:0000112 "osteoclast SubClassOf 'capable of' some 'bone resorption'" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "has function realized in" xsd:string property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20123131 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/21208450 @@ -151693,7 +151568,7 @@ namespace: external namespace: uberon def: "c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p." [] xref: RO:0002216 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "has function in" xsd:string property_value: seeAlso http://purl.obolibrary.org/obo/ro/docs/reflexivity/ holds_over_chain: capable_of part_of {http://purl.obolibrary.org/obo/RO_0002582="true"} @@ -151707,7 +151582,7 @@ namespace: external def: "inverse of upstream of" [] xref: RO:0002404 property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: causally_downstream_of_or_within ! causally downstream of or within is_a: preceded_by ! preceded by inverse_of: causally_upstream_of ! causally upstream of @@ -151719,7 +151594,7 @@ namespace: external def: "inverse of causally upstream of or within" [] subset: RO:0002259 xref: RO:0002427 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations is_transitive: true is_a: RO:0002501 ! causal relation between processes @@ -151732,7 +151607,7 @@ def: "p is causally upstream of q iff p is causally related to q, the end of p p subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002411 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_transitive: true is_a: causally_upstream_of_or_within ! causally upstream of or within is_a: precedes ! precedes @@ -151745,7 +151620,7 @@ def: "p is causally upstream of, negative effect q iff p is casually upstream of subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002305 -property_value: http://purl.org/dc/terms/creator "cjm" xsd:string +property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004050 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: RO:0004046 ! causally upstream of or within, negative effect @@ -151759,7 +151634,7 @@ comment: holds between x and y if and only if x is causally upstream of y and th subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002304 -property_value: http://purl.org/dc/terms/creator "cjm" xsd:string +property_value: http://purl.org/dc/terms/creator https://orcid.org/0000-0002-6601-2165 property_value: RO:0004049 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: RO:0004047 ! causally upstream of or within, positive effect @@ -151772,7 +151647,7 @@ def: "p is 'causally upstream or within' q iff p is causally related to q, and t synonym: "affects" RELATED [] xref: RO:0002418 property_value: editor_note "We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "influences (processual)" xsd:string is_transitive: true is_a: RO:0002501 ! causal relation between processes @@ -151806,7 +151681,7 @@ def: "x composed_primarily_of y if and only if more than half of the mass of x i subset: ro-eco xref: RO:0002473 property_value: IAO:0000112 "'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/22293552 property_value: RO:0001900 RO:0001901 domain: BFO:0000040 ! material entity @@ -151817,7 +151692,15 @@ is_a: has_part ! has part id: conduit_for name: conduit for namespace: uberon -def: "x is a conduit for y iff y passes through the lumen of x." [] +def: "x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x." [] +subset: ro-eco +xref: RO:0002570 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000119 "UBERON:cjm" xsd:string +property_value: IAO:0000232 "This relation holds between a thing with a 'conduit' (e.g. a bone foramen) and a 'conduee' (for example, a nerve) such that at the time the relationship holds, the conduee has two ends sticking out either end of the conduit. It should therefore note be used for objects that move through the conduit but whose spatial extent does not span the passage. For example, it would not be used for a mountain that contains a long tunnel through which trains pass. Nor would we use it for a digestive tract and objects such as food that pass through." xsd:string +domain: BFO:0000040 ! material entity +range: BFO:0000040 ! material entity +is_a: overlaps ! overlaps [Typedef] id: confers_advantage_in @@ -151826,7 +151709,7 @@ namespace: uberon subset: ro-eco xref: RO:0002322 property_value: editor_note "An experimental relation currently used to connect a feature possessed by an organism (e.g. anatomical structure, biological process, phenotype or quality) to a habitat or environment in which that feature is well suited, adapted or provides a reproductive advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "adapted for" xsd:string range: ENVO:01000254 is_a: RO:0002321 ! ecologically related to @@ -151883,7 +151766,7 @@ namespace: uberon def: "X continuous_with Y if and only if X and Y share a fiat boundary." [] xref: RO:0002150 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "connected to" xsd:string property_value: IAO:0000232 "The label for this relation was previously connected to. I relabeled this to \"continuous with\". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint)" xsd:string property_value: RO:0001900 RO:0001901 @@ -151899,7 +151782,7 @@ name: contributes to morphology of namespace: uberon def: "p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm." [] xref: RO:0002433 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: overlaps ! overlaps [Typedef] @@ -151968,9 +151851,9 @@ namespace: uberon def: "t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor material anatomical entity type T to T', where T' develops_from T" [] xref: RO:0002256 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string -property_value: IAO:0000117 "Melissa Haendel" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9114-8737 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "induced by" xsd:string property_value: IAO:0000119 " Developmental Biology, Gilbert, 8th edition, figure 6.5(F)" xsd:string property_value: IAO:0000119 "GO:0001759" xsd:string @@ -151987,7 +151870,7 @@ def: "x developmentally replaces y if and only if there is some developmental pr xref: RO:0002285 property_value: editor_note "This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "replaces" xsd:string is_a: RO:0002258 ! developmentally preceded by @@ -151999,10 +151882,10 @@ def: "x develops from y if and only if either (a) x directly develops from y or comment: This is the transitive form of the develops from relation xref: RO:0002202 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string -property_value: IAO:0000117 "Melissa Haendel" xsd:string -property_value: IAO:0000117 "Terry Meehan" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9114-8737 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 +property_value: IAO:0000117 https://orcid.org/0000-0003-1980-3228 domain: BFO:0000004 ! independent continuant range: BFO:0000004 ! independent continuant is_transitive: true @@ -152017,7 +151900,7 @@ namespace: uberon def: "x develops from part of y if and only if there exists some z such that x develops from z and z is part of y" [] xref: RO:0002225 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: directly_develops_from part_of is_a: develops_from ! develops from @@ -152028,7 +151911,7 @@ namespace: uberon def: "x develops_in y if x is located in y whilst x is developing" [] xref: RO:0002226 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "EHDAA2" xsd:string property_value: IAO:0000119 "Jonathan Bard, EHDAA2" xsd:string holds_over_chain: directly_develops_from located_in @@ -152059,11 +151942,11 @@ name: directly develops from namespace: uberon def: "Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y." [] comment: TODO - add child relations from DOS +synonym: "has developmental precursor" EXACT [] xref: RO:0002207 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string -property_value: IAO:0000117 "has developmental precursor" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000119 "FBbt" xsd:string property_value: RO:0002575 RO:0002202 is_a: develops_from ! develops from @@ -152108,7 +151991,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002578 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "directly regulates (processual)" xsd:string property_value: RO:0002575 RO:0002211 @@ -152170,6 +152053,7 @@ subset: ro-eco xref: RO:0002229 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: part_of ! part_of is_a: RO:0002222 ! temporally related to inverse_of: ends_with ! ends with @@ -152184,6 +152068,7 @@ subset: ro-eco xref: RO:0002230 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "finished by" xsd:string is_transitive: true is_a: has_part ! has part @@ -152198,7 +152083,7 @@ def: "x existence ends during y if and only if the time point at which x ends is comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. synonym: "ceases_to_exist_during" EXACT [] xref: RO:0002492 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: existence_ends_during_or_before ! existence ends during or before is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of @@ -152210,7 +152095,7 @@ namespace: uberon def: "x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002497 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: part_of existence_ends_during_or_before holds_over_chain: RO:0002286 existence_ends_during_or_before is_a: RO:0002487 ! relation between physical entity and a process or stage @@ -152225,7 +152110,7 @@ namespace: uberon def: "x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002493 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: existence_ends_during ! existence ends during [Typedef] @@ -152236,7 +152121,7 @@ def: "x exists during y if and only if: 1) the time point at which x begins to e comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. synonym: "exists during" EXACT [] xref: RO:0002491 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: existence_ends_during ! existence ends during is_a: existence_starts_during ! existence starts during @@ -152246,7 +152131,7 @@ name: existence starts during namespace: uberon def: "x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y)." [] xref: RO:0002488 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: existence_starts_during_or_after ! existence starts during or after is_a: RO:0002490 ! existence overlaps transitive_over: part_of ! part_of @@ -152258,7 +152143,7 @@ namespace: uberon def: "x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y)." [] comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. xref: RO:0002496 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: part_of existence_starts_during_or_after holds_over_chain: RO:0002258 existence_starts_during_or_after is_a: RO:0002487 ! relation between physical entity and a process or stage @@ -152272,7 +152157,7 @@ name: existence starts with namespace: uberon def: "x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y)." [] xref: RO:0002489 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: existence_starts_during ! existence starts during [Typedef] @@ -152296,7 +152181,7 @@ name: functionally related to namespace: uberon def: "A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities." [] xref: RO:0002328 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "This is a grouping relation that collects relations used for the purpose of connecting structure and function" xsd:string [Typedef] @@ -152308,7 +152193,7 @@ xref: RO:0002002 property_value: editor_note "A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts." xsd:string property_value: editor_note "Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape." xsd:string property_value: IAO:0000112 "my body has 2D boundary the surface of my skin" xsd:string -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "has boundary" xsd:string property_value: IAO:0000118 "has_2D_boundary" xsd:string property_value: RO:0001900 RO:0001901 @@ -152324,7 +152209,7 @@ def: "inverse of branching part of" [] subset: ro-eco subset: RO:0002259 xref: RO:0002569 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_transitive: true is_a: has_part ! has part is_a: RO:0002375 ! in branching relationship with @@ -152360,7 +152245,7 @@ def: "x has developmental contribution from y iff x has some part z such that z xref: RO:0002254 property_value: IAO:0000112 "Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 holds_over_chain: has_part develops_from is_a: RO:0002258 ! developmentally preceded by inverse_of: RO:0002255 ! developmentally contributes to @@ -152397,7 +152282,7 @@ def: "x 'has end location' y if and only if there exists some process z such tha subset: ro-eco xref: RO:0002232 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "ends with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant @@ -152415,7 +152300,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002233 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "consumes" xsd:string domain: BFO:0000015 ! process holds_over_chain: starts_with has_input @@ -152438,7 +152323,7 @@ name: has muscle antagonist namespace: uberon def: "m1 has_muscle_antagonist m2 iff m1 has_muscle_insertion s, m2 has_muscle_insection s, m1 acts in opposition to m2, and m2 is responsible for returning the structure to its initial position." [] xref: RO:0002568 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "Wikipedia:Antagonist_(muscle)" xsd:string is_a: RO:0002567 ! biomechanically related to @@ -152448,7 +152333,7 @@ name: has muscle insertion namespace: uberon def: "m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone." [] xref: RO:0002373 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "Wikipedia:Insertion_(anatomy)" xsd:string property_value: seeAlso http://dbpedia.org/property/insertion is_a: attaches_to ! attached to @@ -152460,7 +152345,7 @@ name: has muscle origin namespace: uberon def: "m has_muscle_origin s iff m is attached_to s, and it is the case that when m contracts, s does not move. The site of the origin tends to be more proximal and have greater mass than what the other end attaches to." [] xref: RO:0002372 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "Wikipedia:Insertion_(anatomy)" xsd:string property_value: seeAlso http://dbpedia.org/property/origin is_a: attaches_to ! attached to @@ -152497,7 +152382,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam subset: ro-eco xref: RO:0002234 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "produces" xsd:string holds_over_chain: ends_with has_output is_a: has_participant ! has participant @@ -152550,7 +152435,7 @@ namespace: uberon def: "x has the potential to develop into y iff x develops into y or if x is capable of developing into y" [] xref: RO:0002387 property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002384 ! has developmental potential involving [Typedef] @@ -152560,7 +152445,7 @@ namespace: uberon def: "x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y" [] xref: RO:0002385 property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002384 ! has developmental potential involving [Typedef] @@ -152572,7 +152457,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0004009 is_a: has_input ! has input is_a: has_primary_input_or_output ! has primary input or output -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:56Z [Typedef] @@ -152583,7 +152468,7 @@ def: "p 'has primary input ot output' c iff either (a) p 'has primary input' c o subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0004007 is_a: has_participant ! has participant -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:17Z [Typedef] @@ -152595,7 +152480,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0004008 is_a: has_output ! has output is_a: has_primary_input_or_output ! has primary input or output -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-12-13T11:26:32Z [Typedef] @@ -152641,7 +152526,7 @@ namespace: uberon def: "A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision." [] xref: RO:0002551 property_value: IAO:0000112 "Forelimb SubClassOf has_skeleton some 'Forelimb skeleton'" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "has supporting framework" xsd:string property_value: IAO:0000232 "The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell)." xsd:string domain: UBERON:0000475 ! organism subdivision @@ -152658,7 +152543,7 @@ def: "x 'has starts location' y if and only if there exists some process z such subset: ro-eco xref: RO:0002231 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "starts with process that occurs in" xsd:string domain: BFO:0000015 ! process range: BFO:0000004 ! independent continuant @@ -152674,7 +152559,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002339 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part_of @@ -152687,7 +152572,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002338 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: results_in_transport_to_from_or_in ! results in transport to from or in transitive_over: part_of ! part_of @@ -152697,7 +152582,7 @@ name: immediate transformation of namespace: uberon def: "x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t" [] xref: RO:0002495 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0002575 RO:0002494 is_a: directly_develops_from ! directly develops from is_a: transformation_of ! transformation of @@ -152708,7 +152593,7 @@ name: immediately causally downstream of namespace: external xref: RO:0002405 property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: causally_downstream_of ! causally downstream of is_a: immediately_preceded_by ! immediately preceded by inverse_of: immediately_causally_upstream_of ! immediately causally upstream of @@ -152719,7 +152604,7 @@ name: immediately causally upstream of namespace: external def: "p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q." [] xref: RO:0002412 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0002575 RO:0002411 is_a: causally_upstream_of ! causally upstream of is_a: immediately_precedes ! immediately precedes @@ -152751,6 +152636,7 @@ comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y) subset: ro-eco xref: RO:0002090 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: IAO:0000118 "ends_at_start_of" xsd:string property_value: IAO:0000118 "meets" xsd:string property_value: RO:0002575 BFO:0000063 @@ -152796,8 +152682,8 @@ comment: Connects a biological entity to its taxon of origin. subset: ro-eco xref: RO:0002162 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "Jennifer Deegan" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9227-417X +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/17921072 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20973947 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints @@ -152851,7 +152737,7 @@ name: innervated_by namespace: uberon xref: RO:0002005 property_value: http://purl.org/spar/cito/citesAsAuthority "http://www.ncbi.nlm.nih.gov/pubmed/22402613" xsd:anyURI -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 inverse_of: innervates ! innervates transitive_over: branching_part_of ! branching part of @@ -152863,7 +152749,7 @@ def: "Relation between a 'neuron projection bundle' and a region in which one or xref: RO:0002134 property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 property_value: RO:0001900 RO:0001901 transitive_over: part_of ! part_of expand_expression_to: "RO_0002132 some (GO_0043005 that (RO_0002131 some (GO_0045202 that BFO_0000050 some Y?)))" [] @@ -152876,7 +152762,7 @@ def: "inverse of has input" [] subset: ro-eco subset: RO:0002259 xref: RO:0002352 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: functionally_related_to ! functionally related to is_a: participates_in ! participates in @@ -152921,16 +152807,6 @@ namespace: pato.ontology comment: refer to https://github.com/pato-ontology/pato/issues/454 for obsoletion reason. is_obsolete: true -[Typedef] -id: lacks_part -name: lacks_part -expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y" [] - -[Typedef] -id: lacks_plasma_membrane_part -name: lacks_plasma_membrane_part -expand_expression_to: "http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y)" [] - [Typedef] id: located_in name: located in @@ -152973,7 +152849,7 @@ namespace: uberon def: "x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull." [] subset: ro-eco xref: RO:0002571 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GOC:cjm" xsd:string range: BFO:0000040 ! material entity is_a: part_of ! part_of @@ -152985,7 +152861,7 @@ namespace: uberon def: "s is luminal space of x iff s is lumen_of x and s is an immaterial entity" [] subset: ro-eco xref: RO:0002572 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 domain: BFO:0000141 ! immaterial entity is_a: lumen_of ! lumen of @@ -152996,7 +152872,7 @@ namespace: external def: "inverse of negatively regulates" [] subset: RO:0002259 xref: RO:0002335 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: regulated_by ! regulated by [Typedef] @@ -153008,7 +152884,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002212 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "negatively regulates (process to process)" xsd:string property_value: RO:0004050 RO:0002211 @@ -153058,7 +152934,7 @@ xref: RO:0002160 property_value: editor_note "The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g.\n\n 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria" xsd:string property_value: IAO:0000112 "lactation SubClassOf 'only in taxon' some 'Mammalia'" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/17921072 property_value: IAO:0000119 http://www.ncbi.nlm.nih.gov/pubmed/20973947 property_value: seeAlso https://github.com/obophenotype/uberon/wiki/Taxon-constraints @@ -153073,7 +152949,7 @@ def: "inverse of has output" [] subset: ro-eco subset: RO:0002259 xref: RO:0002353 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: functionally_related_to ! functionally related to is_a: participates_in ! participates in @@ -153155,7 +153031,7 @@ namespace: external def: "inverse of positively regulates" [] subset: RO:0002259 xref: RO:0002336 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: regulated_by ! regulated by [Typedef] @@ -153167,7 +153043,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002213 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "positively regulates (process to process)" xsd:string property_value: RO:0004049 RO:0002211 @@ -153255,7 +153131,7 @@ def: "a produced_by b iff some process that occurs_in b has_output a." [] subset: ro-eco xref: RO:0003001 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Melissa Haendel" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9114-8737 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity @@ -153269,7 +153145,7 @@ comment: Note that this definition doesn't quite distinguish the output of a tra subset: ro-eco xref: RO:0003000 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Melissa Haendel" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-9114-8737 domain: BFO:0000040 ! material entity range: BFO:0000040 ! material entity inverse_of: produced_by ! produced by @@ -153322,7 +153198,7 @@ namespace: external def: "inverse of regulates" [] subset: RO:0002259 xref: RO:0002334 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000589 "regulated by (processual)" xsd:string domain: BFO:0000015 ! process range: BFO:0000015 ! process @@ -153338,9 +153214,9 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002211 -property_value: IAO:0000117 "Chris Mungall" xsd:string -property_value: IAO:0000117 "David Hill" xsd:string -property_value: IAO:0000117 "Tanya Berardini" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0001-7476-6306 +property_value: IAO:0000117 https://orcid.org/0000-0002-3837-8864 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GO" xsd:string property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000232 "Regulation precludes parthood; the regulatory process may not be within the regulated process." xsd:string @@ -153374,7 +153250,7 @@ namespace: external def: "p regulates levels of c if p regulates some amount (PATO:0000070) of c" [] xref: RO:0002332 property_value: IAO:0000112 "every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 http://purl.obolibrary.org/obo/ro/docs/causal-relations property_value: IAO:0000589 "regulates levels of (process to entity)" xsd:string domain: BFO:0000015 ! process @@ -153391,7 +153267,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002315 property_value: IAO:0000112 "an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast." xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GOC:mtg_berkeley_2013" xsd:string is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153414,7 +153290,7 @@ namespace: external def: "p has anatomical participant c iff p has participant c, and c is an anatomical entity" [] xref: RO:0040036 is_a: has_participant ! has participant -created_by: cjm +created_by: https://orcid.org/0000-0002-6601-2165 creation_date: 2018-09-26T01:08:58Z [Typedef] @@ -153428,7 +153304,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002296 property_value: IAO:0000112 "every flower development (GO:0009908) results in development of some flower (PO:0009046)" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "http://www.geneontology.org/GO.doc.development.shtml" xsd:anyURI is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153441,7 +153317,7 @@ def: "p results in the developmental progression of s iff p is a developmental p xref: RO:0002295 property_value: editor_note "This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint." xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: seeAlso Ontology:extensions domain: GO:0008150 ! biological_process is_a: RO:0002324 ! developmentally related to @@ -153480,7 +153356,7 @@ xref: RO:0002297 property_value: IAO:0000112 "an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists." xsd:string property_value: IAO:0000112 "every \"endocardial cushion formation\" (GO:0003272) results_in_formation_of some \"endocardial cushion\" (UBERON:0002062)" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GOC:mtg_berkeley_2013" xsd:string is_a: has_output ! has output is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153504,7 +153380,7 @@ name: results in growth of namespace: external xref: RO:0002343 property_value: IAO:0000112 "'pollen tube growth' results_in growth_of some 'pollen tube'" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153520,7 +153396,7 @@ xref: RO:0002299 property_value: IAO:0000112 " an annotation of gene X to cell maturation with results_in_maturation_of CL:0000057 (fibroblast) means that the fibroblast is mature at the end of the process" xsd:string property_value: IAO:0000112 "bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474)" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GOC:mtg_berkeley_2013" xsd:string is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153537,7 +153413,7 @@ xref: RO:0002298 property_value: IAO:0000112 "an annotation of gene X to cell morphogenesis with results_in_morphogenesis_of CL:0000540 (neuron) means that at the end of the process an input neuron has attained its shape." xsd:string property_value: IAO:0000112 "tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723)" xsd:string property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "GOC:mtg_berkeley_2013" xsd:string is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure is_a: results_in_developmental_progression_of ! results in developmental progression of @@ -153551,7 +153427,7 @@ subset: http://purl.obolibrary.org/obo/valid_for_go_annotation_extension subset: http://purl.obolibrary.org/obo/valid_for_go_ontology subset: http://purl.obolibrary.org/obo/valid_for_gocam xref: RO:0002565 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000232 "" xsd:string is_a: results_in_changes_to_anatomical_or_cellular_structure ! results in changes to anatomical or cellular structure @@ -153571,7 +153447,7 @@ namespace: external def: "Holds between p and m when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that crosses m." [] subset: http://purl.obolibrary.org/obo/valid_for_go_ontology xref: RO:0002342 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: results_in_transport_to_from_or_in ! results in transport to from or in is_a: RO:0002021 ! occurs across @@ -153581,7 +153457,7 @@ name: results in transport along namespace: external def: "Holds between p and l when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that is aligned_with l " [] xref: RO:0002341 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002337 ! related via localization to [Typedef] @@ -153590,7 +153466,7 @@ name: results in transport to from or in namespace: external xref: RO:0002344 property_value: IAO:0000112 "'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739)" xsd:string -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: RO:0002337 ! related via localization to [Typedef] @@ -153611,10 +153487,9 @@ comment: t1 simultaneous_with t2 iff:= t1 before_or_simultaneous_with t2 and n subset: ro-eco xref: RO:0002082 property_value: IAO:0000117 "David Osumi-Sutherland" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 is_transitive: true -is_a: ends ! ends is_a: RO:0002081 ! before or simultaneous with -is_a: starts ! starts [Typedef] id: singly_occurring_form_of @@ -153637,7 +153512,7 @@ namespace: uberon def: "inverse of has skeleton" [] subset: RO:0002259 xref: RO:0002576 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_a: part_of ! part_of [Typedef] @@ -153649,6 +153524,7 @@ subset: ro-eco xref: RO:0002223 property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000119 "Allen" xsd:string is_a: part_of ! part_of is_a: RO:0002222 ! temporally related to @@ -153665,6 +153541,7 @@ xref: RO:0002224 property_value: IAO:0000112 "Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor" xsd:string property_value: IAO:0000114 IAO:0000125 property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "started by" xsd:string is_transitive: true is_a: has_part ! has part @@ -153700,7 +153577,7 @@ namespace: uberon def: "x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x" [] xref: RO:0002219 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent to inverse_of: surrounds ! surrounds @@ -153713,7 +153590,7 @@ def: "inverse of surrounded by" [] subset: RO:0002259 xref: RO:0002221 property_value: IAO:0000114 IAO:0000125 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: RO:0001900 RO:0001901 is_a: adjacent_to ! adjacent to @@ -153721,7 +153598,16 @@ is_a: adjacent_to ! adjacent to id: synapsed_by name: synapsed by namespace: uberon -def: "Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it." [] +def: "Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. " [] +xref: RO:0002103 +property_value: http://purl.org/spar/cito/citesAsAuthority http://www.ncbi.nlm.nih.gov/pubmed/22402613 +property_value: IAO:0000114 IAO:0000125 +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 +property_value: IAO:0000117 https://orcid.org/0000-0002-7073-9172 +property_value: RO:0001900 RO:0001901 +is_a: RO:0002485 ! receives input from +inverse_of: RO:0002120 ! synapsed to +expand_expression_to: "BFO_0000051 some (GO_0045211 that part_of some (GO_0045202 that has_part some (GO_0042734 that BFO_0000050 some Y?)))" [] [Typedef] id: towards @@ -153736,7 +153622,7 @@ name: transformation of namespace: uberon def: "x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships" [] xref: RO:0002494 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 is_transitive: true is_a: develops_from ! develops from @@ -153771,7 +153657,7 @@ xref: RO:0002376 property_value: IAO:0000112 "Deschutes River tributary_of Columbia River" xsd:string property_value: IAO:0000112 "inferior epigastric vein tributary_of external iliac vein" xsd:string property_value: IAO:0000114 IAO:0000428 -property_value: IAO:0000117 "Chris Mungall" xsd:string +property_value: IAO:0000117 https://orcid.org/0000-0002-6601-2165 property_value: IAO:0000118 "drains into" xsd:string property_value: IAO:0000118 "drains to" xsd:string property_value: IAO:0000118 "tributary channel of" xsd:string diff --git a/pato-full.owl b/pato-full.owl index 972cf1a..522a10c 100644 --- a/pato-full.owl +++ b/pato-full.owl @@ -33,14 +33,14 @@ xmlns:ncbitaxon="http://purl.obolibrary.org/obo/ncbitaxon#" xmlns:caloha-reqs-vetted="http://purl.obolibrary.org/obo/caloha-reqs-vetted#"> - + An ontology of phenotypic qualities (properties, attributes or characteristics). PATO - the Phenotype And Trait Ontology quality 1.2 - 2023-02-17 + 2023-05-18 @@ -163,6 +163,12 @@ + + + + + + @@ -531,6 +537,14 @@ + + + + + + + + @@ -675,6 +689,14 @@ + + + + + + + + @@ -1172,6 +1194,12 @@ + + + + + + @@ -1999,6 +2027,24 @@ A continuant cannot have an occurrent as part: use 'participates in'. + + + + http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y + lacks_part + + + + + + + + http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y) + lacks_plasma_membrane_part + + + + @@ -2395,7 +2441,7 @@ range: spatial region or site (immaterial continuant) a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. - David Osumi-Sutherland + has boundary has_2D_boundary @@ -2417,7 +2463,7 @@ range: spatial region or site (immaterial continuant) - David Osumi-Sutherland + http://www.ncbi.nlm.nih.gov/pubmed/22402613 RO:0002005 uberon @@ -2434,7 +2480,7 @@ range: spatial region or site (immaterial continuant) - David Osumi-Sutherland + has synaptic terminal of @@ -2466,7 +2512,7 @@ range: spatial region or site (immaterial continuant) has_boundary: http://purl.obolibrary.org/obo/RO_0002002 boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - David Osumi-Sutherland + RO:0002007 external uberon @@ -2661,9 +2707,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - + David Osumi-Sutherland RO:0002082 uberon @@ -2721,6 +2766,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + David Osumi-Sutherland ends_at_start_of meets @@ -2748,7 +2794,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and an anatomical structure that its soma is part of. - David Osumi-Sutherland + <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0043025> and <http://purl.obolibrary.org/obo/BFO_0000050> some ?Y) @@ -2768,9 +2814,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and some structure its axon forms (chemical) synapses in. - Chris Mungall - David Osumi-Sutherland - David Osumi-Sutherland + + <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0030424> and <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0042734> and <http://purl.obolibrary.org/obo/BFO_0000050> some ( @@ -2782,6 +2827,39 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + + + + + + + + + + + + + + + + + + Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0045211> that part_of some (<http://purl.obolibrary.org/obo/GO_0045202> that has_part some (<http://purl.obolibrary.org/obo/GO_0042734> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) + + + RO:0002103 + uberon + synapsed_by + synapsed_by + synapsed by + synapsed by + + + + @@ -2789,9 +2867,9 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814] Holds between a cell c and a protein complex or protein p if and only if that cell has as part a plasma_membrane[GO:0005886], and that plasma membrane has p as part. - Alexander Diehl - Chris Mungall - Lindsay Cowell + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0005886> and <http://purl.obolibrary.org/obo/BFO_0000051> some ?Y) @@ -2812,8 +2890,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and some structure (e.g.- a brain region) in which it receives (chemical) synaptic input. - Chris Mungall - David Osumi-Sutherland + + synapsed in http://purl.obolibrary.org/obo/BFO_0000051 some ( http://purl.org/obo/owl/GO#GO_0045211 and http://purl.obolibrary.org/obo/BFO_0000050 some ( @@ -2845,6 +2923,41 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + + + + + + + + + + + + + + + + + Relation between a neuron and an anatomical structure (including cells) that it chemically synapses to. + + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0042734> that part_of some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0045211> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) + + + N1 synapsed_to some N2 +Expands to: +N1 SubclassOf ( + has_part some ( + ‘pre-synaptic membrane ; GO:0042734’ that part_of some ( + ‘synapse ; GO:0045202’ that has_part some ( + ‘post-synaptic membrane ; GO:0045211’ that part_of some N2)))) + synapsed to + + + + @@ -2856,7 +2969,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 A general relation between a neuron and some structure in which it either chemically synapses to some target or in which it receives (chemical) synaptic input. - David Osumi-Sutherland + has synapse in <http://purl.obolibrary.org/obo/RO_0002131> some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?) @@ -2925,7 +3038,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a 'neuron projection bundle' and a region in which one or more of its component neuron projections either synapses to targets or receives synaptic input. T innervates some R Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - David Osumi-Sutherland + <http://purl.obolibrary.org/obo/RO_0002132> some (<http://purl.obolibrary.org/obo/GO_0043005> that (<http://purl.obolibrary.org/obo/RO_0002131> some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) @@ -2948,7 +3061,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. X continuous_with Y if and only if X and Y share a fiat boundary. - David Osumi-Sutherland + connected to The label for this relation was previously connected to. I relabeled this to "continuous with". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint) @@ -2973,7 +3086,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g. 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria - Chris Mungall + RO:0002160 @@ -3076,8 +3189,8 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x is in taxon y if an only if y is an organism, and the relationship between x and y is one of: part of (reflexive), developmentally preceded by, derives from, secreted by, expressed. - Chris Mungall - Jennifer Deegan + + RO:0002162 @@ -3099,7 +3212,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A is spatially_disjoint_from B if and only if they have no parts in common There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. - Chris Mungall + Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy BFO_0000051 exactly 0 (BFO_0000050 some ?Y) @@ -3274,10 +3387,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y - Chris Mungall - David Osumi-Sutherland - Melissa Haendel - Terry Meehan + + + + RO:0002202 uberon develops_from @@ -3298,9 +3411,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of develops from - Chris Mungall - David Osumi-Sutherland - Terry Meehan + + + develops into @@ -3314,12 +3427,12 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y. - Chris Mungall - David Osumi-Sutherland - has developmental precursor + + FBbt RO:0002207 + has developmental precursor uberon directly_develops_from directly_develops_from @@ -3364,9 +3477,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. - Chris Mungall - David Hill - Tanya Berardini + + + GO Regulation precludes parthood; the regulatory process may not be within the regulated process. @@ -3396,7 +3509,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q. - Chris Mungall + negatively regulates (process to process) @@ -3429,7 +3542,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q. - Chris Mungall + positively regulates (process to process) @@ -3455,7 +3568,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974) osteoclast SubClassOf 'capable of' some 'bone resorption' A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. - Chris Mungall + has function realized in @@ -3482,7 +3595,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p. - Chris Mungall + has function in RO:0002216 external @@ -3512,7 +3625,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x - Chris Mungall + RO:0002219 uberon @@ -3537,7 +3650,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO - Chris Mungall + RO:0002220 external @@ -3565,7 +3678,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of surrounded by - Chris Mungall + RO:0002221 uberon @@ -3584,7 +3697,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends. https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 @@ -3603,6 +3716,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of starts with + Chris Mungall Allen RO:0002223 @@ -3625,6 +3739,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. + Chris Mungall started by RO:0002224 @@ -3649,7 +3764,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops from part of y if and only if there exists some z such that x develops from z and z is part of y - Chris Mungall + RO:0002225 uberon develops_from_part_of @@ -3670,7 +3785,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops_in y if x is located in y whilst x is developing - Chris Mungall + EHDAA2 Jonathan Bard, EHDAA2 RO:0002226 @@ -3691,6 +3806,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of ends with + Chris Mungall RO:0002229 uberon @@ -3711,6 +3827,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. + Chris Mungall finished by RO:0002230 @@ -3737,7 +3854,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y - Chris Mungall + starts with process that occurs in RO:0002231 external @@ -3762,7 +3879,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y - Chris Mungall + ends with process that occurs in RO:0002232 external @@ -3787,7 +3904,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p. - Chris Mungall + consumes RO:0002233 external @@ -3814,7 +3931,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p. - Chris Mungall + produces RO:0002234 external @@ -3842,7 +3959,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong] x has developmental contribution from y iff x has some part z such that z develops from y - Chris Mungall + RO:0002254 uberon has_developmental_contribution_from @@ -3864,7 +3981,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has developmental contribution from - Chris Mungall + developmentally contributes to @@ -3878,9 +3995,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor material anatomical entity type T to T', where T' develops_from T - Chris Mungall - David Osumi-Sutherland - Melissa Haendel + + + induced by Developmental Biology, Gilbert, 8th edition, figure 6.5(F) @@ -3903,7 +4020,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Inverse of developmentally induced by - Chris Mungall + developmentally induces @@ -3919,7 +4036,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false - Chris Mungall + In general you should not use this relation to make assertions - use one of the more specific relations below this one This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from developmentally preceded by @@ -3969,7 +4086,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage - Chris Mungall + replaces RO:0002285 uberon @@ -3987,7 +4104,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Inverse of developmentally preceded by - Chris Mungall + developmentally succeeded by @@ -4003,7 +4120,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue - Chris Mungall + part of developmental precursor of @@ -4017,7 +4134,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p results in the developmental progression of s iff p is a developmental process and s is an anatomical entity and p causes s to undergo a change in state at some point along its natural developmental cycle (this cycle starts with its formation, through the mature structure, and ends with its loss). This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint. - Chris Mungall + RO:0002295 external results_in_developmental_progression_of @@ -4037,7 +4154,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.every flower development (GO:0009908) results in development of some flower (PO:0009046) p 'results in development of' c if and only if p is a developmental process and p results in the state of c changing from its initial state as a primordium or anlage through its mature state and to its final state. - Chris Mungall + http://www.geneontology.org/GO.doc.development.shtml RO:0002296 external @@ -4061,7 +4178,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists. every "endocardial cushion formation" (GO:0003272) results_in_formation_of some "endocardial cushion" (UBERON:0002062) - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002297 external @@ -4085,7 +4202,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723) The relationship that links an entity with the process that results in the formation and shaping of that entity over time from an immature to a mature state. - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002298 external @@ -4109,7 +4226,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474) The relationship that links an entity with a process that results in the progression of the entity over time that is independent of changes in it's shape and results in an end point state of that entity. - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002299 external @@ -4131,7 +4248,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q. - cjm + RO:0002304 external causally_upstream_of,_positive_effect @@ -4151,7 +4268,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q. - cjm + RO:0002305 external causally_upstream_of,_negative_effect @@ -4177,7 +4294,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w. Because part_of is transitive, inheres in is a sub-relation of characteristic of part of - Chris Mungall + inheres in part of @@ -4203,7 +4320,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast. The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002315 external @@ -4222,7 +4339,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds via some environmental process - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution. evolutionarily related to @@ -4234,7 +4351,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that is mediated in some way by the environment or environmental feature (ENVO:00002297) Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6 - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving ecological interactions ecologically related to @@ -4248,7 +4365,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. An experimental relation currently used to connect a feature possessed by an organism (e.g. anatomical structure, biological process, phenotype or quality) to a habitat or environment in which that feature is well suited, adapted or provides a reproductive advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial. - Chris Mungall + adapted for RO:0002322 uberon @@ -4265,7 +4382,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A mereological relationship or a topological relationship - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships mereotopologically related to @@ -4277,7 +4394,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds between entities participating in some developmental process (GO:0032502) - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development developmentally related to @@ -4299,7 +4416,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. a particular instances of akt-2 enables some instance of protein kinase activity c enables p iff c is capable of p and c acts to execute p. - Chris Mungall + catalyzes executes has @@ -4316,7 +4433,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities. - Chris Mungall + This is a grouping relation that collects relations used for the purpose of connecting structure and function RO:0002328 uberon @@ -4337,7 +4454,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. this relation holds between c and p when c is part of some c', and c' is capable of p. - Chris Mungall + false part of structure that is capable of @@ -4367,7 +4484,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. c involved_in p if and only if c enables some process p', and p' is part of p - Chris Mungall + actively involved in enables part of involved in @@ -4384,7 +4501,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid p regulates levels of c if p regulates some amount (PATO:0000070) of c - Chris Mungall + regulates levels of (process to entity) RO:0002332 @@ -4403,7 +4520,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of enables - Chris Mungall + enabled by @@ -4418,7 +4535,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of regulates - Chris Mungall + regulated by (processual) RO:0002334 external @@ -4436,7 +4553,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of negatively regulates - Chris Mungall + RO:0002335 external negatively_regulated_by @@ -4453,7 +4570,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of positively regulates - Chris Mungall + RO:0002336 external positively_regulated_by @@ -4471,7 +4588,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds via some process of localization - Chris Mungall + Do not use this relation directly. It is a grouping relation. related via localization to @@ -4487,7 +4604,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from some initial location l to some destination. - Chris Mungall + RO:0002338 external has_target_start_location @@ -4510,7 +4627,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from a an initial location to some destination l. - Chris Mungall + RO:0002339 external has_target_end_location @@ -4529,7 +4646,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Holds between p and l when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that is aligned_with l - Chris Mungall + RO:0002341 external results_in_transport_along @@ -4546,7 +4663,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Holds between p and m when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that crosses m. - Chris Mungall + RO:0002342 external results_in_transport_across @@ -4564,7 +4681,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'pollen tube growth' results_in growth_of some 'pollen tube' - Chris Mungall + RO:0002343 external results_in_growth_of @@ -4580,7 +4697,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739) - Chris Mungall + RO:0002344 external results_in_transport_to_from_or_in @@ -4631,7 +4748,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has input - Chris Mungall + RO:0002352 uberon input_of @@ -4650,7 +4767,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has output - Chris Mungall + RO:0002353 external uberon @@ -4668,7 +4785,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + formed as result of @@ -4681,7 +4798,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a - Chris Mungall + attached to (anatomical structure to anatomical structure) RO:0002371 uberon @@ -4700,7 +4817,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. m has_muscle_origin s iff m is attached_to s, and it is the case that when m contracts, s does not move. The site of the origin tends to be more proximal and have greater mass than what the other end attaches to. - Chris Mungall + Wikipedia:Insertion_(anatomy) RO:0002372 uberon @@ -4719,7 +4836,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone. - Chris Mungall + Wikipedia:Insertion_(anatomy) RO:0002373 uberon @@ -4740,7 +4857,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves) @@ -4760,7 +4877,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.inferior epigastric vein tributary_of external iliac vein x tributary_of y if and only if x a channel for the flow of a substance into y, where y is larger than x. If x and y are hydrographic features, then y is the main stem of a river, or a lake or bay, but not the sea or ocean. If x and y are anatomical, then y is a vein. - Chris Mungall + drains into drains to tributary channel of @@ -4792,7 +4909,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A lump of clay and a statue x spatially_coextensive_with y if and inly if x and y have the same location - Chris Mungall + This relation is added for formal completeness. It is unlikely to be used in many practical scenarios spatially coextensive with @@ -4813,7 +4930,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y - Chris Mungall + RO:0002380 uberon branching_part_of @@ -4833,7 +4950,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction). - Chris Mungall + has developmental potential involving @@ -4845,7 +4962,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y - Chris Mungall + RO:0002385 uberon has_potential_to_developmentally_contribute_to @@ -4862,7 +4979,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y - Chris Mungall + has potential to developmentally induce @@ -4874,7 +4991,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has the potential to develop into y iff x develops into y or if x is capable of developing into y - Chris Mungall + RO:0002387 uberon has_potential_to_develop_into @@ -4891,7 +5008,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y - Chris Mungall + has potential to directly develop into @@ -4905,7 +5022,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of upstream of - Chris Mungall + RO:0002404 external causally_downstream_of @@ -4923,7 +5040,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + RO:0002405 external immediately_causally_downstream_of @@ -4957,7 +5074,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - Chris Mungall + indirectly activates indirectly positively regulates @@ -4984,7 +5101,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - Chris Mungall + indirectly inhibits indirectly negatively regulates @@ -5011,7 +5128,7 @@ For the second, we consider a relationship to be regulatory if the system in whi For the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral. Each of these 3 primitives can be composed to yield a cross-product of different relation types. - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causally related to @@ -5031,7 +5148,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q. - Chris Mungall + RO:0002411 external causally_upstream_of @@ -5050,7 +5167,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - Chris Mungall + RO:0002412 external @@ -5070,7 +5187,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q. We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2 - Chris Mungall + influences (processual) RO:0002418 external @@ -5088,7 +5205,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different inverse of causally upstream of or within - Chris Mungall + RO:0002427 external @@ -5114,7 +5231,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' regulates some p - Chris Mungall + involved in regulation of @@ -5133,7 +5250,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' positively regulates some p - Chris Mungall + involved in positive regulation of @@ -5153,7 +5270,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - Chris Mungall + involved in negative regulation of @@ -5168,7 +5285,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p OWL does not allow defining object properties via a Union - Chris Mungall + involved in or reguates involved in or involved in regulation of @@ -5186,7 +5303,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different A protein that enables activity in a cytosol. c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - Chris Mungall + executes activity in enables activity in @@ -5216,7 +5333,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm. - Chris Mungall + RO:0002433 uberon contributes_to_morphology_of @@ -5235,7 +5352,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different A relationship that holds between two entities in which the processes executed by the two entities are causally connected. This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. Considering relabeling as 'pairwise interacts with' - Chris Mungall + Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules. in pairwise interaction with @@ -5252,7 +5369,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - Chris Mungall + binds molecularly binds with molecularly interacts with @@ -5267,7 +5384,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different Axiomatization to GO to be added later - Chris Mungall + An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y. phosphorylates @@ -5289,8 +5406,8 @@ Each of these 3 primitives can be composed to yield a cross-product of different The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - Chris Mungall - Vasundra Touré + + molecularly controls directly regulates activity of @@ -5310,8 +5427,8 @@ A and B can be physically interacting but not necessarily. Immediately upstream The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - Chris Mungall - Vasundra Touré + + directly inhibits molecularly decreases activity of directly negatively regulates activity of @@ -5332,8 +5449,8 @@ For example, A and B may be gene products and binding of B by A negatively regul The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - Chris Mungall - Vasundra Touré + + directly activates molecularly increases activity of directly positively regulates activity of @@ -5344,7 +5461,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning. helper property (not for use in curation) @@ -5359,7 +5476,7 @@ For example, A and B may be gene products and binding of B by A positively regul 'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate' x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. - Chris Mungall + RO:0002473 @@ -5382,7 +5499,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. - Chris Mungall + has part that occurs in @@ -5402,18 +5519,41 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + is kinase activity + + + + + + See notes for inverse relation + + receives input from + + + + + + + + + This is an exploratory relation. The label is taken from the FMA. It needs aligned with the neuron-specific relations such as has postsynaptic terminal in. + + sends output to + + + + - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage. relation between physical entity and a process or stage @@ -5430,7 +5570,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y). - Chris Mungall + RO:0002488 uberon existence_starts_during @@ -5445,7 +5585,7 @@ For example, A and B may be gene products and binding of B by A positively regul x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y). - Chris Mungall + RO:0002489 uberon existence_starts_with @@ -5460,7 +5600,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y)) - Chris Mungall + The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. existence overlaps @@ -5473,7 +5613,7 @@ For example, A and B may be gene products and binding of B by A positively regul x exists during y if and only if: 1) the time point at which x begins to exist is after or equal to the time point at which y begins and 2) the time point at which x ceases to exist is before or equal to the point at which y ends. Formally: x existence starts and ends during y iff α(x) >= α(y) & α(x) <= ω(y) & ω(x) <= ω(y) & ω(x) >= α(y) - Chris Mungall + RO:0002491 exists during uberon @@ -5496,7 +5636,7 @@ For example, A and B may be gene products and binding of B by A positively regul Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely. x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y). - Chris Mungall + RO:0002492 ceases_to_exist_during uberon @@ -5519,7 +5659,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y). - Chris Mungall + RO:0002493 uberon existence_ends_with @@ -5536,7 +5676,7 @@ For example, A and B may be gene products and binding of B by A positively regul x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships - Chris Mungall + RO:0002494 uberon transformation_of @@ -5552,7 +5692,7 @@ For example, A and B may be gene products and binding of B by A positively regul x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t - Chris Mungall + RO:0002495 uberon @@ -5588,7 +5728,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y). - Chris Mungall + RO:0002496 uberon existence_starts_during_or_after @@ -5624,7 +5764,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends. - Chris Mungall + RO:0002497 uberon existence_ends_during_or_before @@ -5654,7 +5794,7 @@ For example, A and B may be gene products and binding of B by A positively regul p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between processes @@ -5665,7 +5805,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + depends on @@ -5678,7 +5818,7 @@ For example, A and B may be gene products and binding of B by A positively regul q towards e2 if and only if q is a relational quality such that q inheres-in some e, and e != e2 and q is dependent on e2 This relation is provided in order to support the use of relational qualities such as 'concentration of'; for example, the concentration of C in V is a quality that inheres in V, but pertains to C. - Chris Mungall + towards @@ -5692,7 +5832,7 @@ For example, A and B may be gene products and binding of B by A positively regul The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between entities @@ -5711,7 +5851,7 @@ For example, A and B may be gene products and binding of B by A positively regul Forelimb SubClassOf has_skeleton some 'Forelimb skeleton' A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. - Chris Mungall + has supporting framework The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell). RO:0002551 @@ -5728,7 +5868,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + causally influenced by (entity-centric) causally influenced by @@ -5740,7 +5880,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + interaction relation helper property http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ @@ -5752,7 +5892,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + molecular interaction relation helper property @@ -5763,7 +5903,7 @@ For example, A and B may be gene products and binding of B by A positively regul Holds between p and c when p is locomotion process and the outcome of this process is the change of location of c - Chris Mungall + RO:0002565 external @@ -5794,8 +5934,8 @@ For example, A and B may be gene products and binding of B by A positively regul The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - Chris Mungall - Vasundra Touré + + causally influences (entity-centric) causally influences @@ -5808,7 +5948,7 @@ For example, A and B may be gene products and binding of B by A positively regul A relation that holds between elements of a musculoskeletal system or its analogs. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes. biomechanically related to @@ -5820,7 +5960,7 @@ For example, A and B may be gene products and binding of B by A positively regul m1 has_muscle_antagonist m2 iff m1 has_muscle_insertion s, m2 has_muscle_insection s, m1 acts in opposition to m2, and m2 is responsible for returning the structure to its initial position. - Chris Mungall + Wikipedia:Antagonist_(muscle) RO:0002568 uberon @@ -5838,7 +5978,7 @@ For example, A and B may be gene products and binding of B by A positively regul inverse of branching part of - Chris Mungall + RO:0002569 uberon has_branching_part @@ -5850,13 +5990,33 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. + + UBERON:cjm + This relation holds between a thing with a 'conduit' (e.g. a bone foramen) and a 'conduee' (for example, a nerve) such that at the time the relationship holds, the conduee has two ends sticking out either end of the conduit. It should therefore note be used for objects that move through the conduit but whose spatial extent does not span the passage. For example, it would not be used for a mountain that contains a long tunnel through which trains pass. Nor would we use it for a digestive tract and objects such as food that pass through. + RO:0002570 + uberon + conduit_for + + conduit_for + conduit for + + + + x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. - Chris Mungall + GOC:cjm RO:0002571 uberon @@ -5874,7 +6034,7 @@ For example, A and B may be gene products and binding of B by A positively regul s is luminal space of x iff s is lumen_of x and s is an immaterial entity - Chris Mungall + RO:0002572 uberon luminal_space_of @@ -5890,7 +6050,7 @@ For example, A and B may be gene products and binding of B by A positively regul inverse of has skeleton - Chris Mungall + RO:0002576 uberon skeleton_of @@ -5907,7 +6067,7 @@ For example, A and B may be gene products and binding of B by A positively regul p directly regulates q iff p is immediately causally upstream of q and p regulates q. - Chris Mungall + directly regulates (processual) @@ -5934,7 +6094,7 @@ For example, A and B may be gene products and binding of B by A positively regul gland SubClassOf 'has part structure that is capable of' some 'secretion by cell' s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p - Chris Mungall + has part structure that is capable of @@ -6004,7 +6164,7 @@ For example, A and B may be gene products and binding of B by A positively regul A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. - Chris Mungall + causal relation between material entity and a process @@ -6139,7 +6299,7 @@ For example, A and B may be gene products and binding of B by A positively regul a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix. - Melissa Haendel + RO:0003000 external uberon @@ -6160,7 +6320,7 @@ For example, A and B may be gene products and binding of B by A positively regul a produced_by b iff some process that occurs_in b has_output a. - Melissa Haendel + RO:0003001 external uberon @@ -6178,7 +6338,7 @@ For example, A and B may be gene products and binding of B by A positively regul p 'has primary input ot output' c iff either (a) p 'has primary input' c or (b) p 'has primary output' c. - cjm + 2018-12-13T11:26:17Z RO:0004007 external @@ -6196,7 +6356,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has primary output c if (a) p has output c and (b) the goal of process is to modify, produce, or transform c. - cjm + 2018-12-13T11:26:32Z RO:0004008 external @@ -6224,7 +6384,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has primary input c if (a) p has input c and (b) the goal of process is to modify, consume, or transform c. - cjm + 2018-12-13T11:26:56Z RO:0004009 external @@ -6255,7 +6415,7 @@ For example, A and B may be gene products and binding of B by A positively regul Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - cjm + 2018-01-25T23:20:13Z enables subfunction @@ -6271,7 +6431,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-01-26T23:49:30Z acts upstream of or within, positive effect @@ -6289,7 +6449,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-01-26T23:49:51Z acts upstream of or within, negative effect @@ -6308,7 +6468,7 @@ For example, A and B may be gene products and binding of B by A positively regul c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - cjm + 2018-01-26T23:53:14Z acts upstream of, positive effect @@ -6328,7 +6488,7 @@ For example, A and B may be gene products and binding of B by A positively regul c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - cjm + 2018-01-26T23:53:22Z acts upstream of, negative effect @@ -6342,7 +6502,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-03-13T23:55:05Z causally upstream of or within, negative effect @@ -6354,7 +6514,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-03-13T23:55:19Z causally upstream of or within, positive effect @@ -6368,7 +6528,7 @@ For example, A and B may be gene products and binding of B by A positively regul The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - Vasundra Touré + regulates activity of @@ -6597,8 +6757,8 @@ For example, A and B may be gene products and binding of B by A positively regul A diagnostic testing device utilizes a specimen. X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. - https://orcid.org/0000-0001-9625-1899 - https://orcid.org/0000-0003-2620-0345 + + A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input. See github ticket https://github.com/oborel/obo-relations/issues/497 2021-11-08T12:00:00Z @@ -6676,7 +6836,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has anatomical participant c iff p has participant c, and c is an anatomical entity - cjm + 2018-09-26T01:08:58Z RO:0040036 external @@ -6729,24 +6889,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y - lacks_part - - - - - - - - http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y) - lacks_plasma_membrane_part - - - - @@ -7152,17 +7294,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - x is a conduit for y iff y passes through the lumen of x. - uberon - conduit_for - conduit for - - - - @@ -7308,17 +7439,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. - uberon - synapsed_by - synapsed by - - - - @@ -9076,6 +9196,164 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An optically active form of glutamic acid having D-configuration. + 0 + C5H9NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-N + 147.12930 + 147.05316 + N[C@H](CCC(O)=O)C(O)=O + CHEBI:21023 + CHEBI:4183 + Beilstein:1723800 + CAS:6893-26-1 + DrugBank:DB02517 + Gmelin:201189 + HMDB:HMDB0003339 + KEGG:C00217 + KNApSAcK:C00019577 + MetaCyc:D-GLT + PDBeChem:DGL + Reaxys:1723800 + (2R)-2-aminopentanedioic acid + D-Glutamic acid + D-glutamic acid + chebi_ontology + (R)-2-aminopentanedioic acid + D-2-Aminoglutaric acid + D-Glutaminic acid + D-Glutaminsaeure + DGL + glutamic acid D-form + CHEBI:15966 + + D-glutamic acid + + + + + Beilstein:1723800 + Beilstein + + + + + CAS:6893-26-1 + ChemIDplus + + + + + CAS:6893-26-1 + KEGG COMPOUND + + + + + CAS:6893-26-1 + NIST Chemistry WebBook + + + + + Gmelin:201189 + Gmelin + + + + + Reaxys:1723800 + Reaxys + + + + + (2R)-2-aminopentanedioic acid + IUPAC + + + + + + D-Glutamic acid + KEGG_COMPOUND + + + + + D-glutamic acid + IUPAC + + + + + + (R)-2-aminopentanedioic acid + ChEBI + + + + + D-2-Aminoglutaric acid + KEGG_COMPOUND + + + + + D-Glutaminic acid + KEGG_COMPOUND + + + + + D-Glutaminsaeure + ChEBI + + + + + DGL + PDBeChem + + + + + glutamic acid D-form + ChemIDplus + + + + @@ -9116,6 +9394,302 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An optically active form of glutamic acid having L-configuration. + 0 + C5H9NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-N + 147.12930 + 147.05316 + N[C@@H](CCC(O)=O)C(O)=O + CHEBI:21304 + CHEBI:42825 + CHEBI:6224 + BPDB:2297 + Beilstein:1723801 + CAS:56-86-0 + DrugBank:DB00142 + Drug_Central:1310 + Gmelin:3502 + HMDB:HMDB0000148 + KEGG:C00025 + KEGG:D00007 + KNApSAcK:C00001358 + LINCS:LSM-36375 + MetaCyc:GLT + PDBeChem:GLU_LFOH + PMID:15739367 + PMID:15930465 + PMID:16719819 + PMID:16892196 + PMID:19581495 + PMID:22219301 + PMID:22735334 + Reaxys:1723801 + Wikipedia:L-Glutamic_Acid + (2S)-2-aminopentanedioic acid + L-Glutamic acid + L-glutamic acid + chebi_ontology + (S)-2-aminopentanedioic acid + (S)-glutamic acid + E + GLUTAMIC ACID + Glu + Glutamate + L-Glu + L-Glutaminic acid + L-Glutaminsaeure + acide glutamique + acido glutamico + acidum glutamicum + glutamic acid + CHEBI:16015 + + L-glutamic acid + + + + + Beilstein:1723801 + Beilstein + + + + + CAS:56-86-0 + ChemIDplus + + + + + CAS:56-86-0 + KEGG COMPOUND + + + + + CAS:56-86-0 + NIST Chemistry WebBook + + + + + Drug_Central:1310 + DrugCentral + + + + + Gmelin:3502 + Gmelin + + + + + PMID:15739367 + Europe PMC + + + + + PMID:15930465 + Europe PMC + + + + + PMID:16719819 + Europe PMC + + + + + PMID:16892196 + Europe PMC + + + + + PMID:19581495 + Europe PMC + + + + + PMID:22219301 + Europe PMC + + + + + PMID:22735334 + Europe PMC + + + + + Reaxys:1723801 + Reaxys + + + + + (2S)-2-aminopentanedioic acid + IUPAC + + + + + + L-Glutamic acid + KEGG_COMPOUND + + + + + L-glutamic acid + IUPAC + + + + + + (S)-2-aminopentanedioic acid + ChEBI + + + + + (S)-glutamic acid + NIST_Chemistry_WebBook + + + + + E + ChEBI + + + + + GLUTAMIC ACID + PDBeChem + + + + + Glu + ChEBI + + + + + Glutamate + KEGG_COMPOUND + + + + + L-Glu + ChEBI + + + + + L-Glutaminic acid + KEGG_COMPOUND + + + + + L-Glutaminsaeure + ChEBI + + + + + acide glutamique + ChEBI + + + + + + acido glutamico + ChEBI + + + + + + acidum glutamicum + ChEBI + + + + + + glutamic acid + ChEBI + + + + + @@ -10402,6 +10976,69 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + 0 + C2H4NO2R + 74.05870 + 74.02420 + N[C@H]([*])C(O)=O + CHEBI:12909 + CHEBI:13625 + CHEBI:20906 + CHEBI:4097 + KEGG:C00405 + D-alpha-amino acid + D-alpha-amino acids + chebi_ontology + D-Amino acid + D-alpha-amino acids + CHEBI:16733 + + D-alpha-amino acid + + + + + D-alpha-amino acid + ChEBI + + + + + D-alpha-amino acids + IUPAC + + + + + + D-Amino acid + KEGG_COMPOUND + + + + + D-alpha-amino acids + ChEBI + + + + @@ -10799,6 +11436,165 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms. + CHEBI:13302 + CHEBI:21123 + CHEBI:33698 + CHEBI:4291 + CAS:9007-49-2 + KEGG:C00039 + Deoxyribonucleic acid + deoxyribonucleic acids + chebi_ontology + (Deoxyribonucleotide)m + (Deoxyribonucleotide)n + (Deoxyribonucleotide)n+m + DNA + DNAn + DNAn+1 + DNS + Desoxyribonukleinsaeure + deoxyribonucleic acids + desoxyribose nucleic acid + thymus nucleic acid + CHEBI:16991 + + deoxyribonucleic acid + + + + + CAS:9007-49-2 + ChemIDplus + + + + + CAS:9007-49-2 + KEGG COMPOUND + + + + + Deoxyribonucleic acid + KEGG_COMPOUND + + + + + deoxyribonucleic acids + IUPAC + + + + + + (Deoxyribonucleotide)m + KEGG_COMPOUND + + + + + (Deoxyribonucleotide)n + KEGG_COMPOUND + + + + + (Deoxyribonucleotide)n+m + KEGG_COMPOUND + + + + + DNA + IUPAC + + + + + DNA + KEGG_COMPOUND + + + + + DNA + UniProt + + + + + DNAn + KEGG_COMPOUND + + + + + DNAn+1 + KEGG_COMPOUND + + + + + DNS + ChEBI + + + + + Desoxyribonukleinsaeure + ChEBI + + + + + deoxyribonucleic acids + ChEBI + + + + + desoxyribose nucleic acid + ChemIDplus + + + + + thymus nucleic acid + ChEBI + + + + @@ -11036,6 +11832,55 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + Any substance that induces or promotes ferroptosis (a type of programmed cell death dependent on iron and characterized by the accumulation of lipid peroxides) in organisms. + PMID:31899616 + PMID:32015325 + PMID:33167414 + PMID:34012798 + Wikipedia:Ferroptosis + chebi_ontology + ferroptosis inducers + CHEBI:173085 + + ferroptosis inducer + + + + + PMID:31899616 + Europe PMC + + + + + PMID:32015325 + SUBMITTER + + + + + PMID:33167414 + Europe PMC + + + + + PMID:34012798 + Europe PMC + + + + + ferroptosis inducers + ChEBI + + + + @@ -12621,6 +13466,24 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual base + + + + Basen + ChEBI + + + + + Nucleobase + KEGG_COMPOUND + + + + + bases + ChEBI + @@ -12652,24 +13515,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual Base2 KEGG_COMPOUND - - - - Basen - ChEBI - - - - - Nucleobase - KEGG_COMPOUND - - - - - bases - ChEBI - @@ -13113,6 +13958,125 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2). + Wikipedia:Glutamine_synthetase + chebi_ontology + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitors + EC 6.3.1.2 inhibitor + EC 6.3.1.2 inhibitors + L-glutamate:ammonia ligase (ADP-forming) inhibitor + L-glutamate:ammonia ligase (ADP-forming) inhibitors + L-glutamine synthetase inhibitor + L-glutamine synthetase inhibitors + glutamate--ammonia ligase (EC 6.3.1.2) inhibitor + glutamate--ammonia ligase (EC 6.3.1.2) inhibitors + glutamate--ammonia ligase inhibitor + glutamate--ammonia ligase inhibitors + glutamine synthetase inhibitor + glutamine synthetase inhibitors + glutamylhydroxamic synthetase inhibitor + glutamylhydroxamic synthetase inhibitors + CHEBI:24319 + + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor + + + + + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitors + ChEBI + + + + + EC 6.3.1.2 inhibitor + ChEBI + + + + + EC 6.3.1.2 inhibitors + ChEBI + + + + + L-glutamate:ammonia ligase (ADP-forming) inhibitor + ChEBI + + + + + L-glutamate:ammonia ligase (ADP-forming) inhibitors + ChEBI + + + + + L-glutamine synthetase inhibitor + ChEBI + + + + + L-glutamine synthetase inhibitors + ChEBI + + + + + glutamate--ammonia ligase (EC 6.3.1.2) inhibitor + ChEBI + + + + + glutamate--ammonia ligase (EC 6.3.1.2) inhibitors + ChEBI + + + + + glutamate--ammonia ligase inhibitor + ChEBI + + + + + glutamate--ammonia ligase inhibitors + ChEBI + + + + + glutamine synthetase inhibitor + ChEBI + + + + + glutamine synthetase inhibitors + ChEBI + + + + + glutamylhydroxamic synthetase inhibitor + ChEBI + + + + + glutamylhydroxamic synthetase inhibitors + ChEBI + + + + @@ -13703,18 +14667,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual ion - - - - iones - ChEBI - - - - - ions - ChEBI - @@ -13740,6 +14692,18 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual Ionen ChEBI + + + + iones + ChEBI + + + + + ions + ChEBI + @@ -17332,6 +18296,213 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group + -1 + C5H8NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-M + 146.12136 + 146.04588 + [NH3+][C@@H](CCC([O-])=O)C([O-])=O + CHEBI:13107 + CHEBI:21301 + CAS:11070-68-1 + Gmelin:936654 + MetaCyc:GLT + L-glutamate(1-) + hydrogen L-glutamate + chebi_ontology + (2S)-2-ammoniopentanedioate + L-glutamate + L-glutamic acid monoanion + L-glutamic acid, ion(1-) + CHEBI:29985 + + L-glutamate(1-) + + + + + CAS:11070-68-1 + ChemIDplus + + + + + Gmelin:936654 + Gmelin + + + + + L-glutamate(1-) + JCBN + + + + + hydrogen L-glutamate + IUPAC + + + + + + (2S)-2-ammoniopentanedioate + IUPAC + + + + + L-glutamate + ChEBI + + + + + L-glutamate + UniProt + + + + + L-glutamic acid monoanion + JCBN + + + + + L-glutamic acid, ion(1-) + ChemIDplus + + + + + + + + + + + + + + + + + + + + + + + + + + + An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group + -1 + C5H8NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-M + 146.12136 + 146.04588 + [NH3+][C@H](CCC([O-])=O)C([O-])=O + CHEBI:12979 + CHEBI:21022 + Beilstein:8319427 + MetaCyc:D-GLT + D-glutamate(1-) + hydrogen D-glutamate + chebi_ontology + (2R)-2-ammoniopentanedioate + D-glutamate + D-glutamic acid monoanion + CHEBI:29986 + + D-glutamate(1-) + + + + + Beilstein:8319427 + Beilstein + + + + + D-glutamate(1-) + JCBN + + + + + hydrogen D-glutamate + IUPAC + + + + + + (2R)-2-ammoniopentanedioate + IUPAC + + + + + D-glutamate + UniProt + + + + + D-glutamic acid monoanion + JCBN + + + + @@ -17415,6 +18586,151 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid. + -2 + C5H7NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-L + 145.11342 + 145.03860 + N[C@@H](CCC([O-])=O)C([O-])=O + Gmelin:327905 + (2S)-2-aminopentanedioate + L-glutamate + L-glutamate(2-) + chebi_ontology + L-glutamic acid dianion + CHEBI:29988 + + L-glutamate(2-) + + + + + Gmelin:327905 + Gmelin + + + + + (2S)-2-aminopentanedioate + IUPAC + + + + + + L-glutamate + IUPAC + + + + + + L-glutamate(2-) + JCBN + + + + + L-glutamic acid dianion + JCBN + + + + + + + + + + + + + + + + + + + + + -2 + C5H7NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-L + 145.11342 + 145.03860 + N[C@H](CCC([O-])=O)C([O-])=O + Beilstein:8143000 + Gmelin:327904 + (2R)-2-aminopentanedioate + D-glutamate + D-glutamate(2-) + chebi_ontology + D-glutamic acid dianion + CHEBI:29989 + + D-glutamate(2-) + + + + + Beilstein:8143000 + Beilstein + + + + + Gmelin:327904 + Gmelin + + + + + (2R)-2-aminopentanedioate + IUPAC + + + + + + D-glutamate + IUPAC + + + + + + D-glutamate(2-) + JCBN + + + + + D-glutamic acid dianion + JCBN + + + + @@ -21148,6 +22464,60 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + chebi_ontology + canonical deoxyribonucleoside residues + common 2'-deoxyribonucleoside residue + common 2'-deoxyribonucleoside residues + dN + dNuc + standard deoxyribonucleoside residues + CHEBI:33793 + + canonical deoxyribonucleoside residue + + + + + canonical deoxyribonucleoside residues + ChEBI + + + + + common 2'-deoxyribonucleoside residue + CBN + + + + + common 2'-deoxyribonucleoside residues + CBN + + + + + dN + CBN + + + + + dNuc + CBN + + + + + standard deoxyribonucleoside residues + ChEBI + + + + @@ -25654,6 +27024,25 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + chebi_ontology + canonical deoxyribonucleotide residues + CHEBI:50298 + + canonical deoxyribonucleotide residue + + + + + canonical deoxyribonucleotide residues + ChEBI + + + + @@ -25858,6 +27247,40 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + A product in capsule, tablet or liquid form that provide essential nutrients, such as a vitamin, an essential mineral, a protein, an herb, or similar nutritional substance. + chebi_ontology + Dietary Supplement + Food Supplementation + Nutritional supplement + CHEBI:50733 + + nutraceutical + + + + + Dietary Supplement + ChEBI + + + + + Food Supplementation + ChEBI + + + + + Nutritional supplement + ChEBI + + + + @@ -26984,6 +28407,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group. + 0 + C2H4NO2R + 74.059 + 74.02420 + [NH3+][C@H]([*])C([O-])=O + chebi_ontology + D-alpha-amino acid zwitterions + a D-alpha-amino acid + CHEBI:59871 + + D-alpha-amino acid zwitterion + + + + + D-alpha-amino acid zwitterions + ChEBI + + + + + a D-alpha-amino acid + UniProt + + + + @@ -27139,6 +28600,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + Any alpha-amino acid anion in which the parent amino acid has D-configuration. + -1 + C2H3NO2R + 73.051 + 73.01638 + [C@@H](C(=O)[O-])(N)* + chebi_ontology + D-alpha-amino acid anions + D-alpha-amino carboxylate + CHEBI:60895 + + D-alpha-amino acid anion + + + + + D-alpha-amino acid anions + ChEBI + + + + + D-alpha-amino carboxylate + ChEBI + + + + @@ -28360,6 +29859,159 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*). + chebi_ontology + C--N bond-forming ligase inhibitor + C--N bond-forming ligase inhibitors + C-N bond-forming ligase (EC 6.3.*) inhibitor + C-N bond-forming ligase (EC 6.3.*) inhibitors + C-N bond-forming ligase inhibitor + C-N bond-forming ligase inhibitors + EC 6.3.* (C-N bond-forming ligase) inhibitorS + EC 6.3.* inhibitor + EC 6.3.* inhibitors + EC 6.3.*.* inhibitor + EC 6.3.*.* inhibitors + CHEBI:75600 + + EC 6.3.* (C-N bond-forming ligase) inhibitor + + + + + C--N bond-forming ligase inhibitor + ChEBI + + + + + C--N bond-forming ligase inhibitors + ChEBI + + + + + C-N bond-forming ligase (EC 6.3.*) inhibitor + ChEBI + + + + + C-N bond-forming ligase (EC 6.3.*) inhibitors + ChEBI + + + + + C-N bond-forming ligase inhibitor + ChEBI + + + + + C-N bond-forming ligase inhibitors + ChEBI + + + + + EC 6.3.* (C-N bond-forming ligase) inhibitorS + ChEBI + + + + + EC 6.3.* inhibitor + ChEBI + + + + + EC 6.3.* inhibitors + ChEBI + + + + + EC 6.3.*.* inhibitor + ChEBI + + + + + EC 6.3.*.* inhibitors + ChEBI + + + + + + + + + Any enzyme inhibitor that interferes with the action of a ligase (EC 6.*.*.*). Ligases are enzymes that catalyse the joining of two molecules with concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate. + Wikipedia:Ligase + chebi_ontology + EC 6.* (ligase) inhibitors + EC 6.* inhibitor + EC 6.* inhibitors + EC 6.*.*.* inhibitor + EC 6.*.*.* inhibitors + ligase inhibitor + ligase inhibitors + CHEBI:75603 + + EC 6.* (ligase) inhibitor + + + + + EC 6.* (ligase) inhibitors + ChEBI + + + + + EC 6.* inhibitor + ChEBI + + + + + EC 6.* inhibitors + ChEBI + + + + + EC 6.*.*.* inhibitor + ChEBI + + + + + EC 6.*.*.* inhibitors + ChEBI + + + + + ligase inhibitor + ChEBI + + + + + ligase inhibitors + ChEBI + + + + @@ -28770,6 +30422,54 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). + chebi_ontology + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitors + EC 6.3.1.* inhibitor + EC 6.3.1.* inhibitors + acid-ammonia (or amine) ligase inhibitor + acid-ammonia (or amine) ligase inhibitors + CHEBI:76823 + + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor + + + + + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitors + ChEBI + + + + + EC 6.3.1.* inhibitor + ChEBI + + + + + EC 6.3.1.* inhibitors + ChEBI + + + + + acid-ammonia (or amine) ligase inhibitor + ChEBI + + + + + acid-ammonia (or amine) ligase inhibitors + ChEBI + + + + @@ -29428,6 +31128,132 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + Any amino-acid that is not naturally encoded in the genetic code of any organism. + Wikipedia:Non-proteinogenic_amino_acids + chebi_ontology + non-canonical amino acid + non-canonical amino acids + non-canonical amino-acid + non-canonical amino-acids + non-coded amino acid + non-coded amino acids + non-coded amino-acid + non-coded amino-acids + non-proteinogenic amino acids + non-proteinogenic amino-acid + non-proteinogenic amino-acids + CHEBI:83820 + + non-proteinogenic amino acid + + + + + non-canonical amino acid + ChEBI + + + + + non-canonical amino acids + ChEBI + + + + + non-canonical amino-acid + ChEBI + + + + + non-canonical amino-acids + ChEBI + + + + + non-coded amino acid + ChEBI + + + + + non-coded amino acids + ChEBI + + + + + non-coded amino-acid + ChEBI + + + + + non-coded amino-acids + ChEBI + + + + + non-proteinogenic amino acids + ChEBI + + + + + non-proteinogenic amino-acid + ChEBI + + + + + non-proteinogenic amino-acids + ChEBI + + + + + + + + + + Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids. + chebi_ontology + non-proteinogenic alpha-amino acids + non-proteinogenic alpha-amino-acid + non-proteinogenic alpha-amino-acids + CHEBI:83925 + + non-proteinogenic alpha-amino acid + + + + + non-proteinogenic alpha-amino acids + ChEBI + + + + + non-proteinogenic alpha-amino-acid + ChEBI + + + + + non-proteinogenic alpha-amino-acids + ChEBI + + + + @@ -29465,6 +31291,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29639,6 +31466,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + A stem cell that is the precursor of gametes. germline stem cell germ line stem cell @@ -29654,6 +31482,12 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual true + + + + A stem cell that is the precursor of gametes. + doi:10.1016/j.stem.2012.05.016 + @@ -29717,6 +31551,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + A stem cell that is the precursor of female gametes. FBbt:00004873 female germ line stem cell @@ -29732,6 +31567,12 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual true + + + + A stem cell that is the precursor of female gametes. + doi:10.1016/j.stem.2012.05.016 + @@ -29787,6 +31628,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29822,6 +31664,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29939,6 +31782,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29962,7 +31806,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A cell that will develop into a neuron often after a migration phase. - CL:0000337 BTO:0000930 FMA:70563 neuroblast @@ -30085,61 +31928,61 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -30148,88 +31991,88 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119. BTO:0000725 @@ -30242,6 +32085,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual blood forming stem cell hemopoietic stem cell colony forming unit hematopoietic + Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative. hematopoietic stem cell @@ -30278,6 +32122,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual burst forming unit erythroid colony forming unit erythroid erythroid stem cell + erythroid progenitor cell @@ -30299,7 +32144,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -30450,7 +32294,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -30726,7 +32569,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A oligopotent progenitor cell committed to the lymphoid lineage. - CL:0000044 CLP common lymphocyte precursor common lymphocyte progenitor @@ -30902,6 +32744,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -30925,7 +32768,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31161,7 +33003,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31195,7 +33036,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31337,8 +33177,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex. - CL:0000804 - CL:0000812 BTO:0000782 CALOHA:TS-1001 FMA:62870 @@ -31522,36 +33360,36 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -31567,44 +33405,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - + + - - + + - - + + - - + + - - + + - - + + - - + + A leukocyte with abundant granules in the cytoplasm. @@ -32154,7 +33992,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs. - CL:0002452 BTO:0002625 BTO:0003298 FMA:70546 @@ -32242,7 +34079,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides. - CL:0000450 BTO:0000443 CALOHA:TS-0012 FMA:63880 @@ -32317,6 +34153,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. APC + Note change of name; nearly all somatic cells can present antigens to T cells via MHC Class I complexes leading to effector responses, but professional antigen presenting cells constitutively express MHC Class II as well as costimulatory molecules, and thus can initiate immune responses via T cells. professional antigen presenting cell @@ -32367,7 +34204,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -32384,7 +34220,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. - CL:0000572 BTO:0000847 CALOHA:TS-0613 FMA:70545 @@ -32413,6 +34248,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + pigment cell visual pigment cell @@ -32459,7 +34295,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -32499,6 +34334,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -32719,25 +34555,46 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - + - + + + + + + + + + + + + - + - + + + + + + + + + + + A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. @@ -32796,7 +34653,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A neuron that is capable of some hormone secretion in response to neuronal signals. - CL:0000381 BTO:0002691 FBbt:00005130 FMA:83810 @@ -32898,8 +34754,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -32935,12 +34789,6 @@ The modern definition of neurosecretion has evolved to include the release of an Pancreatic beta cells are also reportedly CD284-positive. Upon activation, they upregulate their CD14 expression. type B pancreatic cell - - - - - true - @@ -33061,7 +34909,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33136,7 +34983,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33188,7 +35034,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -33203,7 +35049,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33272,10 +35117,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -33317,7 +35160,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33356,7 +35198,6 @@ The modern definition of neurosecretion has evolved to include the release of an A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast). - CL:0000191 non-striated muscle cell BTO:0004576 CALOHA:TS-2159 @@ -33408,7 +35249,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33679,7 +35519,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33702,7 +35541,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33727,7 +35565,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33753,7 +35590,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33916,6 +35752,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -33928,14 +35772,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - @@ -33944,26 +35780,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen. @@ -33973,6 +35809,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:81100 RBC red blood cell + erythrocyte @@ -34009,6 +35846,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -34076,6 +35914,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:83585 MESH:D008264 histiocyte + Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid. macrophage @@ -34347,7 +36186,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell found in the trachea. - CL:1000474 FBbt:00005038 FMA:74793 tracheocyte @@ -34392,7 +36230,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -34421,7 +36258,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell. - CL:0002185 BTO:0000667 CALOHA:TS-0500 FMA:62879 @@ -34548,7 +36384,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -34638,8 +36473,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -34678,8 +36513,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -34718,8 +36553,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -34949,7 +36782,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the integument (the outer layer of an organism). - CL:1000396 BTO:0001470 CALOHA:TS-0283 FMA:62411 @@ -35232,44 +37064,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -35285,44 +37117,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -35631,7 +37463,6 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor cell destined to differentiate into cardiac muscle cell. - CL:0000714 FMA:84797 cardiac muscle progenitor cell cardiomyocyte progenitor cell @@ -35874,7 +37705,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -35962,6 +37792,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -36029,62 +37860,63 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + @@ -36105,86 +37937,87 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers. FMA:83518 rubriblast pronormoblast + proerythroblast @@ -36531,61 +38364,61 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -36593,94 +38426,94 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + + + + + + The earliest cytologically identifiable precursor in the thrombocytic series. This cell is capable of endomitosis and lacks expression of hematopoieitic lineage markers (lin-negative). BTO:0001164 @@ -36746,23 +38579,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - @@ -36776,7 +38593,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm. + A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release. BTO:0000843 CALOHA:TS-0611 @@ -36784,6 +38601,7 @@ The modern definition of neurosecretion has evolved to include the release of an megacaryocyte megalocaryocyte megalokaryocyte + Megakaryocytes are reportedly CD181-positive and CD182-positive. megakaryocyte @@ -36797,9 +38615,10 @@ The modern definition of neurosecretion has evolved to include the release of an - A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm. + A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release. ISBN:0721601464 MESH:D008533 + PMID:31043076 http://en.wikipedia.org/wiki/Megakaryocyte @@ -36824,6 +38643,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -36836,14 +38663,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - @@ -36866,32 +38685,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. @@ -36973,57 +38792,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -37031,92 +38850,93 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds. BTO:0001173 CALOHA:TS-0864 MESH:D012156 + reticulocyte @@ -37275,12 +39095,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + @@ -37319,14 +39139,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression. @@ -37513,7 +39333,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the cornea. - CL:1000431 BTO:0004298 CALOHA:TS-0173 FMA:70551 @@ -37594,6 +39413,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000876 CALOHA:TS-0638 FMA:62864 + Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid. monocyte @@ -37894,6 +39714,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -38488,6 +40309,39 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. + cone retinal bipolar cell + + + + + A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. + PMID:14689473 + + + + @@ -38502,7 +40356,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -38539,7 +40392,6 @@ The modern definition of neurosecretion has evolved to include the release of an A immature or mature cell in the lineage leading to and including erythrocytes. - CL:0002156 CALOHA:TS-0290 FMA:62845 FMA:83516 @@ -38570,57 +40422,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + @@ -38634,94 +40486,95 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers. BTO:0001571 CALOHA:TS-0289 FMA:83504 MESH:D004900 normoblast + erythroblast @@ -38824,6 +40677,7 @@ The modern definition of neurosecretion has evolved to include the release of an neutrophil leukocyte neutrophilic leucocyte neutrophilic leukocyte + neutrophil @@ -38992,12 +40846,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + @@ -39006,14 +40860,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + A dendritic cell of the myeloid lineage. @@ -39163,7 +41017,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -39171,6 +41025,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -39191,14 +41046,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow. @@ -39248,24 +41103,24 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + @@ -39299,38 +41154,38 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + A precursor in the granulocytic series, being a cell intermediate in development between a myeloblast and myelocyte, that has distinct nucleoli, a nuclear-to-cytoplasmic ratio of 5:1 to 3:1, and containing a few primary cytoplasmic granules. Markers for this cell are fucosyltransferase FUT4-positive, CD33-positive, integrin alpha-M-negative, low affinity immunoglobulin gamma Fc region receptor III-negative, and CD24-negative. @@ -39361,166 +41216,166 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + - + - - - - - - - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + + + + + + A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans. @@ -39528,6 +41383,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0448 MPP hemopoietic progenitor cell + Markers differ between mouse and human. hematopoietic multipotent progenitor cell @@ -39659,6 +41515,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:86713 mononuclear leukocyte peripheral blood mononuclear cell + mononuclear cell @@ -39676,6 +41533,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A neuron that releases serotonin as a neurotransmitter. + FBbt:00005133 + MESH:D059326 + WBbt:0006837 + 5-HT neuron + 5-hydroxytryptamine neuron + serotinergic neuron + serotonergic neuron + + + + + A neuron that releases serotonin as a neurotransmitter. + SANBI:mhl + + + + @@ -39816,6 +41713,7 @@ The modern definition of neurosecretion has evolved to include the release of an An immature myeloid leukocyte of heterogeneous phenotype found particularly in cancer and sepsis patients that is capable of suppressing activity of T cells in ex vivo assays. This cell type is CD45-positive, CD11b-positive. + Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. myeloid suppressor cell @@ -39842,7 +41740,6 @@ The modern definition of neurosecretion has evolved to include the release of an - A cell of a hematopoietic lineage. BTO:0000574 @@ -39894,6 +41791,7 @@ The modern definition of neurosecretion has evolved to include the release of an cDC dendritic reticular cell type 1 DC + Originally described in the dendritic cell ontology (DC_CL:0000003)(PMID:19243617) These cells are also CD20-negative, MHCII-positive. conventional dendritic cell @@ -39942,49 +41840,49 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + + + + + + + + + + + + + @@ -39992,50 +41890,50 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -40257,40 +42155,40 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -40299,50 +42197,50 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + CD133-positive hematopoietic stem cell is a hematopoietic stem cell that is CD34-positive, CD90-positive, and CD133-positive. @@ -40389,29 +42287,29 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + + + + + + + + + @@ -40419,44 +42317,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + A common myeloid progenitor that is CD34-positive, CD38-positive, IL3ra-low, CD10-negative, CD7-negative, CD45RA-negative, and IL-5Ralpha-negative. @@ -40485,17 +42383,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + + + + + @@ -40504,26 +42402,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + CD7-negative lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-negative and CD45RA-negative. @@ -40555,6 +42453,10 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + @@ -40563,15 +42465,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - + + + + + + @@ -40590,12 +42494,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - CD7-positive lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-positive and is CD45RA-negative. CD7-positive lymphoid precursor These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000040)(PMID:19243617). @@ -40628,164 +42526,165 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + Common dendritic precursor is a hematopoietic progenitor cell that is CD117-low, CD135-positive, CD115-positive and lacks plasma membrane parts for hematopoietic lineage markers. @@ -40835,7 +42734,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -40872,21 +42770,21 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + @@ -40894,26 +42792,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A monocyte that expresses CD14 and is negative for the lineage markers CD3, CD19, and CD20. @@ -41094,130 +42992,130 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + - + - + - + - + - + - + - + - + - + - + - + - + @@ -41364,57 +43262,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -41422,82 +43320,82 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A progenitor cell committed to the erythroid lineage. This cell is ter119-positive but lacks expression of other hematopoietic lineage markers (lin-negative). BTO:0004911 BFU-E @@ -41526,93 +43424,93 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + + + + + + + + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + An erythroid progenitor cell is Kit-positive, Ly6A-negative, CD41-negative, CD127-negative, and CD123-negative. This cell type is also described as being lin-negative, Kit-positive, CD150-negative, CD41-negative, CD105-positive, and FcgR-negative. @@ -41712,20 +43610,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -41734,26 +43632,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A megakaryocyte erythroid progenitor cell is CD34-positive, CD38-positive and is IL3-receptor alpha-negative and CD45RA-negative. @@ -41787,33 +43685,33 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + + + + + + + + + @@ -41821,44 +43719,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + A megakaryocyte erythroid progenitor cell that is Kit-positive and is Sca1-negative, CD34-negative, CD90-negative, IL7r-alpha-negative and Fcgr II/III-low. @@ -41953,6 +43851,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -41965,52 +43871,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - + + - - + + - - + + - - + + - - + + - - + + A proerythoblast that is Kit-low, Lyg76-positive, and CD71-positive. @@ -42044,53 +43942,53 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + - - + + A basophilic erythroblast that is Lyg 76-high and is Kit-negative. @@ -42124,53 +44022,53 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + - - + + A polychromatophilic erythroblast that is Lyg 76-high and is Kit-negative. @@ -42204,24 +44102,24 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + @@ -42230,38 +44128,38 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + An orthochromatophilic erythroblast that is ter119-high, CD71-low, and Kit-negative. @@ -42402,7 +44300,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -42420,6 +44317,7 @@ The modern definition of neurosecretion has evolved to include the release of an A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells. 2010-01-06T03:43:20Z + hematopoietic lineage restricted progenitor cell @@ -42446,7 +44344,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -42463,6 +44360,7 @@ The modern definition of neurosecretion has evolved to include the release of an A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities. 2010-01-06T03:43:27Z + This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060). hematopoietic oligopotent progenitor cell @@ -42484,6 +44382,10 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + @@ -42492,30 +44394,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - + + - - + + - - + + A hematopoietic stem cell capable of rapid replenishment of myeloerythroid progenitors and limited self renewal capability. This cell is Kit-positive, Sca1-positive, CD34-positive, CD150-positive, and is Flt3-negative. @@ -42551,20 +44449,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -42572,20 +44470,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + A hematopoietic stem cell with long term self renewal capability. This cell is Kit-positive, Sca1-positive, CD150-positive, CD90-low, CD34-negative and Flt3-negative. @@ -42621,20 +44519,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -42642,32 +44540,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + A hematopoietic progenitor that has restricted self-renewal capability. Cell is Kit-positive, Ly6-positive, CD150-negative and Flt3-negative. @@ -42771,47 +44669,47 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + A hematopoietic multipotent progenitor cell that is CD34-positive, CD38-negative, CD45RA-negative, and CD90-negative. @@ -43147,7 +45045,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43199,7 +45096,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43263,7 +45159,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -43272,7 +45168,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -43281,6 +45177,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-07-22T11:30:33Z FMA:62855 agranular leukocyte + nongranular leukocyte @@ -43312,7 +45209,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43588,7 +45484,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the uterus. 2010-08-24T10:45:54Z - CL:1000294 FMA:256161 epithelial cell of uterus @@ -43688,7 +45583,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell found in the lining of the stomach. 2010-08-25T03:22:08Z - CL:1000399 FMA:62948 epithelial cell of stomach @@ -43731,7 +45625,6 @@ The modern definition of neurosecretion has evolved to include the release of an A mucous cell in the epithelium of the stomach. 2010-08-25T03:38:51Z - CL:1000404 FMA:63464 mucous cell of stomach @@ -43770,7 +45663,6 @@ The modern definition of neurosecretion has evolved to include the release of an A stomach epithelial cell that is olumnar in form with a few short apical microvilli; relatively undifferentiated mitotic cell from which other types of gland are derived; few in number, situated in the isthmus region of the gland and base of the gastric pit. 2010-08-25T03:57:08Z - CL:1000400 FMA:62953 stem cell of gastric gland @@ -43811,7 +45703,6 @@ The modern definition of neurosecretion has evolved to include the release of an A basally situated, mitotically active, columnar-shaped keratinocyte attached to the basement membrane. 2010-08-26T03:12:49Z - CL:1000439 FMA:70571 basal cell of epidermis @@ -43991,7 +45882,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the tracheobronchial tree. 2010-09-02T02:09:14Z - CL:1000407 FMA:66816 epithelial cell of tracheobronchial tree @@ -44325,7 +46215,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the esophagus. 2010-09-08T09:28:20Z - CL:1000402 FMA:63071 epithelial cell of esophagus @@ -44368,7 +46257,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the large intestine. 2010-09-08T09:28:22Z - CL:1000292 BTO:0004297 FMA:256157 epithelial cell of colon @@ -44413,7 +46301,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the small intestine. 2010-09-08T09:41:46Z - CL:1000293 FMA:256159 epithelial cell of small intestine @@ -44502,7 +46389,6 @@ The modern definition of neurosecretion has evolved to include the release of an An endothelial cell found in the mucosa associated with the facial skeleton. 2010-09-14T10:40:12Z - CL:1000446 FMA:70627 endothelial cell of viscerocranial mucosa @@ -44541,7 +46427,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-09-14T10:57:26Z - CL:1000403 FMA:63134 endothelial cell of sinusoid @@ -44707,7 +46592,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -44790,8 +46674,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -44830,8 +46712,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -44842,7 +46722,6 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone. 2010-09-15T03:01:54Z - CL:1000406 CALOHA:TS-2096 FMA:63875 MESH:D003239 @@ -45035,7 +46914,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-09-21T04:33:05Z - CL:1000475 FMA:75621 endocardial endothelial cell endothelial cell of endocardium @@ -45061,6 +46939,7 @@ The modern definition of neurosecretion has evolved to include the release of an + A progenitor cell that is able to differentiate into the pancreas alpha, beta and delta endocrine cells. This cell type expresses neurogenin-3 and Isl-1. @@ -45239,7 +47118,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell). 2010-09-24T09:44:42Z @@ -45292,7 +47171,6 @@ The modern definition of neurosecretion has evolved to include the release of an A transversely striated, synctial muscle cell, formed by the fusion of myoblasts. 2010-09-24T01:13:01Z - CL:0000369 FBbt:00005812 myotubule single cell sarcomere @@ -45542,11 +47420,11 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + @@ -45555,13 +47433,13 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + @@ -45725,6 +47603,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -45766,8 +47645,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -46100,7 +47977,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2011-02-28T03:48:11Z - CL:1000393 FMA:62104 KUPO:0001099 endothelial cell of vein @@ -46461,17 +48337,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - @@ -46479,7 +48344,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function. + A glial cell that myelinates or ensheathes axons in the peripheral nervous system. 2011-03-02T01:19:27Z @@ -46487,13 +48352,21 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0898 MESH:D012583 + A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle. Schwann cell - A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function. + A glial cell that myelinates or ensheathes axons in the peripheral nervous system. GOC:tfm + PMID:16807057 + + + + + A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle. + PMID:16807057 @@ -47711,6 +49584,41 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. + somatic motor neuron + somatomotor neuron + + + + + A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. + ZFIN:CVS + + + + @@ -47792,6 +49700,7 @@ The modern definition of neurosecretion has evolved to include the release of an + Skeletogenic cell that has the potential to develop into a chondroblast; and arises from neural crest, meseosdermal and notochordal and connective tissue cells. 2012-06-27T10:44:01Z @@ -47889,15 +49798,32 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + - A muscle cell that is part of some visceral muscle + + + + + + + A muscle cell that is part of some visceral muscle. FBbt:00005070 visceral muscle cell - A muscle cell that is part of some visceral muscle + A muscle cell that is part of some visceral muscle. GOC:dos @@ -48092,13 +50018,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - + + An endocrine cell that is part of the pancreas. @@ -48113,6 +50034,40 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. + noradrenergic neuron + + + + + A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. + GOC:dos + + + + @@ -48274,8 +50229,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -49255,8 +51209,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -49347,7 +51300,6 @@ The modern definition of neurosecretion has evolved to include the release of an A CNS neuron of the cerebral cortex. - CL:0002609 BTO:0004102 FMA:84104 cortical neuron @@ -49825,7 +51777,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -50134,6 +52085,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -50442,8 +52394,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - + stomach neuroendocrine cell @@ -50487,6 +52440,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -50516,6 +52470,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51415,6 +53370,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51486,6 +53442,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51608,7 +53565,6 @@ The modern definition of neurosecretion has evolved to include the release of an A blood vessel endothelial cell that is part of an arterial endothelium. - CL:0002542 BTO:0004758 FMA:67761 KUPO:0001095 @@ -52139,7 +54095,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -53542,7 +55497,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -53579,8 +55533,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -53698,7 +55651,6 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that is part of a peripheral nervous system. 2014-06-25T02:28:17Z - CL:0000111 FMA:84664 PNS neuron peripheral neuron @@ -54954,7 +56906,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -55032,6 +56983,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -55297,7 +57249,6 @@ The modern definition of neurosecretion has evolved to include the release of an A glial cell that myelinates axonal processes. - CL:0000328 myelinating glial cell @@ -55466,6 +57417,7 @@ The modern definition of neurosecretion has evolved to include the release of an A lymphocyte located in blood. 2022-11-04T14:40:00Z + blood lymphocyte @@ -55491,7 +57443,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -55668,6 +57619,160 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + A smooth muscle cell that is part of a bronchiole. + + + 2023-03-16T09:38:17Z + bronchiolar smooth muscle cell + + + + + A smooth muscle cell that is part of a bronchiole. + ISBN:9781260462982 + PMID:15347627 + + + + + + + + + A megakaryocyte that is resident in the lung connective tissue. + + + 2023-03-16T11:31:23Z + lung MKs + lung megakaryocyte + + + + + A megakaryocyte that is resident in the lung connective tissue. + PMID:33351116 + + + + + lung MKs + PMID:33351116 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + A mucus secreting cell that is part of a submucosal gland of the trachea. + + + 2023-03-16T13:03:13Z + tracheal submucosal gland mucous cell + mucus secreting cell of trachea gland + + + + + A mucus secreting cell that is part of a submucosal gland of the trachea. + PMID:18931053 + PMID:29656943 + + + + + tracheal submucosal gland mucous cell + PMID:18931053 + + + + + + + + + + + + + + + + + + + + + + + + + + + A mucus secreting cell of a submucosal gland of the bronchus. + + + 2023-03-16T15:12:52Z + bronchial gland mucous cell + mucus secreting cell of bronchus submucosal gland + + + + + A mucus secreting cell of a submucosal gland of the bronchus. + PMID:19965983 + + + + + bronchial gland mucous cell + PMID:5487122 + + + + @@ -55781,43 +57886,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid. - acyl-CoA or acyl binding - molecular_function - GO:0000035 - acyl binding - - - - - Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid. - GOC:curators - ISBN:0198506732 - - - - @@ -55917,6 +57985,7 @@ The modern definition of neurosecretion has evolved to include the release of an The lipid bilayer surrounding any of the compartments of the Golgi apparatus. + Golgi apparatus membrane cellular_component GO:0000139 Golgi membrane @@ -56372,7 +58441,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -60165,44 +62234,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases. - molecular_function - GO:0002054 - - nucleobase binding - - - - - Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases. - GOC:hjd - - - - @@ -71432,6 +73463,100 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline. + dph + 2009-12-03T10:34:30Z + norepinephrine secreting neuron differentiation + biological_process + GO:0003357 + noradrenergic neuron differentiation + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline. + GOC:dph + + + + + norepinephrine secreting neuron differentiation + GOC:dph + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. + dph + 2009-12-03T10:38:37Z + norepinephrine secreting neuron development + biological_process + GO:0003358 + noradrenergic neuron development + + + + + The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. + GOC:dph + + + + + norepinephrine secreting neuron development + GOC:dph + + + + @@ -71469,6 +73594,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem. + dph + 2009-12-03T10:53:30Z + biological_process + GO:0003361 + noradrenergic neuron differentiation involved in brainstem development + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem. + GOC:dph + + + + @@ -72052,7 +74214,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process. + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. GO:0005554 molecular function molecular_function @@ -72069,158 +74231,12 @@ The modern definition of neurosecretion has evolved to include the release of an - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process. + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. GOC:pdt - - - - - - - - - - - - - - - - - - - - - - - Binding to a nucleic acid. - GO:0000496 - base pairing - molecular_function - GO:0003676 - - - - - nucleic acid binding - - - - - Binding to a nucleic acid. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - lamin/chromatin binding - microtubule/chromatin interaction - nuclear membrane vesicle binding to chromatin - molecular_function - GO:0003682 - - - - - - chromatin binding - - - - - Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:jl - ISBN:0198506732 - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an RNA molecule or a portion thereof. - GO:0000498 - GO:0044822 - Reactome:R-HSA-203922 - base pairing with RNA - molecular_function - poly(A) RNA binding - poly(A)-RNA binding - poly-A RNA binding - GO:0003723 - - - - - - - - - - - RNA binding - - - - - Binding to an RNA molecule or a portion thereof. - GOC:jl - GOC:mah - - - - - Reactome:R-HSA-203922 - Exportin-5 recognizes 3' overhang of pre-miRNA - - - - @@ -72256,181 +74272,75 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents or reduces the activity of an enzyme. - GO:0048551 - metalloenzyme inhibitor activity - molecular_function - GO:0004857 - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme inhibitor activity - - - - - Binds to and stops, prevents or reduces the activity of an enzyme. - GOC:ai - GOC:ebc - - - - - + - - - Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function. - receptor binding - Wikipedia:Ligand_(biochemistry) - receptor ligand + + + Catalysis of the hydrolysis of ester linkages within nucleic acids. molecular_function - receptor-associated protein activity - GO:0005102 - + GO:0004518 - - + - Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'. - signaling receptor binding + + Note that 'tRNA nucleotidyltransferase activity ; GO:0009022', also known as 'ribonuclease PH', and 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906' do not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. + nuclease activity - + - Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function. - GOC:bf - GOC:ceb - ISBN:0198506732 + Catalysis of the hydrolysis of ester linkages within nucleic acids. + ISBN:0198547684 - + - - - Binding to a cytokine receptor. - hematopoietin/interferon-class (D200-domain) cytokine receptor binding - hematopoietin/interferon-class (D200-domain) cytokine receptor ligand + + + + + + + + + + Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid. + GO:0004537 + Reactome:R-HSA-211247 + Reactome:R-HSA-5685994 + Reactome:R-HSA-6785986 + deoxyribonuclease activity + caspase-activated deoxyribonuclease activity molecular_function - GO:0005126 - cytokine receptor binding + GO:0004536 + DNA nuclease activity - + - Binding to a cytokine receptor. + Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid. GOC:mah - GOC:vw + ISBN:0198547684 - - - hematopoietin/interferon-class (D200-domain) cytokine receptor binding - GOC:add - GOC:mah + + + Reactome:R-HSA-211247 + Cleavage of DNA by DFF40 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a vascular endothelial growth factor receptor. - VEGF receptor binding - VEGFR binding - vascular endothelial growth factor - vascular endothelial growth factor receptor ligand - molecular_function - GO:0005172 - vascular endothelial growth factor receptor binding - - - - Binding to a vascular endothelial growth factor receptor. - GOC:ai + + + Reactome:R-HSA-5685994 + Long-range resection of DNA DSBs by EXO1 or DNA2 - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor. - SCFR binding - KIT binding - SCF - stem cell factor - stem cell factor receptor ligand - molecular_function - GO:0005173 - stem cell factor receptor binding - - - - Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor. - GOC:jl - PMID:10698217 + + + Reactome:R-HSA-6785986 + DNA nucleases unhook the interstrand crosslink (ICL) @@ -72629,7 +74539,83 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-372843 - malate [mitochondrial matrix] + orthophosphate [cytosol] <=> malate [cytosol] + orthophosphate [mitochondrial matrix] + SLC25A10 mediates exchange of malate and phosphate + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid. + L-glutamate transporter activity + glutamate transmembrane transporter activity + RHEA:66336 + Reactome:R-HSA-210444 + Reactome:R-HSA-428052 + Reactome:R-HSA-5624256 + glutamate/aspartate porter activity + glutamate/aspartate:sodium symporter activity + molecular_function + GO:0005313 + L-glutamate transmembrane transporter activity + + + + + Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid. + GOC:ai + GOC:mtg_transport + ISBN:0815340729 + + + + + RHEA:66336 + skos:broadMatch + + + + + Reactome:R-HSA-210444 + L-Glutamate loading of synaptic vesicle + + + + + Reactome:R-HSA-428052 + SLC17A6,7,8 exchange cytosolic L-Glu for synaptic vesicle H+ + + + + + Reactome:R-HSA-5624256 + Defective SLC17A8 does not exchange cytosolic L-Glu for synaptic vesicle H+ @@ -72649,7 +74635,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -72674,14 +74660,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0005319 lipid transporter activity - + - + GO_REF:0000090 @@ -72762,7 +74748,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + Enables the directed movement of a neurotransmitter into, out of or within a cell, or between cells. Neurotransmitters are any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. Reactome:R-HSA-374896 Reactome:R-HSA-374919 @@ -72771,14 +74757,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0005326 neurotransmitter transmembrane transporter activity - + - + GO_REF:0000090 @@ -72993,294 +74979,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule. - Wikipedia:Binding_(molecular) - ligand - molecular_function - GO:0005488 - - - - Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. - binding - - - - - The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule. - GOC:ceb - GOC:mah - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene. - molecular_function - GO:0005496 - - steroid binding - - - - - Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an iron (Fe) ion. - iron binding - molecular_function - GO:0005506 - iron ion binding - - - - - Binding to an iron (Fe) ion. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a protein. - GO:0001948 - GO:0045308 - protein amino acid binding - glycoprotein binding - molecular_function - GO:0005515 - - - - - - protein binding - - - - - Binding to a protein. - GOC:go_curators - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%). - molecular_function - GO:0005518 - collagen binding - - - - - Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%). - GOC:ai - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to D- or L-enantiomers of glucose. - molecular_function - GO:0005536 - glucose binding - - - - - Binding to D- or L-enantiomers of glucose. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues. - molecular_function - GO:0005539 - - glycosaminoglycan binding - - - - - Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine. - hyaluronan binding - molecular_function - GO:0005540 - hyaluronic acid binding - - - - - Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine. - GOC:jl - - - - @@ -73383,32 +75081,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -75029,8 +76727,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75149,7 +76847,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -75195,7 +76892,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75549,26 +77246,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell. - cellular glucan metabolism - biological_process - GO:0006073 - cellular glucan metabolic process - - - - - The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell. - ISBN:0198547684 - - - - @@ -75873,6 +77550,162 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. + GO:0055132 + DNA metabolism + cellular DNA metabolism + biological_process + GO:0006259 + + + + + + + + DNA metabolic process + + + + + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. + ISBN:0198506732 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one. + DNA breakdown + DNA catabolism + DNA degradation + biological_process + GO:0006308 + DNA catabolic process + + + + + The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one. + GOC:go_curators + ISBN:0198506732 + + + + + + + + + + + + + + + + + + + + + + + + + + The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments. + https://github.com/geneontology/go-ontology/issues/24396 + GO:0008178 + DNA fragmentation + chromatinolysis + DNA catabolic process during apoptosis + DNA catabolism during apoptosis + DNA fragmentation involved in apoptotic nuclear change + endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:0006309 + DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases. In human, these include DNA fragmentation factor (DFF) or caspase-activated DNase (CAD) and endonuclease G (Endo G) (reviewed in PMID:15723341). Caution is needed when apoptotic DNA laddering assays show presence of fragmented DNA. A positive assay may simply reflect the end point of a whole apoptotic process. Unless clear experimental evidence is available to show that a gene product is directly involved in fragmenting DNA, please do not annotate to GO:0006309 'apoptotic DNA fragmentation' and consider annotating instead to a more upstream process such as, e.g., GO:0042981 'regulation of apoptotic process', GO:0006915 'apoptotic process', GO:0097190 'apoptotic signaling pathway'. Also, note that gene products involved in compartmentalization of apoptotic nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). + apoptotic DNA fragmentation + + + + + The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments. + GOC:dph + GOC:mah + GOC:mtg_apoptosis + GOC:tb + ISBN:0721639976 + PMID:15723341 + PMID:23379520 + + + + + chromatinolysis + GOC:mtg_apoptosis + + + + + DNA fragmentation involved in apoptotic nuclear change + GOC:cjm + GOC:dph + GOC:tb + + + + @@ -75887,7 +77720,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75963,9 +77796,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -76035,8 +77868,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -76139,7 +77972,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -76209,10 +78042,11 @@ The modern definition of neurosecretion has evolved to include the release of an + + - @@ -76361,7 +78195,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -77789,7 +79622,13 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + A homeostatic process involved in the maintenance of a steady state level of iron ions within a cell. iron homeostasis cellular iron ion homeostasis @@ -78097,6 +79936,100 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/go-ontology/issues/24907 + https://github.com/geneontology/go-ontology/issues/25268 + GO:0016193 + GO:0016196 + GO:0098701 + Wikipedia:Endocytosis + endocytic import into cell + vesicle endocytosis + plasma membrane invagination + biological_process + nonselective vesicle endocytosis + GO:0006897 + + endocytosis + + + + + A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle. + GOC:mah + ISBN:0198506732 + ISBN:0716731363 + Wikipedia:Endocytosis + + + + + + + + + + + + + + + + The evagination of a membrane, resulting in formation of a vesicle. + jl + 2013-12-19T15:26:17Z + GO:0006902 + GO:1902591 + membrane evagination + vesicle biosynthesis + vesicle formation + biological_process + nonselective vesicle assembly + single organism membrane budding + single-organism membrane budding + vesicle budding + GO:0006900 + vesicle budding from membrane + + + + + The evagination of a membrane, resulting in formation of a vesicle. + GOC:jid + GOC:tb + + + + + single organism membrane budding + GOC:TermGenie + + + + @@ -78173,7 +80106,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -78201,6 +80134,7 @@ The modern definition of neurosecretion has evolved to include the release of an A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles. + https://github.com/geneontology/go-ontology/issues/24907 Wikipedia:Phagocytosis biological_process @@ -79503,6 +81437,7 @@ The modern definition of neurosecretion has evolved to include the release of an A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus. + Golgi apparatus organization Golgi organisation biological_process Golgi organization and biogenesis @@ -82443,50 +84378,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a microtubule, a filament composed of tubulin monomers. - Reactome:R-HSA-9614343 - molecular_function - microtubule severing activity - microtubule/chromatin interaction - GO:0008017 - microtubule binding - - - - - Binding to a microtubule, a filament composed of tubulin monomers. - GOC:krc - - - - - Reactome:R-HSA-9614343 - Viral UL47:UL48 Proteins Bind HCMV Tegumented Virion to Host Microtuble and Dynein complexs - - - - @@ -82559,47 +84450,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binds to and increases the activity of an enzyme. - GO:0010577 - metalloenzyme activator activity - molecular_function - GO:0008047 - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme activator activity - - - - - Binds to and increases the activity of an enzyme. - GOC:dph - GOC:mah - GOC:tb - - - - @@ -82787,32 +84637,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton). - molecular_function - GO:0008092 - - - - - - - - - cytoskeletal protein binding - - - - - Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton). - GOC:mah - - - - @@ -82885,39 +84709,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a transcription factor, a protein required to initiate or regulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - TF binding - molecular_function - transcription regulator binding - GO:0008134 - - - - - - - Note that this term should not be used for direct annotation. Please consier one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding. - transcription factor binding - - - - - Binding to a transcription factor, a protein required to initiate or regulate transcription. - ISBN:0198506732 - - - - - A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + https://github.com/geneontology/go-ontology/issues/24968 jl 2012-09-19T15:05:24Z GO:0000004 @@ -82943,7 +84740,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. GOC:pdt @@ -83070,11 +84867,6 @@ The modern definition of neurosecretion has evolved to include the release of an accidental cell death necrosis GO:0008219 - - - - - This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term. cell death @@ -83278,52 +85070,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a lipid. - molecular_function - GO:0008289 - - - - - - - - - - - - lipid binding - - - - - Binding to a lipid. - GOC:ai - - - - @@ -83426,7 +85172,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + Enables the transfer of a protein from one side of a membrane to the other. GO:0015266 GO:0015463 @@ -83455,14 +85201,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0008320 protein transmembrane transporter activity - + - + GO_REF:0000090 @@ -83481,7 +85227,7 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-1299475 - TIMM23 PAM translocates proteins from the mitochndrial intermebrane space to the mitochondrial matrix + TIMM23 PAM translocates proteins from the mitochondrial intermembrane space to the mitochondrial matrix @@ -84000,6 +85746,8 @@ The modern definition of neurosecretion has evolved to include the release of an Enables the transfer of organic anions from one side of a membrane to the other. Organic anions are atoms or small molecules with a negative charge which contain carbon in covalent linkage. Reactome:R-HSA-2142859 + Reactome:R-HSA-561041 + Reactome:R-HSA-9794830 molecular_function GO:0008514 organic anion transmembrane transporter activity @@ -84016,6 +85764,18 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-2142859 Growing HA is extruded from the cell by ABCC5 + + + + Reactome:R-HSA-561041 + OAT1-3 transport organic anions with antiport of dicarboxylic acids + + + + + Reactome:R-HSA-9794830 + SLC22A8 transports Cipro into renal cell + @@ -84443,6 +86203,9 @@ The modern definition of neurosecretion has evolved to include the release of an macromolecule degradation multicellular organismal macromolecule catabolic process biological_process + cellular macromolecule catabolic process + cellular macromolecule catabolism + cellular macromolecule degradation GO:0009057 macromolecule catabolic process @@ -84518,6 +86281,7 @@ The modern definition of neurosecretion has evolved to include the release of an The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. + http://amigo.geneontology.org/amigo/term/GO:0070589 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -84718,7 +86482,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -84757,8 +86520,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -84837,8 +86600,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + @@ -86866,6 +88629,7 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0009987 + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular process @@ -87447,6 +89211,29 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + The infolding of a membrane. + jl + 2013-12-02T13:58:34Z + GO:1902534 + biological_process + single-organism membrane invagination + GO:0010324 + + membrane invagination + + + + + The infolding of a membrane. + GOC:tb + + + + @@ -88053,8 +89840,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -88092,7 +89879,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -88129,9 +89915,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -90002,119 +91788,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010675 - regulation of cellular carbohydrate metabolic process - - - - - Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010676 - positive regulation of cellular carbohydrate metabolic process - - - - - Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010677 - negative regulation of cellular carbohydrate metabolic process - - - - - Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - @@ -91947,7 +93620,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -91991,8 +93664,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -92245,79 +93918,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - biological_process - GO:0010941 - regulation of cell death - - - - - Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - biological_process - GO:0010942 - positive regulation of cell death - - - - - Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:dph - GOC:tb - - - - @@ -92409,9 +94009,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -92790,6 +94388,7 @@ The modern definition of neurosecretion has evolved to include the release of an A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell. + https://github.com/geneontology/go-ontology/issues/24835 GO:0016244 regulated cell death Wikipedia:Programmed_cell_death @@ -92801,7 +94400,12 @@ The modern definition of neurosecretion has evolved to include the release of an RCD caspase-independent apoptosis GO:0012501 + + + + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -95816,7 +97420,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -95831,14 +97435,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015075 monoatomic ion transmembrane transporter activity - + - + GO_REF:0000090 @@ -95934,6 +97538,9 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-549322 Reactome:R-HSA-561054 Reactome:R-HSA-561072 + Reactome:R-HSA-9794270 + Reactome:R-HSA-9794523 + Reactome:R-HSA-9795207 molecular_function GO:0015101 organic cation transmembrane transporter activity @@ -95988,6 +97595,24 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-561072 OCT3 mediates renal uptake of organic cations + + + + Reactome:R-HSA-9794270 + SLCO1A2 transports Cipro(1+) into the cytosol + + + + + Reactome:R-HSA-9794523 + SLC22A1 transports Cipro into renal cell + + + + + Reactome:R-HSA-9795207 + SLC22A1 transports Cipro into hepatic cell + @@ -96096,7 +97721,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96113,14 +97738,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015114 phosphate ion transmembrane transporter activity - + - + GO_REF:0000090 @@ -96154,7 +97779,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96172,14 +97797,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015116 sulfate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96224,7 +97849,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96236,14 +97861,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015123 acetate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96290,6 +97915,7 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-194130 Reactome:R-HSA-5661184 Reactome:R-HSA-5661198 + Reactome:R-HSA-9733964 molecular_function GO:0015125 bile acid transmembrane transporter activity @@ -96330,6 +97956,12 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-5661198 Defective SLCO1B3 does not transport BIL from extracellular region (blood) to cytosol (hepatocyte) + + + + Reactome:R-HSA-9733964 + SLC51A:SLC51B transports bile salts from cytosol to extracellular region + @@ -96411,7 +98043,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96426,14 +98058,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015144 carbohydrate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96505,7 +98137,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96519,14 +98151,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015149 hexose transmembrane transporter activity - + - + GO_REF:0000090 @@ -96611,7 +98243,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96675,14 +98307,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015171 amino acid transmembrane transporter activity - + - + GO_REF:0000090 @@ -96972,6 +98604,40 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3. + acidic amino acid transporter activity + Reactome:R-HSA-372448 + molecular_function + GO:0015172 + acidic amino acid transmembrane transporter activity + + + + + Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3. + GOC:ai + GOC:mtg_transport + ISBN:0815340729 + + + + + Reactome:R-HSA-372448 + SLC25A12,13 exchange cytosolic L-Glu for mitochondrial matrix L-Asp + + + + @@ -96987,7 +98653,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -97001,14 +98667,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015179 L-amino acid transmembrane transporter activity - + - + GO_REF:0000090 @@ -97151,24 +98817,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to monomeric or multimeric forms of tubulin, including microtubules. - molecular_function - GO:0015631 - tubulin binding - - - - - Binding to monomeric or multimeric forms of tubulin, including microtubules. - GOC:clt - - - - @@ -97618,6 +99266,44 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of L-glutamate across a membrane. + GO:0089711 + L-glutamate transport + biological_process + mitochondrial aspartate/glutamate transport + GO:0015813 + L-glutamate transmembrane transport + + + + + The directed movement of L-glutamate across a membrane. + PMID:21307582 + + + + @@ -97846,6 +99532,50 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + DNA-protein complex transport + biological_process + GO:0015869 + protein-DNA complex transport + + + + + The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:ai + + + + + DNA-protein complex transport + GOC:mah + + + + @@ -98864,7 +100594,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms. + The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. + https://github.com/geneontology/go-ontology/issues/24787 Wikipedia:Cell_migration biological_process GO:0016477 @@ -98873,7 +100604,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms. + The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. GOC:cjm GOC:dph GOC:ems @@ -98986,79 +100717,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to glutamate, the anion of 2-aminopentanedioic acid. - glutamic acid binding - molecular_function - GO:0016595 - glutamate binding - - - - - Binding to glutamate, the anion of 2-aminopentanedioic acid. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an amino acid, organic acids containing one or more amino substituents. - molecular_function - GO:0016597 - - - amino acid binding - - - - - Binding to an amino acid, organic acids containing one or more amino substituents. - GOC:ai - - - - @@ -99138,41 +100796,137 @@ The modern definition of neurosecretion has evolved to include the release of an - + - - - - - - - - - - - - - - - - - - - - - Binding to a peptide with hormonal activity in animals. - polypeptide hormone binding + + + Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. + EC:3.-.-.- + Reactome:R-HSA-1236938 + Reactome:R-HSA-2029475 + Reactome:R-HSA-5694583 + Reactome:R-HSA-5695964 + Reactome:R-HSA-6786190 + Reactome:R-HSA-6788295 + Reactome:R-HSA-8938314 + Reactome:R-HSA-8952137 molecular_function - GO:0017046 - peptide hormone binding + GO:0016787 + + + + + + + + + + + hydrolase activity - + - Binding to a peptide with hormonal activity in animals. - GOC:jl + Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. ISBN:0198506732 + + + + Reactome:R-HSA-1236938 + Partial proteolysis of antigen in phagolysosomes + + + + + Reactome:R-HSA-2029475 + Production of AA by iPLA2 upon FCGR activation + + + + + Reactome:R-HSA-5694583 + ABHD4 hydrolyses NAPE + + + + + Reactome:R-HSA-5695964 + ABHD14B hydrolyses PNPB + + + + + Reactome:R-HSA-6786190 + CMBL hydrolyses OM to OLMS + + + + + Reactome:R-HSA-6788295 + HDHD1:Mg2+ dephosphorylates PURIDP + + + + + Reactome:R-HSA-8938314 + ENPPs hydrolyse CoA-SH to PPANT, PAP + + + + + Reactome:R-HSA-8952137 + Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate + + + + + + + + + Catalysis of the hydrolysis of any ester bond. + EC:3.1.-.- + Reactome:R-HSA-162729 + Reactome:R-HSA-9023617 + Reactome:R-HSA-9023619 + Reactome:R-HSA-9749609 + esterase activity + molecular_function + GO:0016788 + + hydrolase activity, acting on ester bonds + + + + + Catalysis of the hydrolysis of any ester bond. + GOC:jl + + + + + Reactome:R-HSA-162729 + uPAR-acyl-GPI + H2O -> uPAR + long-chain fatty acid + + + + + Reactome:R-HSA-9023617 + Butyrylcholinesterase hydrolyzes acyl Ghrelin + + + + + Reactome:R-HSA-9023619 + Platelet-activating factor acetylhydrolase (PLA2G7) hydrolyzes acyl Ghrelin + + + + + Reactome:R-HSA-9749609 + BCHE hydrolyzes ASA- + @@ -99293,10 +101047,11 @@ The modern definition of neurosecretion has evolved to include the release of an + + - @@ -99497,113 +101252,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - molecular_function - GO:0019207 - kinase regulator activity - - - - - Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - molecular_function - GO:0019209 - kinase activator activity - - - - - Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents or reduces the activity of a kinase. - molecular_function - GO:0019210 - kinase inhibitor activity - - - - - Binds to and stops, prevents or reduces the activity of a kinase. - GOC:mah - - - - @@ -100201,6 +101849,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids. + D-amino acid breakdown + D-amino acid catabolism + D-amino acid degradation + biological_process + GO:0019478 + D-amino acid catabolic process + + + + + The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + @@ -100466,45 +102154,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to oxygen (O2). - cytochrome P450 - molecular_function - cytochrome P450 activity - GO:0019825 - - - oxygen binding - - - - - Binding to oxygen (O2). - GOC:jl - - - - @@ -100850,6 +102499,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate. + biological_process + GO:0021523 + somatic motor neuron differentiation + + + + + The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate. + GOC:cls + GOC:dgh + GOC:dph + GOC:jid + GO_REF:0000021 + PMID:11262869 + + + + @@ -106458,11 +108147,11 @@ The modern definition of neurosecretion has evolved to include the release of an The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex. RNA-protein complex assembly RNP complex assembly - protein-RNA complex assembly + ribonucleoprotein complex assembly biological_process GO:0022618 - ribonucleoprotein complex assembly + protein-RNA complex assembly @@ -106738,6 +108427,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the frequency, rate or extent of transmembrane transporter activity. biological_process GO:0022898 + regulation of transmembrane transporter activity @@ -106794,80 +108484,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a major histocompatibility complex. - 2010-02-16T09:30:50Z - molecular_function - GO:0023023 - MHC protein complex binding - - - - - Binding to a major histocompatibility complex. - GOC:mtg_signal - GOC:vw - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a class II major histocompatibility complex. - 2010-02-16T09:30:50Z - molecular_function - GO:0023026 - MHC class II protein complex binding - - - - - Binding to a class II major histocompatibility complex. - GOC:mtg_signal - GOC:vw - - - - @@ -106921,7 +108537,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered. jl 2010-02-16T09:30:50Z @@ -107823,6 +109439,42 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of endocytosis. + biological_process + GO:0030100 + regulation of endocytosis + + + + + Any process that modulates the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + @@ -107929,7 +109581,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + https://github.com/geneontology/go-ontology/issues/24390 Wikipedia:Cellular_differentiation biological_process GO:0030154 @@ -107944,7 +109597,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. ISBN:0198506732 @@ -108678,62 +110331,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binds to and modulates the activity of an enzyme. - GO:0010576 - catalytic regulator activity - enzyme modulator - metalloenzyme regulator activity - molecular_function - GO:0030234 - - - - - - - - - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme regulator activity - - - - - Binds to and modulates the activity of an enzyme. - GOC:dph - GOC:mah - GOC:tb - - - - - catalytic regulator activity - GOC:dph - - - - @@ -108778,88 +110375,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates. - GO:0005529 - sugar binding - molecular_function - selectin - GO:0030246 - - - - - - - - carbohydrate binding - - - - - Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically. - GO:0002506 - polysaccharide assembly with MHC class II protein complex - molecular_function - GO:0030247 - polysaccharide binding - - - - - Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically. - GOC:mah - - - - @@ -109847,6 +111362,7 @@ The modern definition of neurosecretion has evolved to include the release of an A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell. + https://github.com/geneontology/go-ontology/issues/24514 sulphate ion homeostasis cellular sulfate ion homeostasis biological_process @@ -109858,6 +111374,7 @@ The modern definition of neurosecretion has evolved to include the release of an A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell. GOC:mah + PMID:24193406 @@ -109882,6 +111399,7 @@ The modern definition of neurosecretion has evolved to include the release of an cellular phosphate ion homeostasis biological_process GO:0030643 + intracellular phosphate ion homeostasis @@ -113012,79 +114530,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a sodium ion (Na+). - Na+ ion binding - molecular_function - GO:0031402 - sodium ion binding - - - - - Binding to a sodium ion (Na+). - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-). - molecular_function - GO:0031406 - - carboxylic acid binding - - - - - Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-). - GOC:mah - ISBN:0198506732 - - - - @@ -113170,41 +114615,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen. - molecular_function - GO:0031420 - alkali metal ion binding - - - - - Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen. - GOC:mah - - - - @@ -113889,41 +115299,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a bile acid, a steroid carboxylic acids occurring in bile. - molecular_function - GO:0032052 - bile acid binding - - - - - Binding to a bile acid, a steroid carboxylic acids occurring in bile. - GOC:rph - - - - @@ -114109,82 +115484,254 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + biological_process + nuclease regulator activity + GO:0032069 + + regulation of nuclease activity + + + + + Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + biological_process + DNase regulator + deoxyribonuclease regulator + GO:0032070 + + regulation of deoxyribonuclease activity + + + + + Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + GOC:mah + + + + + - + - + - - + + + - + - Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding. - down regulation of protein binding - down-regulation of protein binding - downregulation of protein binding - inhibition of protein binding + Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + down regulation of nuclease activity + down-regulation of nuclease activity + downregulation of nuclease activity + inhibition of nuclease activity biological_process - GO:0032091 - negative regulation of protein binding + nuclease inhibitor + GO:0032074 + + negative regulation of nuclease activity - + - Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding. + Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids. GOC:mah - + - + - + - - + + + - + - Any process that activates or increases the frequency, rate or extent of protein binding. - up regulation of protein binding - up-regulation of protein binding - upregulation of protein binding - activation of protein binding - stimulation of protein binding + Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + up regulation of nuclease activity + up-regulation of nuclease activity + upregulation of nuclease activity + activation of nuclease activity + stimulation of nuclease activity biological_process - GO:0032092 - positive regulation of protein binding + nuclease activator + GO:0032075 + + positive regulation of nuclease activity - + - Any process that activates or increases the frequency, rate or extent of protein binding. + Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + down regulation of deoxyribonuclease activity + down-regulation of deoxyribonuclease activity + downregulation of deoxyribonuclease activity + inhibition of deoxyribonuclease activity + biological_process + DNase inhibitor + deoxyribonuclease inhibitor + GO:0032076 + + negative regulation of deoxyribonuclease activity + + + + + Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + up regulation of deoxyribonuclease activity + up-regulation of deoxyribonuclease activity + upregulation of deoxyribonuclease activity + activation of deoxyribonuclease activity + stimulation of deoxyribonuclease activity + biological_process + DNase activator + deoxyribonuclease activator + GO:0032077 + + positive regulation of deoxyribonuclease activity + + + + + Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. GOC:mah @@ -115771,6 +117318,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the activity of a transporter. biological_process GO:0032409 + regulation of transporter activity @@ -115812,6 +117360,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of transporter activity biological_process GO:0032410 + negative regulation of transporter activity @@ -115854,6 +117403,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of transporter activity biological_process GO:0032411 + positive regulation of transporter activity @@ -115891,6 +117441,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of ion transporter activity biological_process GO:0032412 + regulation of monoatomic ion transmembrane transporter activity @@ -115940,6 +117491,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of ion transporter activity biological_process GO:0032413 + negative regulation of ion transmembrane transporter activity @@ -115990,6 +117542,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of ion transporter activity biological_process GO:0032414 + positive regulation of ion transmembrane transporter activity @@ -116683,6 +118236,7 @@ The modern definition of neurosecretion has evolved to include the release of an dsRNA biosynthetic process biological_process GO:0032774 + Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study. RNA biosynthetic process @@ -117959,6 +119513,49 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The disaggregation of a protein-DNA complex into its constituent components. + DNA-protein complex disassembly + biological_process + GO:0032986 + protein-DNA complex disassembly + + + + + The disaggregation of a protein-DNA complex into its constituent components. + GOC:mah + + + + + DNA-protein complex disassembly + GOC:mah + + + + @@ -117982,12 +119579,13 @@ The modern definition of neurosecretion has evolved to include the release of an The disaggregation of a protein-RNA complex into its constituent components. + https://github.com/geneontology/go-ontology/issues/25143 RNA-protein complex disassembly RNP complex disassembly - protein-RNA complex disassembly + ribonucleoprotein complex disassembly biological_process GO:0032988 - ribonucleoprotein complex disassembly + protein-RNA complex disassembly @@ -118114,6 +119712,39 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + A macromolecular complex containing both protein and DNA molecules. + DNA-protein complex + cellular_component + GO:0032993 + + Note that this term is intended to classify complexes that have DNA as one of the members of the complex, that is, the complex does not exist if DNA is not present. Protein complexes that interact with DNA e.g. transcription factor complexes should not be classified here. + protein-DNA complex + + + + + A macromolecular complex containing both protein and DNA molecules. + GOC:mah + + + + + DNA-protein complex + GOC:mah + + + + @@ -118928,6 +120559,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid. + D-glutamate metabolism + biological_process + GO:0033054 + D-glutamate metabolic process + + + + + The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid. + GOC:jsg + GOC:mah + + + + @@ -119055,7 +120723,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of iron ions from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis. mah 2009-05-01T04:19:14Z @@ -119079,42 +120758,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group. - molecular_function - GO:0033218 - - amide binding - - - - - Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group. - GOC:mah - - - - @@ -119393,157 +121036,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-). - molecular_function - GO:0033293 - monocarboxylic acid binding - - - - - Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-). - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of collagen binding. - biological_process - GO:0033341 - regulation of collagen binding - - - - - Any process that modulates the frequency, rate or extent of collagen binding. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding. - down regulation of collagen binding - down-regulation of collagen binding - downregulation of collagen binding - inhibition of collagen binding - biological_process - GO:0033342 - negative regulation of collagen binding - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of collagen binding. - up regulation of collagen binding - up-regulation of collagen binding - upregulation of collagen binding - activation of collagen binding - stimulation of collagen binding - biological_process - GO:0033343 - positive regulation of collagen binding - - - - - Any process that activates or increases the frequency, rate or extent of collagen binding. - GOC:mah - - - - @@ -120020,6 +121512,7 @@ The modern definition of neurosecretion has evolved to include the release of an kinase inhibitor biological_process GO:0033673 + negative regulation of kinase activity @@ -120062,6 +121555,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of kinase activity biological_process GO:0033674 + positive regulation of kinase activity @@ -120073,33 +121567,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell. - cellular glycan biosynthesis - cellular glycan biosynthetic process - cellular polysaccharide anabolism - cellular polysaccharide biosynthesis - cellular polysaccharide formation - cellular polysaccharide synthesis - biological_process - GO:0033692 - cellular polysaccharide biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell. - GOC:go_curators - - - - @@ -121486,26 +122953,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells. - biological_process - GO:0034637 - cellular carbohydrate biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells. - GOC:mah - - - - @@ -121527,62 +122974,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells. - GO:0034961 - cellular biopolymer biosynthetic process - cellular macromolecule anabolism - cellular macromolecule biosynthesis - cellular macromolecule formation - cellular macromolecule synthesis - biological_process - GO:0034645 - cellular macromolecule biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells. - GOC:mah - - - - - cellular biopolymer biosynthetic process - GOC:mtg_chebi_dec09 - - - - - cellular macromolecule anabolism - GOC:mah - - - - - cellular macromolecule biosynthesis - GOC:mah - - - - - cellular macromolecule formation - GOC:mah - - - - - cellular macromolecule synthesis - GOC:mah - - - - @@ -123382,122 +124773,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:28:36Z - biological_process - GO:0035561 - regulation of chromatin binding - - - - - Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:29:06Z - biological_process - GO:0035562 - negative regulation of chromatin binding - - - - - Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:29:41Z - biological_process - GO:0035563 - positive regulation of chromatin binding - - - - - Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - @@ -124514,7 +125789,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -125491,31 +126765,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule. - bf - 2012-01-17T04:20:34Z - molecular_function - GO:0036094 - - - Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. - small molecule binding - - - - - Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule. - GOC:curators - GOC:pde - GOC:pm - - - - @@ -126018,6 +127267,7 @@ The modern definition of neurosecretion has evolved to include the release of an The joining of two lipid bilayers that surround the Golgi apparatus to form a single Golgi membrane. bf 2015-05-21T10:05:06Z + Golgi apparatus membrane fusion membrane fusion involved in Golgi reassembly post-mitotic fusion of Golgi membranes biological_process @@ -127589,61 +128839,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. - molecular_function - GO:0042165 - - neurotransmitter binding - - - - - Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions. - molecular_function - GO:0042166 - acetylcholine binding - - - - - Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions. - GOC:ai - - - - @@ -128233,78 +129428,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds. - molecular_function - GO:0042277 - - - peptide binding - - - - - Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a phosphate ion. - molecular_function - GO:0042301 - phosphate ion binding - - - - - Binding to a phosphate ion. - GOC:jl - - - - @@ -129099,7 +130222,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129122,7 +130245,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129135,7 +130258,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + A tissue-specific, membrane-bounded cytoplasmic organelle within which melanin pigments are synthesized and stored. Melanosomes are synthesized in melanocyte cells. @@ -129144,7 +130267,7 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0042470 melanosome - + @@ -129152,7 +130275,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129160,26 +130283,26 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + GOC:kmv - + GOC:kmv - + GOC:kmv @@ -129389,26 +130512,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor. - molecular_function - GO:0042562 - - - hormone binding - - - - - Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor. - GOC:jl - - - - @@ -129940,6 +131043,89 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + biological_process + GO:0042940 + D-amino acid transport + + + + + The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:jl + GOC:jsg + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids. + D-amino acid transporter activity + molecular_function + GO:0042943 + D-amino acid transmembrane transporter activity + + + + + Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids. + GOC:jl + GOC:jsg + GOC:mah + GOC:mtg_transport + ISBN:0815340729 + + + + @@ -130387,98 +131573,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a complex of RNA and protein. - RNP binding - protein-RNA complex binding - ribonucleoprotein binding - molecular_function - GO:0043021 - - ribonucleoprotein complex binding - - - - - Binding to a complex of RNA and protein. - GOC:bf - GOC:go_curators - GOC:vk - - - - - protein-RNA complex binding - GOC:bf - GOC:vk - - - - - ribonucleoprotein binding - GOC:bf - GOC:vk - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a ribosome. - GO:0030376 - ribosome receptor activity - molecular_function - GO:0043022 - ribosome binding - - - - - Binding to a ribosome. - GOC:go_curators - - - - @@ -130878,7 +131972,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -130915,8 +132009,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -130959,7 +132053,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -131062,6 +132156,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0043085 + positive regulation of catalytic activity @@ -131118,6 +132213,7 @@ The modern definition of neurosecretion has evolved to include the release of an negative regulation of metalloenzyme activity biological_process GO:0043086 + negative regulation of catalytic activity @@ -131291,116 +132387,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an ion, a charged atoms or groups of atoms. - molecular_function - atom binding - GO:0043167 - - - - - ion binding - - - - - Binding to an ion, a charged atoms or groups of atoms. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an anion, a charged atom or group of atoms with a net negative charge. - molecular_function - GO:0043168 - anion binding - - - - - Binding to an anion, a charged atom or group of atoms with a net negative charge. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a cation, a charged atom or group of atoms with a net positive charge. - molecular_function - GO:0043169 - cation binding - - - - - Binding to a cation, a charged atom or group of atoms with a net positive charge. - GOC:jl - - - - @@ -131423,6 +132409,7 @@ The modern definition of neurosecretion has evolved to include the release of an The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. + GO:0034960 GO:0043283 GO:0044259 biopolymer metabolic process @@ -131489,118 +132476,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group. - molecular_function - GO:0043176 - - amine binding - - - - - Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an organic acid, any acidic compound containing carbon in covalent linkage. - molecular_function - GO:0043177 - organic acid binding - - - - - Binding to an organic acid, any acidic compound containing carbon in covalent linkage. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a vascular endothelial growth factor receptor 2. - KDR binding - Flk-1 binding - VEGF receptor 2 binding - VEGFR 2 binding - kinase domain region binding - molecular_function - GO:0043184 - vascular endothelial growth factor receptor 2 binding - - - - - Binding to a vascular endothelial growth factor receptor 2. - GOC:st - - - - @@ -131665,42 +132540,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to sulfate, SO4(2-), a negatively charged small molecule. - molecular_function - GO:0043199 - sulfate binding - - - - - Binding to sulfate, SO4(2-), a negatively charged small molecule. - GOC:mlg - - - - @@ -132761,41 +133600,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of protein binding. - biological_process - GO:0043393 - regulation of protein binding - - - - - Any process that modulates the frequency, rate or extent of protein binding. - GOC:go_curators - - - - @@ -132991,44 +133795,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells. - biological_process - GO:0043471 - regulation of cellular carbohydrate catabolic process - - - - - Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells. - GOC:jl - - - - @@ -133513,6 +134279,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule. biological_process GO:0043549 + regulation of kinase activity @@ -133524,69 +134291,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms. - - molecular_function - GO:0043559 - insulin binding - - - - - Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms. - ISBN:0198506732 - - - - @@ -134744,6 +135448,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2009-04-21T04:07:27Z biological_process GO:0044092 + negative regulation of molecular function @@ -134781,6 +135486,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2009-04-21T04:11:06Z biological_process GO:0044093 + positive regulation of molecular function @@ -134831,6 +135537,7 @@ The modern definition of neurosecretion has evolved to include the release of an intermediary metabolism GO:0044237 + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular metabolic process @@ -134869,29 +135576,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells. - cellular polysaccharide breakdown - cellular polysaccharide catabolism - cellular polysaccharide degradation - biological_process - GO:0044247 - cellular polysaccharide catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells. - GOC:jl - - - - @@ -134976,111 +135660,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells. - GO:0034960 - cellular biopolymer metabolic process - cellular macromolecule metabolism - biological_process - GO:0044260 - cellular macromolecule metabolic process - - - - - The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells. - GOC:mah - - - - - cellular biopolymer metabolic process - GOC:mtg_chebi_dec09 - - - - - - - - - - The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GO:0006092 - cellular carbohydrate metabolism - main pathways of carbohydrate metabolic process - main pathways of carbohydrate metabolism - biological_process - GO:0044262 - cellular carbohydrate metabolic process - - - - - The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:jl - - - - - - - - - - - The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells. - cellular glycan metabolic process - cellular glycan metabolism - cellular polysaccharide metabolism - biological_process - GO:0044264 - cellular polysaccharide metabolic process - - - - - The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells. - GOC:jl - - - - - - - - - - - The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells. - GO:0034962 - cellular biopolymer catabolic process - cellular macromolecule breakdown - cellular macromolecule catabolism - cellular macromolecule degradation - biological_process - GO:0044265 - cellular macromolecule catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells. - GOC:jl - - - - - cellular biopolymer catabolic process - GOC:mtg_chebi_dec09 - - - - @@ -135211,29 +135790,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - cellular carbohydrate breakdown - cellular carbohydrate catabolism - cellular carbohydrate degradation - biological_process - GO:0044275 - cellular carbohydrate catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:jl - - - - @@ -135852,84 +136408,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A protein complex that plays a role in the process of DNA packaging. - jl - 2013-09-19T11:33:45Z - cellular_component - GO:0044815 - DNA packaging complex - - - - - A protein complex that plays a role in the process of DNA packaging. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a macromolecular complex. - jl - 2014-12-16T11:38:58Z - GO:0032403 - protein complex binding - molecular_function - macromolecular complex binding - GO:0044877 - - protein-containing complex binding - - - - - Binding to a macromolecular complex. - GOC:jl - - - - @@ -136101,7 +136579,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field. + The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate. + https://github.com/geneontology/go-ontology/issues/24390 biological_process GO:0045165 Note that this term was 'cell fate determination' but the term name was changed to better match its existing definition and the child term 'cell fate determination; GO:0001709' was also created. @@ -136110,7 +136589,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field. + The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate. ISBN:0716731185 @@ -136167,48 +136646,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome. - translation factor activity - molecular_function - GO:0045182 - - - - - - - translation regulator activity - - - - - Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome. - GOC:ai - - - - @@ -136688,41 +137125,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to cadherin, a type I membrane protein involved in cell adhesion. - molecular_function - GO:0045296 - cadherin binding - - - - - Binding to cadherin, a type I membrane protein involved in cell adhesion. - GOC:bf - - - - @@ -139342,8 +139744,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -139387,8 +139789,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -140579,6 +140981,89 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis. + down regulation of endocytosis + down-regulation of endocytosis + downregulation of endocytosis + inhibition of endocytosis + biological_process + GO:0045806 + negative regulation of endocytosis + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of endocytosis. + up regulation of endocytosis + up-regulation of endocytosis + upregulation of endocytosis + activation of endocytosis + stimulation of endocytosis + biological_process + GO:0045807 + positive regulation of endocytosis + + + + + Any process that activates or increases the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + @@ -142852,6 +143337,84 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids. + D-amino acid metabolism + biological_process + GO:0046416 + D-amino acid metabolic process + + + + + The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + + + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids. + D-amino acid anabolism + D-amino acid biosynthesis + D-amino acid formation + D-amino acid synthesis + biological_process + GO:0046437 + D-amino acid biosynthetic process + + + + + The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + @@ -143970,48 +144533,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin. - hydroxylapatite binding - molecular_function - GO:0046848 - hydroxyapatite binding - - - - - Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin. - PMID:2438276 - - - - - hydroxylapatite binding - GOC:vk - - - - @@ -144148,47 +144669,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a metal ion. - metal binding - heavy metal binding - molecular_function - GO:0046872 - - - - - metal ion binding - - - - - Binding to a metal ion. - GOC:ai - - - - @@ -144498,46 +144978,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position. - porphyrin binding - molecular_function - GO:0046906 - - - tetrapyrrole binding - - - - - Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position. - GOC:curators - ISBN:0198506732 - - - - @@ -144586,41 +145026,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver. - molecular_function - GO:0046914 - transition metal ion binding - - - - - Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver. - ISBN:0198506732 - - - - @@ -144866,42 +145271,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides. - molecular_function - GO:0048029 - monosaccharide binding - - - - - Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides. - GOC:jid - - - - @@ -145408,6 +145777,61 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The evagination of the Golgi membrane, resulting in formation of a vesicle. + Golgi-derived vesicle budding + dictyosome vesicle budding + biological_process + GO:0048194 + Golgi vesicle budding + + + + + The evagination of the Golgi membrane, resulting in formation of a vesicle. + GOC:jid + ISBN:0716731363 + PMID:10219233 + + + + @@ -145864,6 +146288,7 @@ The modern definition of neurosecretion has evolved to include the release of an The partitioning of Golgi apparatus between daughter cells at cell division. + Golgi apparatus inheritance Golgi division Golgi partitioning biological_process @@ -146475,7 +146900,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. + The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place. + https://github.com/geneontology/go-ontology/issues/24390 biological_process terminal differentiation GO:0048468 @@ -146485,7 +146911,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. + The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place. GOC:go_curators @@ -146526,7 +146952,8 @@ The modern definition of neurosecretion has evolved to include the release of an - A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state. + The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state. + https://github.com/geneontology/go-ontology/issues/24390 biological_process functional differentiation GO:0048469 @@ -146536,7 +146963,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state. + The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state. GOC:go_curators @@ -151897,7 +152324,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -151959,8 +152386,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -151999,8 +152426,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -152571,6 +152998,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0050790 + regulation of catalytic activity @@ -153123,67 +153551,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a cell adhesion molecule. - CAM binding - molecular_function - adhesive extracellular matrix constituent - cell adhesion molecule activity - cell adhesion receptor activity - GO:0050839 - cell adhesion molecule binding - - - - - Binding to a cell adhesion molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a component of the extracellular matrix. - extracellular matrix constituent binding - molecular_function - adhesive extracellular matrix constituent - GO:0050840 - - - extracellular matrix binding - - - - - Binding to a component of the extracellular matrix. - GOC:ai - - - - @@ -154500,6 +154867,41 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + biological_process + GO:0051027 + DNA transport + + + + + The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:ai + + + + @@ -154590,6 +154992,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other. + molecular_function + GO:0051035 + DNA transmembrane transporter activity + + + + + Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other. + GOC:ai + + + + @@ -154823,6 +155266,129 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA. + regulation of DNA metabolism + biological_process + GO:0051052 + + regulation of DNA metabolic process + + + + + Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA. + down regulation of DNA metabolic process + down-regulation of DNA metabolic process + downregulation of DNA metabolic process + negative regulation of DNA metabolism + inhibition of DNA metabolic process + biological_process + GO:0051053 + negative regulation of DNA metabolic process + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA. + positive regulation of DNA metabolism + up regulation of DNA metabolic process + up-regulation of DNA metabolic process + upregulation of DNA metabolic process + activation of DNA metabolic process + stimulation of DNA metabolic process + biological_process + GO:0051054 + positive regulation of DNA metabolic process + + + + + Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + @@ -154875,41 +155441,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters. - molecular_function - GO:0051059 - NF-kappaB binding - - - - - Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters. - GOC:ai - - - - @@ -155065,122 +155596,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - biological_process - GO:0051098 - regulation of binding - - - - - Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - up regulation of binding - up-regulation of binding - upregulation of binding - activation of binding - stimulation of binding - biological_process - GO:0051099 - positive regulation of binding - - - - - Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - down regulation of binding - down-regulation of binding - downregulation of binding - inhibition of binding - biological_process - GO:0051100 - negative regulation of binding - - - - - Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - @@ -157120,6 +157535,12 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + @@ -157139,6 +157560,7 @@ The modern definition of neurosecretion has evolved to include the release of an Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions. + https://github.com/geneontology/go-ontology/issues/24599 GO:0007126 Wikipedia:Meiosis biological_process @@ -157158,6 +157580,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3. + hydrolase regulator + biological_process + GO:0051336 + + regulation of hydrolase activity + + + + + Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3. + GOC:ai + + + + @@ -157184,6 +157643,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0051338 + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. regulation of transferase activity @@ -157196,161 +157656,175 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + - + - + - + - Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. - transferase activator - up regulation of transferase activity - up-regulation of transferase activity - upregulation of transferase activity - activation of transferase activity - stimulation of transferase activity + Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds. + hydrolase activator + up regulation of hydrolase activity + up-regulation of hydrolase activity + upregulation of hydrolase activity + activation of hydrolase activity + stimulation of hydrolase activity biological_process - GO:0051347 - - This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. - positive regulation of transferase activity + GO:0051345 + + positive regulation of hydrolase activity - + - Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds. GOC:ai - + - + - + - + - + - Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. - down regulation of transferase activity - down-regulation of transferase activity - downregulation of transferase activity - transferase inhibitor - inhibition of transferase activity + Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds. + down regulation of hydrolase activity + down-regulation of hydrolase activity + downregulation of hydrolase activity + hydrolase inhibitor + inhibition of hydrolase activity biological_process - GO:0051348 - - This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. - negative regulation of transferase activity + GO:0051346 + + negative regulation of hydrolase activity - + - Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds. GOC:ai - + - + - + - - + + - - + + - - + + - Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties. - 5-hydroxytryptamine binding - molecular_function - GO:0051378 - serotonin binding + Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + transferase activator + up regulation of transferase activity + up-regulation of transferase activity + upregulation of transferase activity + activation of transferase activity + stimulation of transferase activity + biological_process + GO:0051347 + + + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. + positive regulation of transferase activity - + - Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties. + Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. GOC:ai - + - + - + - - + + - + + - - + + - Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine. - noradrenaline binding - molecular_function - GO:0051380 - norepinephrine binding + Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + down regulation of transferase activity + down-regulation of transferase activity + downregulation of transferase activity + transferase inhibitor + inhibition of transferase activity + biological_process + GO:0051348 + + + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. + negative regulation of transferase activity - + - Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine. + Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. GOC:ai @@ -158409,7 +158883,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of acetylcholine into a cell, typically presynaptic neurons or glial cells. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues. acetylcholine import biological_process @@ -159727,6 +160212,52 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle. + L-glutamate uptake + biological_process + GO:0051938 + L-glutamate import + + + + + The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle. + GOC:ai + GOC:jsg + GOC:mah + + + + + L-glutamate uptake + GOC:dph + GOC:tb + + + + @@ -161597,45 +162128,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell. - iron homeostasis - biological_process - GO:0055072 - iron ion homeostasis - - - - - Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell. - GOC:ai - GOC:jid - GOC:mah - - - - @@ -162737,6 +163229,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter. + biological_process + serotonin release, neurotransmission + GO:0060096 + serotonin secretion, neurotransmission + + + + + The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter. + GOC:dph + + + + + serotonin release, neurotransmission + GOC:tb + + + + @@ -167221,46 +167750,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - dph - 2009-04-13T01:56:10Z - biological_process - GO:0060548 - negative regulation of cell death - - - - - Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:BHF - GOC:dph - GOC:tb - - - - @@ -167778,8 +168267,15 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + A chemical homeostatic process involved in the maintenance of a steady state level of iron within extracellular body fluids, such as blood, xylem or phloem, of a multicellular organism. This is distinct from maintenance of cellular homeostasis, which occurs within a cell. https://github.com/geneontology/go-ontology/issues/24554 dph @@ -172487,6 +172983,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -174962,11 +175459,62 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter. + dph + 2013-06-21T16:05:08Z + noradrenaline secretion, neurotransmission + biological_process + GO:0061533 + norepinephrine secretion, neurotransmission + + + + + The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter. + GOC:dph + + + + + noradrenaline secretion, neurotransmission + GOC:dph + + + + + + + + + + + + + + + + @@ -175895,36 +176443,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - dph - 2014-05-15T09:12:24Z - GO:0001085 - GO:0001102 - GO:0001103 - RNA polymerase II sequence-specific DNA binding transcription factor binding - RNA polymerase II sequence-specific DNA-binding transcription factor binding - molecular_function - RNA polymerase II activating transcription factor binding - RNA polymerase II repressing transcription factor binding - RNA polymerase II transcription factor binding - GO:0061629 - RNA polymerase II-specific DNA-binding transcription factor binding - - - - - Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription. - GOC:dph - GOC:vw - - - - @@ -176845,6 +177363,49 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex. + DNA-protein complex assembly + biological_process + GO:0065004 + protein-DNA complex assembly + + + + + The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex. + GOC:jl + + + + + DNA-protein complex assembly + GOC:mah + + + + @@ -176898,6 +177459,7 @@ The modern definition of neurosecretion has evolved to include the release of an + regulation of molecular function @@ -177013,43 +177575,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade. - molecular_function - GO:0070051 - fibrinogen binding - - - - - Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade. - GOC:BHF - GOC:mah - GOC:vk - - - - @@ -178798,43 +179323,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to ammonium ions (NH4+). - molecular_function - ammonium binding - GO:0070405 - ammonium ion binding - - - - - Binding to ammonium ions (NH4+). - CHEBI:28938 - GOC:ecd - - - - @@ -179442,27 +179930,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a growth factor receptor. - mah - 2009-08-07T11:23:02Z - molecular_function - GO:0070851 - growth factor receptor binding - - - - - Binding to a growth factor receptor. - GOC:mah - GOC:vw - - - - @@ -179747,7 +180214,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -179794,7 +180260,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + + @@ -179841,6 +180308,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -181927,6 +182395,58 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex. + mah + 2010-09-08T10:03:26Z + DNA-protein complex subunit organization + protein-DNA complex subunit organisation + protein-DNA complex subunit organization + biological_process + GO:0071824 + protein-DNA complex organization + + + + + Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex. + GOC:mah + + + + + DNA-protein complex subunit organization + GOC:mah + + + + + protein-DNA complex subunit organisation + GOC:mah + + + + @@ -181949,14 +182469,16 @@ The modern definition of neurosecretion has evolved to include the release of an Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex. + https://github.com/geneontology/go-ontology/issues/25143 mah 2010-09-08T10:10:35Z RNA-protein complex subunit organization protein-RNA complex subunit organization ribonucleoprotein complex subunit organisation + ribonucleoprotein complex subunit organization biological_process GO:0071826 - ribonucleoprotein complex subunit organization + protein-RNA complex organization @@ -182388,47 +182910,69 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + - + - - + + - + + + - - + + - Binding to bicarbonate ions (CHO3-). + The biosynthetic process resulting in the formation of DNA. mah - 2010-09-14T01:47:43Z - CHO3- ion binding binding - hydrogencarbonate binding - molecular_function - GO:0071890 - bicarbonate binding + 2010-09-15T02:14:33Z + DNA anabolism + DNA biosynthesis + DNA formation + DNA synthesis + biological_process + GO:0071897 + DNA biosynthetic process - + - Binding to bicarbonate ions (CHO3-). - GOC:curators + The biosynthetic process resulting in the formation of DNA. + GOC:mah + + + + + DNA anabolism + GOC:mah + + + + + DNA biosynthesis + GOC:mah - + - hydrogencarbonate binding - CHEBI:17544 + DNA formation + GOC:mah + + + + + DNA synthesis + GOC:mah @@ -182437,7 +182981,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures. + The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures. mah 2010-10-04T01:51:47Z cellular_component @@ -182448,8 +182992,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures. - GOC:mah + The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures. + GOC:pdt @@ -185269,6 +185813,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance. tb 2009-12-08T09:15:11Z + Golgi apparatus disassembly biological_process GO:0090166 Golgi disassembly @@ -185298,6 +185843,7 @@ The modern definition of neurosecretion has evolved to include the release of an The reformation of the Golgi following its breakdown and partitioning contributing to Golgi inheritance. tb 2009-12-08T09:15:11Z + Golgi apparatus reassembly biological_process GO:0090168 Golgi reassembly @@ -186233,7 +186779,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of catecholamine into a cell. tb 2012-10-17T11:06:17Z @@ -186745,6 +187302,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid. + pr + 2011-05-24T04:30:38Z + L-glutamate anabolism + L-glutamate biosynthesis + L-glutamate formation + L-glutamate synthesis + biological_process + GO:0097054 + L-glutamate biosynthetic process + + + + + The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid. + GOC:yaf + + + + @@ -187013,44 +187611,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure. - pr - 2011-09-23T02:31:01Z - molecular_function - GO:0097159 - organic cyclic compound binding - - - - - Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure. - GOC:sjw - PMID:7583672 - - - - @@ -187604,45 +188164,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a carbohydrate derivative. - pr - 2012-08-02T13:03:39Z - molecular_function - GO:0097367 - - - carbohydrate derivative binding - - - - - Binding to a carbohydrate derivative. - GOC:pr - - - - @@ -188273,45 +188794,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter. - iron channel inhibitor activity - molecular_function - GO:0097690 - An example of this is human hepcidin (UniProt symbol P81172), which regulates iron transport out of cells (see PMID:15514116). - iron ion transmembrane transporter inhibitor activity - - - - - Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter. - GOC:BHF - GOC:kom - PMID:15514116 - - - - @@ -188768,120 +189250,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell. - https://github.com/geneontology/go-ontology/issues/22959 - cell adhesion molecule - protein binding involved in cell adhesion - molecular_function - GO:0098631 - - - cell adhesion mediator activity - - - - - The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell. - GOC:vw - Wikipedia:Cell_adhesion - - - - - - - - - - - - - - - - - - - - - - - - - - The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell. - cell-cell adhesion molecule - protein binding involved in cell-cell adhesion - molecular_function - GO:0098632 - cell-cell adhesion mediator activity - - - - - The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell. - Wikipedia:Cell_adhesion - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a collagen fibril. - molecular_function - GO:0098633 - collagen fibril binding - - - - - Binding to a collagen fibril. - GOC:dos - PMID:21421911 - - - - @@ -188954,36 +189322,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - Any cadherin binding that occurs as part of the process of cell-cell adhesion. - molecular_function - GO:0098641 - cadherin binding involved in cell-cell adhesion - - - - - Any cadherin binding that occurs as part of the process of cell-cell adhesion. - GOC:dos - - - - @@ -189191,7 +189529,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -189210,7 +189548,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -189571,6 +189909,7 @@ The modern definition of neurosecretion has evolved to include the release of an https://github.com/geneontology/go-ontology/issues/24455 biological_process GO:0098771 + inorganic ion homeostasis @@ -189582,55 +189921,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition. - https://github.com/geneontology/go-ontology/issues/20854 - https://github.com/geneontology/go-ontology/issues/20862 - molecular function regulator - molecular_function - GO:0098772 - - - - - molecular function regulator activity - - - - - A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition. - GOC:dos - GOC:pt - - - - @@ -192545,16 +192835,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - @@ -192563,22 +192843,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - + + - + - + - + Cell-cell signaling to, from or within a synapse. - biological_process GO:0099536 @@ -192828,13 +193103,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - - - - - - Cell-cell signaling between presynapse and postsynapse, across the synaptic cleft, that modulates the synaptic transmission properties of the synapse. biological_process GO:0099550 @@ -194731,6 +195001,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T18:53:55Z biological_process GO:0110112 + regulation of lipid transporter activity @@ -194773,6 +195044,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T19:14:13Z biological_process GO:0110113 + positive regulation of lipid transporter activity @@ -194815,6 +195087,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T19:21:44Z biological_process GO:0110114 + negative regulation of lipid transporter activity @@ -195108,6 +195381,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2019-08-12T18:01:37Z cellular_component GO:0110165 + cellular anatomical entity @@ -195235,45 +195509,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin. - https://github.com/geneontology/go-ontology/issues/13143 - krc - 2017-03-17T14:54:21Z - molecular_function - GO:0120023 - somatostatin binding - - - - - Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin. - GOC:cvs - PMID:20472043 - - - - @@ -196592,6 +196827,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Catalytic activity that acts to modify DNA. + https://github.com/geneontology/go-ontology/issues/14225 + pg + 2017-09-14T12:03:51Z + molecular_function + GO:0140097 + + + catalytic activity, acting on DNA + + + + + Catalytic activity that acts to modify DNA. + GOC:molecular_function_refactoring + GOC:pdt + + + + @@ -196818,6 +197094,90 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/synapse/issues/230 + pg + 2018-07-15T07:33:55Z + biological_process + GO:0140238 + + Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. + presynaptic endocytosis + + + + + A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + PMID:24719103 + + + + + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/synapse/issues/230 + pg + 2018-07-15T07:38:27Z + biological_process + GO:0140239 + + Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. + postsynaptic endocytosis + + + + + A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + PMID:12839988 + + + + @@ -197389,33 +197749,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - pg - 2018-11-28T12:48:20Z - GO:0001107 - GO:0033613 - GO:0070491 - molecular_function - activating transcription factor binding - repressing transcription factor binding - transcription activator binding - GO:0140297 - DNA-binding transcription factor binding - - - - - Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. - GOC:txnOH-2018 - - - - @@ -197584,7 +197917,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of a lipid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis. pg 2019-05-22T11:38:15Z @@ -197756,82 +198100,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - https://github.com/geneontology/go-ontology/issues/21782 - pg - 2021-07-07T07:24:16Z - molecular_function - GO:0140677 - molecular function activator activity - - - - - A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - GOC:curators - - - - - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - https://github.com/geneontology/go-ontology/issues/21782 - pg - 2021-07-07T07:24:32Z - molecular_function - GO:0140678 - molecular function inhibitor activity - - - - - A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - GOC:curators - - - - @@ -197988,43 +198256,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active. - cellular_component - GO:0150005 - enzyme activator complex - - - - - A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active. - GOC:bhm - PMID:16244137 - PMID:28710280 - - - - @@ -199609,192 +199840,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:40:53Z - regulation of receptor ligand - biological_process - GO:1900120 - regulation of receptor binding - - - - - Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - regulation of receptor ligand - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:40:57Z - down regulation of receptor binding - down-regulation of receptor binding - downregulation of receptor binding - inhibition of receptor binding - inhibition of receptor ligand - biological_process - down regulation of receptor-associated protein activity - GO:1900121 - negative regulation of receptor binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - down regulation of receptor binding - GOC:TermGenie - - - - - down-regulation of receptor binding - GOC:TermGenie - - - - - downregulation of receptor binding - GOC:TermGenie - - - - - inhibition of receptor binding - GOC:TermGenie - - - - - inhibition of receptor ligand - GOC:TermGenie - - - - - down regulation of receptor-associated protein activity - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:41:00Z - up regulation of receptor binding - upregulation of receptor binding - activation of receptor binding - biological_process - GO:1900122 - positive regulation of receptor binding - - - - - Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - up regulation of receptor binding - GOC:TermGenie - - - - - upregulation of receptor binding - GOC:TermGenie - - - - - activation of receptor binding - GOC:TermGenie - - - - @@ -200280,178 +200325,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:03Z - biological_process - GO:1900130 - regulation of lipid binding - - - - - Any process that modulates the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:07Z - down regulation of lipid binding - down-regulation of lipid binding - downregulation of lipid binding - inhibition of lipid binding - biological_process - GO:1900131 - negative regulation of lipid binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - down regulation of lipid binding - GOC:TermGenie - - - - - down-regulation of lipid binding - GOC:TermGenie - - - - - downregulation of lipid binding - GOC:TermGenie - - - - - inhibition of lipid binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:11Z - up regulation of lipid binding - up-regulation of lipid binding - upregulation of lipid binding - activation of lipid binding - biological_process - GO:1900132 - positive regulation of lipid binding - - - - - Any process that activates or increases the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - up regulation of lipid binding - GOC:TermGenie - - - - - up-regulation of lipid binding - GOC:TermGenie - - - - - upregulation of lipid binding - GOC:TermGenie - - - - - activation of lipid binding - GOC:TermGenie - - - - @@ -204149,7 +204022,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204213,7 +204086,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204350,7 +204223,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204935,43 +204808,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to catecholamine. - bf - 2012-09-03T14:08:44Z - molecular_function - GO:1901338 - catecholamine binding - - - - - Binding to catecholamine. - GOC:TermGenie - - - - @@ -205287,43 +205123,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to heterocyclic compound. - bf - 2012-09-14T13:53:50Z - molecular_function - GO:1901363 - heterocyclic compound binding - - - - - Binding to heterocyclic compound. - GOC:TermGenie - - - - @@ -207387,7 +207186,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -207402,14 +207201,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:1901505 carbohydrate derivative transmembrane transporter activity - + - + GO_REF:0000090 @@ -209318,45 +209117,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a sulfur compound. - pr - 2012-11-26T20:45:23Z - sulfur molecular entity binding - molecular_function - GO:1901681 - sulfur compound binding - - - - - Binding to a sulfur compound. - GOC:TermGenie - GOC:pr - - - - @@ -211700,6 +211460,45 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus. + tb + 2013-04-16T21:21:14Z + biological_process + GO:1902065 + response to L-glutamate + + + + + Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus. + GOC:TermGenie + PMID:23574009 + + + + @@ -215238,6 +215037,505 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:32Z + regulation of DNA fragmentation + regulation of chromatinolysis + regulation of DNA catabolic process during apoptosis + regulation of DNA catabolism during apoptosis + regulation of DNA fragmentation involved in apoptotic nuclear change + regulation of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902510 + DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases (see GO:0006309 'apoptotic DNA fragmentation'). Gene products involved in compartmentalization of such nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). + regulation of apoptotic DNA fragmentation + + + + + Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + PMID:15723341 + + + + + regulation of DNA fragmentation + GOC:TermGenie + + + + + regulation of chromatinolysis + GOC:TermGenie + + + + + regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:41Z + down regulation of DNA catabolic process during apoptosis + down regulation of DNA catabolism during apoptosis + down regulation of DNA fragmentation involved in apoptotic nuclear change + down regulation of apoptotic DNA fragmentation + down regulation of endonucleolytic DNA catabolic process involved in apoptosis + down-regulation of DNA catabolic process during apoptosis + down-regulation of DNA catabolism during apoptosis + down-regulation of DNA fragmentation involved in apoptotic nuclear change + down-regulation of apoptotic DNA fragmentation + down-regulation of endonucleolytic DNA catabolic process involved in apoptosis + downregulation of DNA catabolic process during apoptosis + downregulation of DNA catabolism during apoptosis + downregulation of DNA fragmentation involved in apoptotic nuclear change + downregulation of apoptotic DNA fragmentation + downregulation of endonucleolytic DNA catabolic process involved in apoptosis + negative regulation of DNA catabolic process during apoptosis + negative regulation of DNA catabolism during apoptosis + negative regulation of DNA fragmentation involved in apoptotic nuclear change + negative regulation of endonucleolytic DNA catabolic process involved in apoptosis + inhibition of DNA catabolic process during apoptosis + inhibition of DNA catabolism during apoptosis + inhibition of DNA fragmentation involved in apoptotic nuclear change + inhibition of apoptotic DNA fragmentation + inhibition of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902511 + negative regulation of apoptotic DNA fragmentation + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + + + + + down regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + down regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + down regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + down regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + down regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + down-regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + down-regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + down-regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + down-regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + down-regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + downregulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + downregulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + downregulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + downregulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + downregulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + negative regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + negative regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + negative regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + negative regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + inhibition of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + inhibition of DNA catabolism during apoptosis + GOC:TermGenie + + + + + inhibition of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + inhibition of apoptotic DNA fragmentation + GOC:TermGenie + + + + + inhibition of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:50Z + positive regulation of DNA catabolic process during apoptosis + positive regulation of DNA catabolism during apoptosis + positive regulation of DNA fragmentation involved in apoptotic nuclear change + positive regulation of endonucleolytic DNA catabolic process involved in apoptosis + up regulation of DNA catabolic process during apoptosis + up regulation of DNA catabolism during apoptosis + up regulation of DNA fragmentation involved in apoptotic nuclear change + up regulation of apoptotic DNA fragmentation + up regulation of endonucleolytic DNA catabolic process involved in apoptosis + up-regulation of DNA catabolic process during apoptosis + up-regulation of DNA catabolism during apoptosis + up-regulation of DNA fragmentation involved in apoptotic nuclear change + up-regulation of apoptotic DNA fragmentation + up-regulation of endonucleolytic DNA catabolic process involved in apoptosis + upregulation of DNA catabolic process during apoptosis + upregulation of DNA catabolism during apoptosis + upregulation of DNA fragmentation involved in apoptotic nuclear change + upregulation of apoptotic DNA fragmentation + upregulation of endonucleolytic DNA catabolic process involved in apoptosis + activation of DNA catabolic process during apoptosis + activation of DNA catabolism during apoptosis + activation of DNA fragmentation involved in apoptotic nuclear change + activation of apoptotic DNA fragmentation + activation of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902512 + positive regulation of apoptotic DNA fragmentation + + + + + Any process that activates or increases the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + + + + + positive regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + positive regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + positive regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + positive regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + up regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + up regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + up regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + up regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + up regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + up-regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + up-regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + up-regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + up-regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + up-regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + upregulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + upregulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + upregulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + upregulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + upregulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + activation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + activation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + activation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + activation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + activation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + @@ -219934,7 +220232,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -219984,7 +220281,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -220091,7 +220387,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -225471,6 +225766,415 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:35Z + regulation of DNA breakdown + regulation of DNA catabolism + regulation of DNA degradation + biological_process + GO:1903624 + regulation of DNA catabolic process + + + + + Any process that modulates the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + regulation of DNA breakdown + GOC:TermGenie + + + + + regulation of DNA catabolism + GOC:TermGenie + + + + + regulation of DNA degradation + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:43Z + down regulation of DNA breakdown + down regulation of DNA catabolic process + down regulation of DNA catabolism + down regulation of DNA degradation + down-regulation of DNA breakdown + down-regulation of DNA catabolic process + down-regulation of DNA catabolism + down-regulation of DNA degradation + downregulation of DNA breakdown + downregulation of DNA catabolic process + downregulation of DNA catabolism + downregulation of DNA degradation + negative regulation of DNA breakdown + negative regulation of DNA catabolism + negative regulation of DNA degradation + inhibition of DNA breakdown + inhibition of DNA catabolic process + inhibition of DNA catabolism + inhibition of DNA degradation + biological_process + GO:1903625 + negative regulation of DNA catabolic process + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + down regulation of DNA breakdown + GOC:TermGenie + + + + + down regulation of DNA catabolic process + GOC:TermGenie + + + + + down regulation of DNA catabolism + GOC:TermGenie + + + + + down regulation of DNA degradation + GOC:TermGenie + + + + + down-regulation of DNA breakdown + GOC:TermGenie + + + + + down-regulation of DNA catabolic process + GOC:TermGenie + + + + + down-regulation of DNA catabolism + GOC:TermGenie + + + + + down-regulation of DNA degradation + GOC:TermGenie + + + + + downregulation of DNA breakdown + GOC:TermGenie + + + + + downregulation of DNA catabolic process + GOC:TermGenie + + + + + downregulation of DNA catabolism + GOC:TermGenie + + + + + downregulation of DNA degradation + GOC:TermGenie + + + + + negative regulation of DNA breakdown + GOC:TermGenie + + + + + negative regulation of DNA catabolism + GOC:TermGenie + + + + + negative regulation of DNA degradation + GOC:TermGenie + + + + + inhibition of DNA breakdown + GOC:TermGenie + + + + + inhibition of DNA catabolic process + GOC:TermGenie + + + + + inhibition of DNA catabolism + GOC:TermGenie + + + + + inhibition of DNA degradation + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:51Z + positive regulation of DNA breakdown + positive regulation of DNA catabolism + positive regulation of DNA degradation + up regulation of DNA breakdown + up regulation of DNA catabolic process + up regulation of DNA catabolism + up regulation of DNA degradation + up-regulation of DNA breakdown + up-regulation of DNA catabolic process + up-regulation of DNA catabolism + up-regulation of DNA degradation + upregulation of DNA breakdown + upregulation of DNA catabolic process + upregulation of DNA catabolism + upregulation of DNA degradation + activation of DNA breakdown + activation of DNA catabolic process + activation of DNA catabolism + activation of DNA degradation + biological_process + GO:1903626 + positive regulation of DNA catabolic process + + + + + Any process that activates or increases the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + positive regulation of DNA breakdown + GOC:TermGenie + + + + + positive regulation of DNA catabolism + GOC:TermGenie + + + + + positive regulation of DNA degradation + GOC:TermGenie + + + + + up regulation of DNA breakdown + GOC:TermGenie + + + + + up regulation of DNA catabolic process + GOC:TermGenie + + + + + up regulation of DNA catabolism + GOC:TermGenie + + + + + up regulation of DNA degradation + GOC:TermGenie + + + + + up-regulation of DNA breakdown + GOC:TermGenie + + + + + up-regulation of DNA catabolic process + GOC:TermGenie + + + + + up-regulation of DNA catabolism + GOC:TermGenie + + + + + up-regulation of DNA degradation + GOC:TermGenie + + + + + upregulation of DNA breakdown + GOC:TermGenie + + + + + upregulation of DNA catabolic process + GOC:TermGenie + + + + + upregulation of DNA catabolism + GOC:TermGenie + + + + + upregulation of DNA degradation + GOC:TermGenie + + + + + activation of DNA breakdown + GOC:TermGenie + + + + + activation of DNA catabolic process + GOC:TermGenie + + + + + activation of DNA catabolism + GOC:TermGenie + + + + + activation of DNA degradation + GOC:TermGenie + + + + @@ -232732,6 +233436,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of iron-specific channel activity biological_process GO:1904254 + regulation of iron ion transmembrane transporter activity @@ -232802,6 +233507,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of iron-specific channel activity biological_process GO:1904255 + negative regulation of iron ion transmembrane transporter activity @@ -232945,6 +233651,7 @@ The modern definition of neurosecretion has evolved to include the release of an activation of iron-specific channel activity biological_process GO:1904256 + positive regulation of iron ion transmembrane transporter activity @@ -234766,6 +235473,53 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires the specialized features of a cone retinal bipolar cell. + sl + 2015-06-23T19:01:16Z + cone bipolar cell differentiation + retinal cone bipolar cell differentiation + biological_process + GO:1904390 + cone retinal bipolar cell differentiation + + + + + The process in which a relatively unspecialized cell acquires the specialized features of a cone retinal bipolar cell. + GOC:TermGenie + GO_REF:0000086 + PMID:24123365 + + + + + cone bipolar cell differentiation + PMID:14745032 + + + + @@ -235987,338 +236741,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:13Z - biological_process - regulation of microtubule severing activity - regulation of microtubule/chromatin interaction - GO:1904526 - regulation of microtubule binding - - - - - Any process that modulates the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - regulation of microtubule severing activity - GOC:TermGenie - - - - - regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:29Z - down regulation of microtubule binding - down-regulation of microtubule binding - downregulation of microtubule binding - inhibition of microtubule binding - biological_process - down regulation of microtubule severing activity - down regulation of microtubule/chromatin interaction - down-regulation of microtubule severing activity - down-regulation of microtubule/chromatin interaction - downregulation of microtubule severing activity - downregulation of microtubule/chromatin interaction - inhibition of microtubule severing activity - inhibition of microtubule/chromatin interaction - negative regulation of microtubule severing activity - negative regulation of microtubule/chromatin interaction - GO:1904527 - negative regulation of microtubule binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - down regulation of microtubule binding - GOC:TermGenie - - - - - down-regulation of microtubule binding - GOC:TermGenie - - - - - downregulation of microtubule binding - GOC:TermGenie - - - - - inhibition of microtubule binding - GOC:TermGenie - - - - - down regulation of microtubule severing activity - GOC:TermGenie - - - - - down regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - down-regulation of microtubule severing activity - GOC:TermGenie - - - - - down-regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - downregulation of microtubule severing activity - GOC:TermGenie - - - - - downregulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - inhibition of microtubule severing activity - GOC:TermGenie - - - - - inhibition of microtubule/chromatin interaction - GOC:TermGenie - - - - - negative regulation of microtubule severing activity - GOC:TermGenie - - - - - negative regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:36Z - up regulation of microtubule binding - up-regulation of microtubule binding - upregulation of microtubule binding - activation of microtubule binding - biological_process - activation of microtubule severing activity - activation of microtubule/chromatin interaction - positive regulation of microtubule severing activity - positive regulation of microtubule/chromatin interaction - up regulation of microtubule severing activity - up regulation of microtubule/chromatin interaction - up-regulation of microtubule severing activity - up-regulation of microtubule/chromatin interaction - upregulation of microtubule severing activity - upregulation of microtubule/chromatin interaction - GO:1904528 - positive regulation of microtubule binding - - - - - Any process that activates or increases the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - up regulation of microtubule binding - GOC:TermGenie - - - - - up-regulation of microtubule binding - GOC:TermGenie - - - - - upregulation of microtubule binding - GOC:TermGenie - - - - - activation of microtubule binding - GOC:TermGenie - - - - - activation of microtubule severing activity - GOC:TermGenie - - - - - activation of microtubule/chromatin interaction - GOC:TermGenie - - - - - positive regulation of microtubule severing activity - GOC:TermGenie - - - - - positive regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - up regulation of microtubule severing activity - GOC:TermGenie - - - - - up regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - up-regulation of microtubule severing activity - GOC:TermGenie - - - - - up-regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - upregulation of microtubule severing activity - GOC:TermGenie - - - - - upregulation of microtubule/chromatin interaction - GOC:TermGenie - - - - @@ -241681,190 +242103,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:04Z - biological_process - GO:1904793 - regulation of euchromatin binding - - - - - Any process that modulates the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:12Z - down regulation of euchromatin binding - down-regulation of euchromatin binding - downregulation of euchromatin binding - inhibition of euchromatin binding - biological_process - GO:1904794 - negative regulation of euchromatin binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - down regulation of euchromatin binding - GOC:TermGenie - - - - - down-regulation of euchromatin binding - GOC:TermGenie - - - - - downregulation of euchromatin binding - GOC:TermGenie - - - - - inhibition of euchromatin binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:19Z - up regulation of euchromatin binding - up-regulation of euchromatin binding - upregulation of euchromatin binding - activation of euchromatin binding - biological_process - GO:1904795 - positive regulation of euchromatin binding - - - - - Any process that activates or increases the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - up regulation of euchromatin binding - GOC:TermGenie - - - - - up-regulation of euchromatin binding - GOC:TermGenie - - - - - upregulation of euchromatin binding - GOC:TermGenie - - - - - activation of euchromatin binding - GOC:TermGenie - - - - @@ -245349,6 +245587,186 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:43:54Z + biological_process + GO:1905153 + regulation of membrane invagination + + + + + Any process that modulates the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + PMID:26589353 + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:44:04Z + down regulation of membrane invagination + down-regulation of membrane invagination + downregulation of membrane invagination + inhibition of membrane invagination + biological_process + GO:1905154 + negative regulation of membrane invagination + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + PMID:26589353 + + + + + down regulation of membrane invagination + GOC:TermGenie + + + + + down-regulation of membrane invagination + GOC:TermGenie + + + + + downregulation of membrane invagination + GOC:TermGenie + + + + + inhibition of membrane invagination + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:44:12Z + up regulation of membrane invagination + up-regulation of membrane invagination + upregulation of membrane invagination + activation of membrane invagination + biological_process + GO:1905155 + positive regulation of membrane invagination + + + + + Any process that activates or increases the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + + + + + up regulation of membrane invagination + GOC:TermGenie + + + + + up-regulation of membrane invagination + GOC:TermGenie + + + + + upregulation of membrane invagination + GOC:TermGenie + + + + + activation of membrane invagination + GOC:TermGenie + + + + @@ -246525,185 +246943,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:20:56Z - biological_process - GO:1905214 - regulation of RNA binding - - - - - Any process that modulates the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:21:04Z - down regulation of RNA binding - down-regulation of RNA binding - downregulation of RNA binding - inhibition of RNA binding - biological_process - GO:1905215 - negative regulation of RNA binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - - - - - down regulation of RNA binding - GOC:TermGenie - - - - - down-regulation of RNA binding - GOC:TermGenie - - - - - downregulation of RNA binding - GOC:TermGenie - - - - - inhibition of RNA binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:21:12Z - up regulation of RNA binding - up-regulation of RNA binding - upregulation of RNA binding - activation of RNA binding - biological_process - GO:1905216 - positive regulation of RNA binding - - - - - Any process that activates or increases the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - PMID:25116364 - - - - - up regulation of RNA binding - GOC:TermGenie - - - - - up-regulation of RNA binding - GOC:TermGenie - - - - - upregulation of RNA binding - GOC:TermGenie - - - - - activation of RNA binding - GOC:TermGenie - - - - @@ -246773,6 +247012,42 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus. + sl + 2016-06-07T17:30:08Z + biological_process + cellular response to L-glutamate(1-) + GO:1905232 + cellular response to L-glutamate + + + + + Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus. + GOC:TermGenie + GO_REF:0000071 + PMID:25962137 + + + + @@ -258792,44 +259067,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin. - tb - 2013-09-11T19:18:38Z - molecular_function - GO:1990188 - euchromatin binding - - - - - Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin. - GOC:vw - PMID:22431512 - - - - @@ -258868,44 +259105,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a steroid hormone. - pr - 2013-11-15T09:26:18Z - molecular_function - GO:1990239 - steroid hormone binding - - - - - Binding to a steroid hormone. - GOC:ln - - - - @@ -260197,153 +260396,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process. - tb - 2010-09-15T08:55:45Z - regulation of cellular biopolymer biosynthetic process - regulation of cellular macromolecule anabolism - regulation of cellular macromolecule biosynthesis - regulation of cellular macromolecule formation - regulation of cellular macromolecule synthesis - biological_process - GO:2000112 - regulation of cellular macromolecule biosynthetic process - - - - - Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process. - GOC:obol - - - - - regulation of cellular biopolymer biosynthetic process - GOC:obol - - - - - regulation of cellular macromolecule anabolism - GOC:obol - - - - - regulation of cellular macromolecule biosynthesis - GOC:obol - - - - - regulation of cellular macromolecule formation - GOC:obol - - - - - regulation of cellular macromolecule synthesis - GOC:obol - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process. - tb - 2010-09-15T08:55:48Z - negative regulation of cellular biopolymer biosynthetic process - negative regulation of cellular macromolecule anabolism - negative regulation of cellular macromolecule biosynthesis - negative regulation of cellular macromolecule formation - negative regulation of cellular macromolecule synthesis - biological_process - GO:2000113 - negative regulation of cellular macromolecule biosynthetic process - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process. - GOC:obol - - - - - negative regulation of cellular biopolymer biosynthetic process - GOC:obol - - - - - negative regulation of cellular macromolecule anabolism - GOC:obol - - - - - negative regulation of cellular macromolecule biosynthesis - GOC:obol - - - - - negative regulation of cellular macromolecule formation - GOC:obol - - - - - negative regulation of cellular macromolecule synthesis - GOC:obol - - - - @@ -262000,6 +262052,141 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of DNA biosynthetic process. + yaf + 2010-12-08T04:48:15Z + regulation of DNA anabolism + regulation of DNA biosynthesis + regulation of DNA formation + regulation of DNA synthesis + biological_process + GO:2000278 + regulation of DNA biosynthetic process + + + + + Any process that modulates the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + regulation of DNA anabolism + GOC:obol + + + + + regulation of DNA biosynthesis + GOC:obol + + + + + regulation of DNA formation + GOC:obol + + + + + regulation of DNA synthesis + GOC:obol + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process. + yaf + 2010-12-08T04:48:20Z + negative regulation of DNA anabolism + negative regulation of DNA biosynthesis + negative regulation of DNA formation + negative regulation of DNA synthesis + biological_process + GO:2000279 + negative regulation of DNA biosynthetic process + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + negative regulation of DNA anabolism + GOC:obol + + + + + negative regulation of DNA biosynthesis + GOC:obol + + + + + negative regulation of DNA formation + GOC:obol + + + + + negative regulation of DNA synthesis + GOC:obol + + + + @@ -264117,6 +264304,74 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process. + yaf + 2011-04-04T10:01:20Z + positive regulation of DNA anabolism + positive regulation of DNA biosynthesis + positive regulation of DNA formation + positive regulation of DNA synthesis + biological_process + GO:2000573 + positive regulation of DNA biosynthetic process + + + + + Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + positive regulation of DNA anabolism + GOC:obol + + + + + positive regulation of DNA biosynthesis + GOC:obol + + + + + positive regulation of DNA formation + GOC:obol + + + + + positive regulation of DNA synthesis + GOC:obol + + + + @@ -264221,6 +264476,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of sodium transporter activity biological_process GO:2000649 + regulation of sodium ion transmembrane transporter activity @@ -264267,6 +264523,7 @@ The modern definition of neurosecretion has evolved to include the release of an negative regulation of sodium transporter activity biological_process GO:2000650 + negative regulation of sodium ion transmembrane transporter activity @@ -264313,6 +264570,7 @@ The modern definition of neurosecretion has evolved to include the release of an positive regulation of sodium transporter activity biological_process GO:2000651 + positive regulation of sodium ion transmembrane transporter activity @@ -266447,57 +266705,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to glycogen. - jl - 2011-09-14T12:01:06Z - molecular_function - animal starch binding - liver starch binding - GO:2001069 - glycogen binding - - - - - Binding to glycogen. - GOC:mengo_curators - - - - - animal starch binding - GOC:obol - - - - - liver starch binding - GOC:obol - - - - @@ -332363,7 +332570,7 @@ Classes for population already exist in IDO ('organism population', I A material entity consisting of multiple components that are causally integrated. May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 - Chris Mungall + http://www.jbiomedsem.com/content/4/1/43 system @@ -332459,9 +332666,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -332505,34 +332712,34 @@ Classes for population already exist in IDO ('organism population', I islet of Langerhans http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png - + - + - + - + PMID:16417468 - + PMID:16417468 - + PMID:16417468 @@ -332801,11 +333008,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0206417 BIRNLEX:1111 - - - - - UMLS:C0206417 ncithesaurus:Peripheral_Nervous_System @@ -332840,7 +333042,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -332886,7 +333088,7 @@ Classes for population already exist in IDO ('organism population', I parasympathetic nervous system http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + @@ -332899,7 +333101,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA WP @@ -332935,11 +333137,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0030510 BIRNLEX:2517 - - - - - UMLS:C0030510 ncithesaurus:Parasympathetic_Nervous_System @@ -333037,7 +333234,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333083,7 +333280,7 @@ Classes for population already exist in IDO ('organism population', I sympathetic nervous system http://upload.wikimedia.org/wikipedia/commons/7/77/Gray838.png - + @@ -333096,7 +333293,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA ZFA-modified-from-isa @@ -333140,11 +333337,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0039044 BIRNLEX:2516 - - - - - UMLS:C0039044 ncithesaurus:Sympathetic_Nervous_System @@ -333300,7 +333492,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333313,9 +333505,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -333362,19 +333554,19 @@ Classes for population already exist in IDO ('organism population', I endocrine pancreas - + - + - + - + @@ -333387,7 +333579,7 @@ Classes for population already exist in IDO ('organism population', I - + AAO FMA XAO @@ -333395,19 +333587,19 @@ Classes for population already exist in IDO ('organism population', I - + GO - + GO - + GO @@ -333603,7 +333795,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333630,14 +333822,14 @@ Classes for population already exist in IDO ('organism population', I compound eye https://github.com/obophenotype/uberon/issues/457 - + - + PMID:21062451 @@ -333705,7 +333897,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333746,14 +333938,14 @@ Classes for population already exist in IDO ('organism population', I camera-type eye - + - + definitional @@ -333799,11 +333991,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0015392 BIRNLEX:1169 - - - - - UMLS:C0015392 ncithesaurus:Eye @@ -334329,7 +334516,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a respiratory airway. EMAPA:35877 FMA:265157 @@ -334352,14 +334539,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000031 lamina propria of trachea - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -334539,11 +334726,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0018670 BIRNLEX:1230 - - - - - UMLS:C0018670 ncithesaurus:Head @@ -334669,8 +334851,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -334721,11 +334903,11 @@ Classes for population already exist in IDO ('organism population', I tendon http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg - + - + @@ -334738,13 +334920,13 @@ Classes for population already exist in IDO ('organism population', I - + OG - + AEO @@ -334813,8 +334995,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A biological tissue mass, most commonly a mass of nerve cell bodies. TODO - check vert vs invert. Other species: Any of a number of aggregations of neurons, glial cells and their processes, surrounded by a glial cell and connective tissue sheath (plural: ganglia). // Subdivision of neural tree (organ) which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord); together with a nucleus and its associated nerve, it constitutes a neural tree (organ). Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion. // a cluster of nerve cells and associated glial cells (nuclear location) // Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system. A ganglion is a cluster of neurons. It is part of a nervous system. It may include glial cells. The neurons are arranged in a specific constellation: neuronal somata are concentrated at the surface, thus forming a cell cortex, and neurites are concentrated in the centre of the ganglion to form the neuropil. A ganglion is a distinct unit but several ganglia may be anterio-posteriorly joined by connectives or transversally by commissures @@ -334863,11 +335045,11 @@ Classes for population already exist in IDO ('organism population', I ganglion - + - + @@ -334880,13 +335062,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Bgee:AN @@ -335020,7 +335202,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -335493,7 +335675,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -335514,14 +335696,14 @@ Classes for population already exist in IDO ('organism population', I respiratory tract - + - + NCBIBook:NBK10107 @@ -335852,7 +336034,7 @@ Classes for population already exist in IDO ('organism population', I - + The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm. merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube) @@ -335877,7 +336059,7 @@ Classes for population already exist in IDO ('organism population', I external ectoderm http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png - + @@ -335890,7 +336072,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -335995,7 +336177,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336038,14 +336220,14 @@ Classes for population already exist in IDO ('organism population', I morula http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png - + - + EHDAA2 @@ -336079,7 +336261,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336197,8 +336379,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A mass of cells that develop into the body of the embryo and some extraembryonic tissues. A group of cells found in the mammalian blastocyst that give rise to the embryo. [Biology_Online][VHOG] A small sphere of cells known as the inner cell mass lies within the trophoblast (of all eutherian mammals).[well established][VHOG] @@ -336226,24 +336408,24 @@ Classes for population already exist in IDO ('organism population', I inner cell mass https://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg - + - + - + Wikipedia - + Wikipedia @@ -336310,7 +336492,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336345,14 +336527,14 @@ Classes for population already exist in IDO ('organism population', I trophoblast https://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg - + - + MP-def PMID:19829370 @@ -336418,7 +336600,7 @@ Classes for population already exist in IDO ('organism population', I - + A flattened, almost circular bilaminar plate of cells formed when the inner cell mass (aka embryoblast) forms two epithelial layers, each of a distinct lineage, separated by an extracellular basement membrane: the external (dorsal) layer is called the epiblast and the internal (ventral) layer is called the hypoblast (aka primitive endoderm); together, they compose the bilaminar embryonic disc. embryonic disc embryonic shield @@ -336438,14 +336620,14 @@ Classes for population already exist in IDO ('organism population', I bilaminar disc http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png - + - + Wikipedia @@ -336547,7 +336729,7 @@ Classes for population already exist in IDO ('organism population', I - + Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]. 2009-07-30T05:19:13Z @@ -336558,14 +336740,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000094 membrane organ - + - + FMA-def @@ -336587,7 +336769,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]. A subpopulation of the cephalic neural crest that emerges from the otic level to the anterior limit of somite 4. It migrates to the heart and is essential for the septation of the outflow track[DOI:10.1242/dev.091751]. ZFA treats this as a subtype of NC. @@ -336604,14 +336786,14 @@ Classes for population already exist in IDO ('organism population', I cardiac neural crest - + - + Wikipedia @@ -337014,7 +337196,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337050,14 +337232,14 @@ Classes for population already exist in IDO ('organism population', I gastrula stage - + - + BILS @@ -337574,7 +337756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337602,7 +337784,7 @@ Classes for population already exist in IDO ('organism population', I lung bud http://upload.wikimedia.org/wikipedia/commons/7/71/Gray948.png - + @@ -337615,7 +337797,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -337721,7 +337903,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337747,14 +337929,14 @@ Classes for population already exist in IDO ('organism population', I neural nucleus - + - + we limit this structure by definition to chordate and vertebrate nervous systems @@ -337964,7 +338146,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338003,14 +338185,14 @@ Classes for population already exist in IDO ('organism population', I anal canal https://upload.wikimedia.org/wikipedia/commons/0/01/Gray1078.png - + - + Wikipathways:WP2062 @@ -338030,11 +338212,6 @@ Classes for population already exist in IDO ('organism population', I canalis analis BTO:0001978 - - - - - canalis analis Wikipedia:Anal_canal @@ -338190,8 +338367,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -338224,24 +338401,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000162 cloaca - + - + - + ZFA - + AAO @@ -338323,8 +338500,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -338343,24 +338520,24 @@ Classes for population already exist in IDO ('organism population', I embryonic cloaca - + - + - + EHDAA2 - + EHDAA2 @@ -338406,7 +338583,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338479,7 +338656,7 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/issues/661 http://upload.wikimedia.org/wikipedia/commons/0/06/Mouth_illustration-Otis_Archives.jpg - + @@ -338492,7 +338669,7 @@ Classes for population already exist in IDO ('organism population', I - + exceptions in some taxa @@ -338532,11 +338709,6 @@ Classes for population already exist in IDO ('organism population', I regio oralis BTO:0004698 - - - - - regio oralis FMA:49184 FMA:TA @@ -338874,7 +339046,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338920,14 +339092,14 @@ Classes for population already exist in IDO ('organism population', I pair of lungs - + - + FMA-abduced @@ -339102,15 +339274,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + A fluid that is composed of blood plasma and erythrocytes. This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid. @@ -339152,34 +339324,34 @@ Classes for population already exist in IDO ('organism population', I blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -339793,7 +339965,7 @@ Classes for population already exist in IDO ('organism population', I - + The branched tubular glands found in the mucosa of the fundus and body of the stomach which contain parietal cells that secrete hydrochloric acid and zymogenic cells that produce pepsin. BTO:0000503 EMAPA:27181 @@ -339804,7 +339976,7 @@ Classes for population already exist in IDO ('organism population', I gastric gland - + @@ -339817,7 +339989,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 @@ -340393,11 +340565,6 @@ Classes for population already exist in IDO ('organism population', I tunica mucosa BTO:0000886 - - - - - tunica mucosa Wikipedia:Mucous_membrane @@ -340538,11 +340705,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of pharynx FMA:55031 - - - - - mucous membrane of pharynx OBOL:automatic @@ -341142,7 +341304,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -341176,14 +341338,14 @@ Classes for population already exist in IDO ('organism population', I tongue muscle http://upload.wikimedia.org/wikipedia/commons/c/c6/Gray1019.png - + - + FEED:rd ISBN:1607950324 @@ -341339,11 +341501,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of trachea FMA:7471 - - - - - mucous membrane of trachea OBOL:automatic @@ -341471,6 +341628,7 @@ Classes for population already exist in IDO ('organism population', I The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified]. consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77 + Anatomical system that consists of the muscles of the body.[VSAO] we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA AAO:0000307 @@ -341496,6 +341654,7 @@ Classes for population already exist in IDO ('organism population', I muskelsystem UBERON:0000383 + musculature of body @@ -341755,11 +341914,6 @@ Classes for population already exist in IDO ('organism population', I colon epithelium FMA:17302 - - - - - colon epithelium OBOL:automatic @@ -342060,11 +342214,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of bronchus FMA:62652 - - - - - mucous membrane of bronchus OBOL:automatic @@ -342461,7 +342610,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -342503,14 +342652,14 @@ Classes for population already exist in IDO ('organism population', I organism substance - + - + this relationship may be too strong and may be weakened in future @@ -343230,25 +343379,12 @@ Classes for population already exist in IDO ('organism population', I - Anatomical group that has its parts adjacent to one another. - Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3] + Anatomical group whose component anatomical structures lie in close proximity to each other. - AAO:0010009 - AEO:0000041 - BILA:0000041 - CARO:0000041 - EHDAA2:0003041 FBbt:00007277 - FMA:49443 - HAO:0000041 - TADS:0000605 - TAO:0001478 - TGMA:0001842 VHOG:0001737 - XAO:0003160 - ZFA:0001478 uberon UBERON:0000477 @@ -343258,8 +343394,8 @@ Classes for population already exist in IDO ('organism population', I - Anatomical group that has its parts adjacent to one another. - http://orcid.org/0000-0001-9114-8737 + Anatomical group whose component anatomical structures lie in close proximity to each other. + FBbt:00007277 @@ -344153,7 +344289,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -344190,14 +344326,14 @@ Classes for population already exist in IDO ('organism population', I abdomen - + - + MA @@ -344433,7 +344569,7 @@ Classes for population already exist in IDO ('organism population', I - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO] The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG] @@ -344471,14 +344607,14 @@ Classes for population already exist in IDO ('organism population', I ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -344531,7 +344667,7 @@ Classes for population already exist in IDO ('organism population', I - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG] endodermal @@ -344568,14 +344704,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -344620,7 +344756,7 @@ Classes for population already exist in IDO ('organism population', I - + The middle germ layer of the embryo, between the endoderm and ectoderm. Primary germ layer that is the middle of the embryonic germ layers.[AAO] @@ -344665,7 +344801,7 @@ Classes for population already exist in IDO ('organism population', I mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + @@ -344678,7 +344814,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -344877,7 +345013,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -344923,7 +345059,7 @@ Classes for population already exist in IDO ('organism population', I proctodeum https://github.com/obophenotype/uberon/issues/685 - + @@ -344936,7 +345072,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -345003,8 +345139,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -345058,11 +345194,11 @@ Classes for population already exist in IDO ('organism population', I stomach https://upload.wikimedia.org/wikipedia/commons/e/e0/Stomach_diagram.svg - + - + @@ -345081,14 +345217,14 @@ Classes for population already exist in IDO ('organism population', I - + absent in lampreys and hagfishes ISBN:0073040584 - + ISBN:0486692132 @@ -345176,7 +345312,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345223,7 +345359,7 @@ Classes for population already exist in IDO ('organism population', I aorta https://upload.wikimedia.org/wikipedia/commons/9/91/Aorta_scheme.jpg - + @@ -345236,7 +345372,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -345316,7 +345452,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345390,14 +345526,14 @@ Classes for population already exist in IDO ('organism population', I Taxon notes:" the ascidian tube-like heart lacks chambers....The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepithelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium.... The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates... all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)" DOI:10.1101/gad.1485706 heart - + - + MA @@ -345605,7 +345741,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345630,7 +345766,7 @@ Classes for population already exist in IDO ('organism population', I - + The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]. requires review for applicability to invertebrate structures, e.g. synganglion @@ -345691,11 +345827,11 @@ Classes for population already exist in IDO ('organism population', I brain - + - + @@ -345708,13 +345844,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + Bgee:AN @@ -345763,11 +345899,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0006104 BIRNLEX:796 - - - - - UMLS:C0006104 ncithesaurus:Brain @@ -345953,11 +346084,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0007776 BIRNLEX:1494 - - - - - UMLS:C0007776 ncithesaurus:Cortex @@ -346165,9 +346291,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -346192,7 +346318,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346248,44 +346374,44 @@ Classes for population already exist in IDO ('organism population', I cornea http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + - + MA - + MA - + FMA-isa - + definitional @@ -346346,7 +346472,7 @@ Classes for population already exist in IDO ('organism population', I - Transparent part of camera-type eye that helps to refract light to be focused on the retina. + A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina. The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG] @@ -346384,13 +346510,13 @@ Classes for population already exist in IDO ('organism population', I - The lens is avascular and nourished by diffusion from the aqueous and vitreous + The lens is avascular and nourished by diffusion from the aqueous and vitreous humors. lens of camera-type eye - Transparent part of camera-type eye that helps to refract light to be focused on the retina. + A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina. Wikipedia:Lens_(anatomy) http://orcid.org/0000-0002-6601-2165 @@ -346439,6 +346565,7 @@ Classes for population already exist in IDO ('organism population', I crystalline lens BTO:0000723 + PMID:36055924 @@ -346473,10 +346600,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates. @@ -346527,44 +346654,44 @@ Classes for population already exist in IDO ('organism population', I retina http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png - + - + - + - + - + FMA - + FMA - + FMA - + EHDAA2 @@ -346598,11 +346725,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0035298 BIRNLEX:1153 - - - - - UMLS:C0035298 ncithesaurus:Retina @@ -346643,8 +346765,8 @@ Classes for population already exist in IDO ('organism population', I + - @@ -346680,24 +346802,24 @@ Classes for population already exist in IDO ('organism population', I eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -346862,7 +346984,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346878,7 +347000,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346945,14 +347067,14 @@ Classes for population already exist in IDO ('organism population', I pleura http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png - + - + https://github.com/obophenotype/uberon/issues/86 @@ -347023,7 +347145,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. + Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO] Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO] articulation @@ -347064,7 +347186,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. + Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. GO_REF:0000034 VSAO:0000101 Wikipedia:Joint @@ -347127,7 +347249,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -347196,14 +347318,14 @@ Classes for population already exist in IDO ('organism population', I pons http://upload.wikimedia.org/wikipedia/commons/3/36/Gray768.png - + - + neuronames @@ -347237,11 +347359,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0032639 BIRNLEX:733 - - - - - UMLS:C0032639 ncithesaurus:Pons_Varolii @@ -349087,7 +349204,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -349147,14 +349264,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -349242,7 +349359,7 @@ Classes for population already exist in IDO ('organism population', I - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. Part of the nervous system which includes the brain and spinal cord.[AAO] @@ -349289,7 +349406,7 @@ Classes for population already exist in IDO ('organism population', I central nervous system - + @@ -349303,7 +349420,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -349359,11 +349476,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0927232 BIRNLEX:1099 - - - - - UMLS:C0927232 ncithesaurus:Central_Nervous_System @@ -349600,7 +349712,7 @@ Classes for population already exist in IDO ('organism population', I - + A nerve that transmits from sensory receptors on the surface of the body to the central nervous system. AEO:0000201 EHDAA2:0003200 @@ -349615,14 +349727,14 @@ Classes for population already exist in IDO ('organism population', I sensory nerve - + - + AEO @@ -349868,8 +349980,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A sac-like expansion of the ventral wall of the intestine, narrowed into a yolk stalk near the body[Hyman's]. Membranous sac attached to an embryo, providing early nourishment in the form of yolk in bony fishes, sharks, reptiles, birds, and primitive mammals. It functions as the developmental circulatory system of the human embryo, before internal circulation begins. In the mouse, the yolk sac is the first site of blood formation, generating primitive macrophages and erythrocytes[WP]. consider splitting class One of the extraembryonic fetal membranes that balloons out from the fetal midgut. [TFD][VHOG] @@ -349900,11 +350012,11 @@ Classes for population already exist in IDO ('organism population', I yolk sac http://upload.wikimedia.org/wikipedia/commons/1/17/Gray22.png - + - + @@ -349923,13 +350035,13 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 - + ISBN:0073040584 @@ -350082,7 +350194,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]. A funnel-shaped fibromuscular tube that conducts food to the ESOPHAGUS, and air to the LARYNYX and LUNGS. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH:A03.867]. Anatomical cavity bounded by the derivatives of the branchial arches.[AAO] @@ -350124,14 +350236,14 @@ Classes for population already exist in IDO ('organism population', I Consider generalizing to deuterostome pharynx chordate pharynx - + - + EHDAA2 @@ -350424,7 +350536,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -350461,14 +350573,14 @@ Classes for population already exist in IDO ('organism population', I hindgut http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray472.png - + - + Wikipedia @@ -350704,15 +350816,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + @@ -350764,15 +350876,15 @@ Classes for population already exist in IDO ('organism population', I rectum http://upload.wikimedia.org/wikipedia/commons/7/75/Anorectum.gif - + - + - + @@ -350786,19 +350898,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + EHDAA2 - + ISBN:0073040584 @@ -350890,7 +351002,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -350937,7 +351049,7 @@ Classes for population already exist in IDO ('organism population', I ventral pancreatic duct http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1100.png - + @@ -350950,7 +351062,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -351035,7 +351147,7 @@ Classes for population already exist in IDO ('organism population', I - + A zone of skin that is part of a back [Automatically generated definition]. TODO - distinguish between entire skin of region and arbitrary zone of skin on region EMAPA:36392 @@ -351052,7 +351164,7 @@ Classes for population already exist in IDO ('organism population', I skin of back - + @@ -351065,7 +351177,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -351099,9 +351211,9 @@ Classes for population already exist in IDO ('organism population', I + + - - A terminal branch of the left or right common carotid artery which supplies oxygenated blood to to the throat, neck glands, tongue, face, mouth, ear, scalp and dura mater of the meninges[MP]. not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO @@ -351134,15 +351246,15 @@ Classes for population already exist in IDO ('organism population', I https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722 http://upload.wikimedia.org/wikipedia/commons/1/13/External_carotid_a.gif - + - + - + @@ -351155,19 +351267,19 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + EHDAA2 - + FMA @@ -351394,11 +351506,6 @@ Classes for population already exist in IDO ('organism population', I vena cava inferior BTO:0002682 - - - - - vena cava inferior Wikipedia:Inferior_vena_cava @@ -351483,14 +351590,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -351532,11 +351639,11 @@ Classes for population already exist in IDO ('organism population', I pericardial cavity - + - + @@ -351549,13 +351656,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + Wikipedia @@ -351634,7 +351741,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -351666,14 +351773,14 @@ Classes for population already exist in IDO ('organism population', I endocardium of ventricle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -351811,7 +351918,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -351839,14 +351946,14 @@ Classes for population already exist in IDO ('organism population', I myocardium of ventricle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -352301,8 +352408,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A thin musculomebranous barrier that separates the abdominal and thoracic cavities. Often used for breathing control. The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs[GO]. @@ -352342,24 +352449,24 @@ Classes for population already exist in IDO ('organism population', I diaphragm - + - + - + PMID:23586979 - + definitional @@ -352652,8 +352759,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -352713,14 +352820,14 @@ Classes for population already exist in IDO ('organism population', I cardiac muscle tissue - + - + ZFA @@ -353143,7 +353250,7 @@ Classes for population already exist in IDO ('organism population', I - + Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri). AEO:0000111 BTO:0002422 @@ -353168,14 +353275,14 @@ Classes for population already exist in IDO ('organism population', I mesothelium http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg - + - + FMA @@ -353290,7 +353397,7 @@ Classes for population already exist in IDO ('organism population', I - + In anatomy, the superior mesenteric vein (SMV) is a blood vessel that drains blood from the small intestine. At its termination behind the neck of the pancreas, the SMV combines with the splenic vein to form the hepatic portal vein. The SMV lies to the right of the similarly named artery, the superior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]. BTO:0002783 @@ -353313,14 +353420,14 @@ Classes for population already exist in IDO ('organism population', I superior mesenteric vein http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png - + - + Wikipedia:Vitelline_vein @@ -353379,7 +353486,7 @@ Classes for population already exist in IDO ('organism population', I - + Vein that carries blood away from the liver[ZFA]. todo - add developmental relationships for other taxa @@ -353410,14 +353517,14 @@ Classes for population already exist in IDO ('organism population', I hepatic vein http://upload.wikimedia.org/wikipedia/commons/6/61/Gray1121.png - + - + FMA-abduced-lr @@ -353642,7 +353749,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -353678,7 +353785,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png - + @@ -353691,7 +353798,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -353739,7 +353846,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -353794,7 +353901,7 @@ Classes for population already exist in IDO ('organism population', I colon - + @@ -353808,7 +353915,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -353873,7 +353980,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the large intestine that is closest to the rectum and anus. It forms a loop that averages about 40 cm. in length, and normally lies within the pelvis, but on account of its freedom of movement it is liable to be displaced into the abdominal cavity. BTO:0000645 @@ -353903,7 +354010,7 @@ Classes for population already exist in IDO ('organism population', I sigmoid colon http://upload.wikimedia.org/wikipedia/commons/3/3b/Dickdarm-Schema.svg - + @@ -353916,7 +354023,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -353999,11 +354106,6 @@ Classes for population already exist in IDO ('organism population', I corpus gastricum BTO:0000505 - - - - - corpus gastricum Wikipedia:Body_of_stomach @@ -354026,7 +354128,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354080,7 +354182,7 @@ Classes for population already exist in IDO ('organism population', I pyloric antrum http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg - + @@ -354093,7 +354195,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -354126,11 +354228,6 @@ Classes for population already exist in IDO ('organism population', I antrum pyloricum BTO:0001732 - - - - - antrum pyloricum Wikipedia:Pyloric_antrum @@ -354601,7 +354698,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354618,7 +354715,7 @@ Classes for population already exist in IDO ('organism population', I portal lobule - + @@ -354631,7 +354728,7 @@ Classes for population already exist in IDO ('organism population', I - + MA MP @@ -354654,7 +354751,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354680,14 +354777,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001172 hepatic acinus - + - + cjm @@ -354915,10 +355012,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + @@ -354947,19 +355044,19 @@ Classes for population already exist in IDO ('organism population', I common hepatic duct http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg - + - + - + - + @@ -354972,25 +355069,25 @@ Classes for population already exist in IDO ('organism population', I - + MA - + Wikipedia - + Wikipedia - + definitional @@ -355253,7 +355350,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -355295,14 +355392,14 @@ Classes for population already exist in IDO ('organism population', I peritoneal cavity - + - + Wikipedia @@ -355344,11 +355441,6 @@ Classes for population already exist in IDO ('organism population', I cavitas peritonealis BTO:0001782 - - - - - cavitas peritonealis Wikipedia:Peritoneal_cavity @@ -355797,11 +355889,6 @@ Classes for population already exist in IDO ('organism population', I tunica mucosa gastris BTO:0001308 - - - - - tunica mucosa gastris Wikipedia:Gastric_mucosa @@ -356936,8 +357023,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A compound tubular submucosal gland found in that portion of the duodenum which is above the hepatopancreatic sphincter (Sphincter of Oddi). The main function of these glands is to produce a mucus-rich alkaline secretion (containing bicarbonate)[WP]. currently defined as equivalent to any submucosal gland in the duodenum. Said to be absent outside mammlian (Andrew 1959) but Ziswiler and Farner (1972) noted similar glands at the gastroduodenal junction of some birds @@ -356963,11 +357050,11 @@ Classes for population already exist in IDO ('organism population', I duodenal gland - + - + @@ -356980,13 +357067,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA, modified - + unclear for Aves ISBN:9780521617147 @@ -357042,7 +357129,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -357088,7 +357175,7 @@ Classes for population already exist in IDO ('organism population', I intestinal villus http://upload.wikimedia.org/wikipedia/commons/3/38/Small_intestine_low_mag.jpg - + @@ -357101,7 +357188,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -357214,7 +357301,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood vessel that drains blood from the large intestine that usually terminates when reaching the splenic vein, which goes on to form the portal vein with the superior mesenteric vein (SMV). Anatomical variations include the IMV draining into the confluence of the SMV and splenic vein and the IMV draining in the SMV. The IMV lies to the right of the similarly name artery, the inferior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]. BTO:0002782 @@ -357237,14 +357324,14 @@ Classes for population already exist in IDO ('organism population', I inferior mesenteric vein http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png - + - + FMA/obol @@ -357927,7 +358014,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -357959,7 +358046,7 @@ Classes for population already exist in IDO ('organism population', I interlobular bile duct - + @@ -357973,7 +358060,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA MP @@ -358114,7 +358201,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -358145,14 +358232,14 @@ Classes for population already exist in IDO ('organism population', I pancreatic acinus - + - + FMA @@ -358193,9 +358280,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating hormones[GO]. Organ which secretes a fluid containing enzymes that aid in the digestion of food.[AAO] @@ -358239,34 +358326,34 @@ Classes for population already exist in IDO ('organism population', I pancreas https://upload.wikimedia.org/wikipedia/commons/7/7e/Blausen_0699_PancreasAnatomy2.png - + - + - + - + PMID:16417468 - + Wikipedia - + Wikipedia @@ -358867,7 +358954,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -358897,14 +358984,14 @@ Classes for population already exist in IDO ('organism population', I liver parenchyma - + - + XAO @@ -358972,7 +359059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -359022,14 +359109,14 @@ Classes for population already exist in IDO ('organism population', I hepatic sinusoid - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -359094,8 +359181,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -359138,11 +359225,11 @@ Classes for population already exist in IDO ('organism population', I intralobular bile duct - + - + @@ -359155,13 +359242,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA @@ -359234,7 +359321,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -359284,14 +359371,14 @@ Classes for population already exist in IDO ('organism population', I endometrium https://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg - + - + FMA @@ -359378,7 +359465,7 @@ Classes for population already exist in IDO ('organism population', I - + Outer serosa layer of the uterus. TODO - check for parallel structure with peritoneum EMAPA:37792 @@ -359402,14 +359489,14 @@ Classes for population already exist in IDO ('organism population', I serosa of uterus https://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -359581,7 +359668,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscle (organ) which is a part of the pelvis. Examples: levator ani,. @@ -359599,7 +359686,7 @@ Classes for population already exist in IDO ('organism population', I muscle of pelvis - + @@ -359611,7 +359698,7 @@ Classes for population already exist in IDO ('organism population', I - + FMAdef @@ -359663,7 +359750,7 @@ Classes for population already exist in IDO ('organism population', I - + The anus and surrounding regions. Encompasses both internal and external regions, where present. Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG] EFO:0000847 @@ -359689,14 +359776,14 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/issues/507 http://upload.wikimedia.org/wikipedia/commons/f/fb/Gray408.png - + - + cjm @@ -360554,7 +360641,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -360568,7 +360655,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that is composed of bone tissue. @@ -360618,14 +360705,14 @@ Classes for population already exist in IDO ('organism population', I bone element - + - + VSAO-modified @@ -360823,7 +360910,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -360865,14 +360952,14 @@ Classes for population already exist in IDO ('organism population', I ascending aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + EHDAA2 @@ -360927,7 +361014,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pelvic girdle [Automatically generated definition]. Note that in MA, this is a subclass of pelvis muscle; in FMA this is a hindlimb muscle, but recall in FMA hindlimb includes the girdle. UBERON:0003271 @@ -360949,14 +361036,14 @@ Classes for population already exist in IDO ('organism population', I muscle of pelvic girdle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -361026,7 +361113,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361072,14 +361159,14 @@ Classes for population already exist in IDO ('organism population', I arch of aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + left arch 4 in human embryology.ch @@ -361144,7 +361231,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361178,7 +361265,7 @@ Classes for population already exist in IDO ('organism population', I descending aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + @@ -361191,7 +361278,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -361213,12 +361300,6 @@ Classes for population already exist in IDO ('organism population', I pars descendens aortae FMA:3784 - - - - aorta descendens - Wikipedia:Descending_aorta - @@ -361336,7 +361417,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361385,14 +361466,14 @@ Classes for population already exist in IDO ('organism population', I abdominal aorta http://upload.wikimedia.org/wikipedia/commons/a/af/Gray531.png - + - + FMA @@ -361437,11 +361518,6 @@ Classes for population already exist in IDO ('organism population', I aorta abdominalis BTO:0002976 - - - - - aorta abdominalis Wikipedia:Abdominal_aorta @@ -361450,11 +361526,6 @@ Classes for population already exist in IDO ('organism population', I pars abdominalis aortae BTO:0002976 - - - - - pars abdominalis aortae Wikipedia:Abdominal_aorta @@ -361570,7 +361641,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361608,7 +361679,7 @@ Classes for population already exist in IDO ('organism population', I common carotid artery plus branches http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + @@ -361621,7 +361692,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -361757,8 +361828,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A terminal branch of the left or right common carotid artery which supplies oxygenated blood to the brain and eyes[MP]. Each of two arteries starting at the bifurcation of the common carotid arteries through which blood circulates to many structures and organs in the head. [TFD][VHOG] @@ -361797,11 +361868,11 @@ Classes for population already exist in IDO ('organism population', I internal carotid artery http://upload.wikimedia.org/wikipedia/commons/9/9c/Gray513.png - + - + @@ -361814,13 +361885,13 @@ Classes for population already exist in IDO ('organism population', I - + cjm - + FMA @@ -361905,8 +361976,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of two laterally paired arteries that supplies the pectoral appendages, usually branching from the dorsal aorta. Developmental relationships should be added (intersegmental artery and right dorsal aorta in EHDAA2, occipitovertebral artery in XAO) @@ -361944,24 +362015,24 @@ Classes for population already exist in IDO ('organism population', I subclavian artery http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + - + EHDAA2 - + EHDAA2 @@ -362186,7 +362257,7 @@ Classes for population already exist in IDO ('organism population', I - + A tube extending from the mouth to the anus. @@ -362226,14 +362297,14 @@ Classes for population already exist in IDO ('organism population', I digestive tract - + - + NCBIBook:NBK10107 @@ -362362,7 +362433,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362376,6 +362447,7 @@ Classes for population already exist in IDO ('organism population', I The muscles associated with the larynx. + BTO:0001626 EMAPA:35473 FMA:46562 @@ -362393,17 +362465,18 @@ Classes for population already exist in IDO ('organism population', I musculi laryngeales uberon UBERON:0001568 + muscle of larynx - + - + prolog @@ -362438,15 +362511,16 @@ Classes for population already exist in IDO ('organism population', I - + - + Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. + Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. [TFD][VHOG] Makes up bulk of tongue in frogs and salamanders; makes up entire tongue in caecilians.[AAO] see Intrinsic Tongue.[FEED] @@ -362469,15 +362543,16 @@ Classes for population already exist in IDO ('organism population', I musculus genioglossus uberon UBERON:0001571 + genioglossus muscle http://upload.wikimedia.org/wikipedia/commons/7/7e/Genioglossus.png - + - + @@ -362490,13 +362565,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia @@ -362601,7 +362676,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362609,6 +362684,7 @@ Classes for population already exist in IDO ('organism population', I A muscle that attaches to the hyopid bone and to the tongue and is innervated by cranial nerve XII. + Makes up part of the tongue in frogs and salamanders.[AAO] The hyoglossus is a muscle that attaches to the hyoid and tongue and is innervated by Cranial Nerve XII.[FEED] relationship loss: subclass hyobranchial muscles (AAO:0000224)[AAO] @@ -362625,11 +362701,12 @@ Classes for population already exist in IDO ('organism population', I m. hyoglossus uberon UBERON:0001572 + hyoglossus muscle http://upload.wikimedia.org/wikipedia/commons/7/7e/Hyoglossus.png - + @@ -362642,7 +362719,7 @@ Classes for population already exist in IDO ('organism population', I - + lingual process in horse dbpedia @@ -362699,7 +362776,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362715,7 +362792,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362729,6 +362806,7 @@ Classes for population already exist in IDO ('organism population', I A muscle organ that attaches the tongue to some other structure. + The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG] main functions are altering the tongue's position allowing for protrusion, retraction, and side-to-side movement All intrinsic and extrinsic muscles of the tongue are supplied by the hypoglossal nerve (CN XII), except for one of the extrinsic muscles, palatoglossus, which is innervated by the Vagus nerve CN X of the pharyngeal plexus. @@ -362743,9 +362821,10 @@ Classes for population already exist in IDO ('organism population', I extrinsic tongue muscle uberon UBERON:0001575 + extrinsic muscle of tongue - + @@ -362758,7 +362837,7 @@ Classes for population already exist in IDO ('organism population', I - + check palatoglossus Wikipedia @@ -362805,7 +362884,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362824,9 +362903,10 @@ Classes for population already exist in IDO ('organism population', I - - + + The intrinsic tongue muscles are an integral part of the tongue and completely contained within the tongue that are innervated by Cranial Nerve XII. + The intrinsic tongue muscles are an integral part of the tongue that are innervated by Cranial Nerve XII.[FEED] The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG] The main function of the intrinsic muscles is to provide shape. They are not involved with changing the position of the tongue and are not attached to bone @@ -362841,13 +362921,14 @@ Classes for population already exist in IDO ('organism population', I intrinsic tongue muscle uberon UBERON:0001576 + intrinsic muscle of tongue - + - + @@ -362860,14 +362941,14 @@ Classes for population already exist in IDO ('organism population', I - + FEED Wikipedia - + EHDAA2 @@ -363084,11 +363165,6 @@ Classes for population already exist in IDO ('organism population', I vena cava superior BTO:0002683 - - - - - vena cava superior Wikipedia:Superior_vena_cava @@ -363245,8 +363321,9 @@ Classes for population already exist in IDO ('organism population', I - + The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]. + BTO:0000654 EMAPA:35240 FMA:49151 @@ -363261,12 +363338,13 @@ Classes for population already exist in IDO ('organism population', I ciliaris musculus ciliaris UBERON:0001605 + ciliary muscle http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png - + @@ -363285,7 +363363,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -363411,10 +363489,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A sphincter muscle that is part of the iris. In humans, it functions to constrict the pupil in bright light or during accommodation. Its dimensions are about 0.75 mm wide by 0.15 mm thick. It is controlled by parasympathetic fibers that originate from the Edinger-Westphal nucleus, travel along the oculomotor nerve (CN III), synapse in the ciliary ganglion, and then enter the eye via the short ciliary nerves. Initially, all the myocytes are of the smooth muscle type, but much later in life, so that ultimately most cells are of the striated muscle type. [WP,unvetted] WP says: It is found in vertebrates and some cephalopods; this class refers to the vertebrate structure @@ -363449,19 +363527,19 @@ Classes for population already exist in IDO ('organism population', I sphincter pupillae http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray878.png - + - + - + - + @@ -363474,27 +363552,27 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0781772214 - + encircles iris dbpedia - + encircles iris dbpedia - + dbpedia @@ -363602,11 +363680,12 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A smooth muscle of the eye, running radially in the iris that functions as a dilator. [WP,unvetted]. + It is innervated by the sympathetic system, which acts by releasing noradrenaline, which acts on alpha1-receptors. Thus, when presented with a threatening stimuli that activates the fight-or-flight response, this innervation dilates the iris, thus temporarily letting more light reach the retina BTO:0001371 EMAPA:35286 @@ -363636,23 +363715,24 @@ Classes for population already exist in IDO ('organism population', I radial muscle radiating fibers UBERON:0001608 + dilatator pupillae http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray878.png - + - + - + - + @@ -363665,27 +363745,27 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0781772214 - + outer margins of iris dbpedia - + inner margins of iris dbpedia - + dbpedia @@ -363812,7 +363892,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -363840,14 +363920,14 @@ Classes for population already exist in IDO ('organism population', I lingual artery https://upload.wikimedia.org/wikipedia/commons/3/3c/Lingual_artery.PNG - + - + FMA-abduced-lr @@ -364043,7 +364123,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -364060,8 +364140,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of a pair of right-sided and left-sided blood vessels in the circle of Willis. It connects the three cerebral arteries of the same side. Anteriorly, it is one portion of the terminal trifurcation of the internal carotid artery. The anterior cerebral artery and the middle cerebral artery are the other two branches of the trifurcation. Posteriorly, it communicates with the posterior cerebral artery. An artery that connects caudal division of the internal carotid artery and the basal communicating artery to the basilar artery. Isogai et al. 2001.[TAO] @@ -364091,24 +364171,24 @@ Classes for population already exist in IDO ('organism population', I posterior communicating artery http://upload.wikimedia.org/wikipedia/commons/2/2e/Circle_of_Willis_en.svg - + - + - + FMA-abduced-lr - + FMA ZFA @@ -364581,10 +364661,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + The first major branch of the abdominal aorta. EHDAA2:0004519 @@ -364616,44 +364696,44 @@ Classes for population already exist in IDO ('organism population', I celiac artery http://upload.wikimedia.org/wikipedia/commons/6/65/Gray532.png - + - + - + - + - + ISBN:0073040584 - + ISBN:0073040584 - + ISBN:0073040584 - + ISBN:0073040584 @@ -364712,12 +364792,6 @@ Classes for population already exist in IDO ('organism population', I coeliac trunk Wikipedia:Celiac_artery - - - - truncus coeliacus - Wikipedia:Celiac_artery - @@ -364780,7 +364854,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -364842,14 +364916,14 @@ Classes for population already exist in IDO ('organism population', I trigeminal nerve https://upload.wikimedia.org/wikipedia/commons/9/99/Gray778_Trigeminal.png - + - + Wikipedia @@ -364897,11 +364971,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0040996 BIRNLEX:869 - - - - - UMLS:C0040996 ncithesaurus:Trigeminal_Nerve @@ -364974,7 +365043,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -365030,14 +365099,14 @@ Classes for population already exist in IDO ('organism population', I glossopharyngeal nerve http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png - + - + motor Wikipedia @@ -365080,11 +365149,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0017679 BIRNLEX:899 - - - - - UMLS:C0017679 ncithesaurus:Glossopharyngeal_Nerve @@ -365290,11 +365354,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0020614 BIRNLEX:820 - - - - - UMLS:C0020614 ncithesaurus:Hypoglossal_Nerve @@ -365523,7 +365582,7 @@ Classes for population already exist in IDO ('organism population', I - + The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]. Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO] @@ -365547,14 +365606,14 @@ Classes for population already exist in IDO ('organism population', I facial vein http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png - + - + FMA @@ -365713,7 +365772,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -365771,7 +365830,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal ganglion http://upload.wikimedia.org/wikipedia/commons/6/69/Gray776.png - + @@ -365784,7 +365843,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -365891,11 +365950,6 @@ Classes for population already exist in IDO ('organism population', I ganglion trigeminale BTO:0001231 - - - - - ganglion trigeminale Wikipedia:Trigeminal_ganglion @@ -365913,11 +365967,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + @@ -365925,6 +365979,7 @@ Classes for population already exist in IDO ('organism population', I The bone at the lower, posterior part of the skull. + formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII fusion of basi-, exo- and supra-occipitals (and maybe tabular) EMAPA:25112 @@ -365941,28 +365996,29 @@ Classes for population already exist in IDO ('organism population', I occipital squama os occipitale UBERON:0001676 + occipital bone http://upload.wikimedia.org/wikipedia/commons/2/27/Gray194.png - + - + - + - + - + @@ -365975,32 +366031,32 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + basi paired exo and supra occipital bones MA-modified - + interparietal (postparietal) - + WP - + PMID:11523816 @@ -366048,10 +366104,11 @@ Classes for population already exist in IDO ('organism population', I - - - + + + The large, irregular bone located at the base and side of the skull; consists of three parts at birth: squamous, tympanic, and petrous. + In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone + styloid process fusion of squamosal + angular (tympanic annulus) [derm.] + petrosal (prootic + opisthotic) The temporal bone consists of four parts: * Squama temporalis * Mastoid portion * Petrous portion (Petrosal ridge) * Tympanic part[WP]. @@ -366070,20 +366127,21 @@ Classes for population already exist in IDO ('organism population', I uberon os temporale UBERON:0001678 + temporal bone http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg - + - + - + @@ -366096,20 +366154,20 @@ Classes for population already exist in IDO ('organism population', I - + petrosal - + squamosal plus angular temporal series - + styloid process @@ -366163,9 +366221,10 @@ Classes for population already exist in IDO ('organism population', I - - + + A horseshoe shaped bone situated in the anterior midline of the neck between the chin and the thyroid cartilage. The hyoid bone provides attachment to the muscles of the floor of the mouth and the tongue above, the larynx below, and the epiglottis and pharynx behind. [WP,modified]. + Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO] relationship loss: part_of hyoid plate (AAO:0000664)[AAO] The hyoid bone is derived from the lower half of the second gill arch in fish, which separates the first gill slit from the spiracle. In many animals, it also incorporates elements of other gill arches, and has a correspondingly greater number of cornua. Amphibians and reptiles may have many cornua, while mammals (including humans) have two pairs, and birds only one. In birds, and some reptiles, the body of the hyoid is greatly extended forward, creating a solid bony support for the tongue. The howler monkey Alouatta has a pneumatized hyoid bone, one of the few cases of postcranial pneumatization of bones outside Saurischia. @@ -366187,16 +366246,17 @@ Classes for population already exist in IDO ('organism population', I lingual bone os hyoideum UBERON:0001685 + hyoid bone http://upload.wikimedia.org/wikipedia/commons/1/1f/Gray186.png - + - + @@ -366209,13 +366269,13 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia - + Wikipedia @@ -366278,12 +366338,6 @@ Classes for population already exist in IDO ('organism population', I lingual bone Wikipedia:Hyoid_bone - - - - os hyoideum - Wikipedia:Hyoid_bone - @@ -366309,8 +366363,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -366339,11 +366393,11 @@ Classes for population already exist in IDO ('organism population', I glossopharyngeal ganglion - + - + @@ -366356,7 +366410,7 @@ Classes for population already exist in IDO ('organism population', I - + dorsal EHDAA2 ISBN:0471888893 @@ -366365,7 +366419,7 @@ Classes for population already exist in IDO ('organism population', I - + ventrolateral EHDAA2 ISBN:0471888893 @@ -366437,6 +366491,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof. + Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO] neurocranial It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton @@ -366458,6 +366513,7 @@ Classes for population already exist in IDO ('organism population', I brain pan braincase UBERON:0001703 + @@ -366536,7 +366592,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -366602,14 +366658,14 @@ Classes for population already exist in IDO ('organism population', I jaw skeleton - + - + cjm @@ -366688,7 +366744,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -366723,14 +366779,14 @@ Classes for population already exist in IDO ('organism population', I lower jaw region http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png - + - + Wikipedia:Mandibular_prominence @@ -366894,8 +366950,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -366908,16 +366964,16 @@ Classes for population already exist in IDO ('organism population', I - - - + + + - + A muscular organ in the floor of the mouth. in MA the tongue is part of the oral region, which in uberon is treated as the oral opening. consider revising oral opening - oral region equivalence. A mobile mass of muscular tissue that is covered with mucous membrane, occupies much of the cavity of the mouth, forms part of its floor, bears the organ of taste, and assists in chewing and swallowing. [TFD][VHOG] @@ -366961,27 +367017,27 @@ Classes for population already exist in IDO ('organism population', I tongue http://upload.wikimedia.org/wikipedia/commons/a/a6/Tongue.agr.jpg - + - + - + - + - + - + @@ -366994,7 +367050,7 @@ Classes for population already exist in IDO ('organism population', I - + BTO EHDAA2 FMA @@ -367003,31 +367059,31 @@ Classes for population already exist in IDO ('organism population', I - + MA - + anterior 2/3 - + Wikipedia - + Wikipedia - + definitional @@ -367141,7 +367197,7 @@ Classes for population already exist in IDO ('organism population', I - + BIRNLEX:4102 EMAPA:32777 FMA:54819 @@ -367157,14 +367213,14 @@ Classes for population already exist in IDO ('organism population', I papilla of tongue - + - + FMA-modified @@ -367172,11 +367228,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0226964 BIRNLEX:4102 - - - - - UMLS:C0226964 ncithesaurus:Papilla_of_the_Tongue @@ -367193,9 +367244,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -367246,34 +367297,34 @@ Classes for population already exist in IDO ('organism population', I taste bud http://upload.wikimedia.org/wikipedia/commons/5/5a/Gray1018.png - + - + - + - + NIF - + FMA - + http://dev.biologists.org/content/128/22/4573.full @@ -367322,11 +367373,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0039337 BIRNLEX:4101 - - - - - UMLS:C0039337 ncithesaurus:Taste_Bud @@ -367335,13 +367381,6 @@ Classes for population already exist in IDO ('organism population', I tastebud Wikipedia:Taste_bud - - - - caliculus gustatorius - Wikipedia:Taste_bud - - @@ -367393,7 +367432,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367418,14 +367457,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001731 cavity of pharynx - + - + XAO @@ -367459,7 +367498,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367499,14 +367538,14 @@ Classes for population already exist in IDO ('organism population', I larynx http://upload.wikimedia.org/wikipedia/commons/8/8a/Larynx_external_en.svg - + - + EHDAA2 @@ -367734,7 +367773,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367799,14 +367838,14 @@ Classes for population already exist in IDO ('organism population', I vagus nerve http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png - + - + motor Wikipedia @@ -367855,11 +367894,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0042276 BIRNLEX:801 - - - - - UMLS:C0042276 ncithesaurus:Vagus_Nerve @@ -367899,11 +367933,6 @@ Classes for population already exist in IDO ('organism population', I nervus vagus BTO:0003472 - - - - - nervus vagus Wikipedia:Vagus_nerve @@ -368175,7 +368204,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368218,14 +368247,14 @@ Classes for population already exist in IDO ('organism population', I iris - + - + XAO @@ -368297,7 +368326,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368349,14 +368378,14 @@ Classes for population already exist in IDO ('organism population', I corneal epithelium http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + ISBN:0781772214 @@ -368452,16 +368481,16 @@ Classes for population already exist in IDO ('organism population', I - - + + - - + + @@ -368469,6 +368498,7 @@ Classes for population already exist in IDO ('organism population', I Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]. + The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]. The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG] scleral @@ -368494,6 +368524,7 @@ Classes for population already exist in IDO ('organism population', I uberon scleral capsule UBERON:0001773 + @@ -368501,44 +368532,44 @@ Classes for population already exist in IDO ('organism population', I sclera http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + - + FMA - + ZFA - + ISBN:0781772214 - + cjm ISBN:0781772214 Wikipedia @@ -368591,7 +368622,7 @@ Classes for population already exist in IDO ('organism population', I - + A skeletal muscle organ that is part of the trunk region. Note that this class excludes smooth muscle elements in the trunk region, such as the internal anal sphincter. This appears to be consistent with other ontologies such as FMA and ZFA which appear to only include skeletal muscles here. In fact the MA class 'trunk muscle' is classified as a 'set of skeletal muscles'. Many ontologies do not appear to have a coherent distinction between an individual muscle and the musculature (i.e. the set of muscles in a region), so we group all together here. @@ -368616,14 +368647,14 @@ Classes for population already exist in IDO ('organism population', I skeletal muscle of trunk - + - + prolog @@ -368694,7 +368725,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368733,14 +368764,14 @@ Classes for population already exist in IDO ('organism population', I ciliary body http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + ISBN:0781772214 @@ -368774,12 +368805,6 @@ Classes for population already exist in IDO ('organism population', I VHOG:0000102 - - - - corpus ciliare - Wikipedia:Ciliary_body - @@ -368794,14 +368819,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -368864,24 +368889,24 @@ Classes for population already exist in IDO ('organism population', I optic choroid http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + MA - + Wikipedia @@ -368981,7 +369006,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369030,14 +369055,14 @@ Classes for population already exist in IDO ('organism population', I substantia propria of cornea http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + cjm ISBN:0781772214 Wikipedia @@ -369105,7 +369130,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369114,9 +369139,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + A double layer covering the ciliary body that produces aqueous humor. BTO:0001770 @@ -369136,15 +369161,15 @@ Classes for population already exist in IDO ('organism population', I ciliary epithelium - + - + - + @@ -369157,19 +369182,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + MP - + Wikipedia @@ -369573,11 +369598,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0010268 BIRNLEX:1623 - - - - - UMLS:C0010268 ncithesaurus:Cranial_Nerve @@ -369601,7 +369621,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369637,14 +369657,14 @@ Classes for population already exist in IDO ('organism population', I aqueous humor of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + FMA def states A and P located_in in EHDAA2 VHOG @@ -369765,8 +369785,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -369799,24 +369819,24 @@ Classes for population already exist in IDO ('organism population', I anterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png - + - + - + FMA - + cjm @@ -369867,8 +369887,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -369898,24 +369918,24 @@ Classes for population already exist in IDO ('organism population', I posterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + FMA - + cjm @@ -370097,7 +370117,7 @@ Classes for population already exist in IDO ('organism population', I - + The elastic, clear, membrane-like structure, that is outer most layer of the lens. The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG] (...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG] @@ -370123,14 +370143,14 @@ Classes for population already exist in IDO ('organism population', I capsule of lens http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png - + - + EHDAA2 @@ -370297,7 +370317,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -370336,14 +370356,14 @@ Classes for population already exist in IDO ('organism population', I sympathetic ganglion http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + - + DOI:10.1101/gr.157586.113 ISBN:0073040584 @@ -370389,11 +370409,6 @@ Classes for population already exist in IDO ('organism population', I ganglion sympathicum BTO:0001333 - - - - - ganglion sympathicum Wikipedia:Sympathetic_ganglion @@ -370471,11 +370486,6 @@ Classes for population already exist in IDO ('organism population', I ganglion parasympathicum BTO:0001256 - - - - - ganglion parasympathicum Wikipedia:Parasympathetic_ganglion @@ -370589,8 +370599,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -370627,11 +370637,11 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/9/90/Lips.JPG http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg - + - + @@ -370644,7 +370654,7 @@ Classes for population already exist in IDO ('organism population', I - + BTO FMA-implicit VHOG @@ -370653,7 +370663,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -370794,7 +370804,7 @@ Classes for population already exist in IDO ('organism population', I - + One of two bilateral, largely symmetrical organ subdivisions within the telencephalon which contain the cerebral cortex and cerebral white matter.[FMA]. Part of the telencephalon consisting of either of the two smooth, elongated halves of the cerebrum.[AAO] The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG] @@ -370832,14 +370842,14 @@ Classes for population already exist in IDO ('organism population', I cerebral hemisphere http://upload.wikimedia.org/wikipedia/commons/9/92/Hemispheres.png - + - + FMA-abduced-lr @@ -371023,11 +371033,6 @@ Classes for population already exist in IDO ('organism population', I nervus phrenicus BTO:0001063 - - - - - nervus phrenicus Wikipedia:Phrenic_nerve @@ -371057,7 +371062,7 @@ Classes for population already exist in IDO ('organism population', I - + The most anterior region of the brain including both the telencephalon and diencephalon. @@ -371104,14 +371109,14 @@ Classes for population already exist in IDO ('organism population', I forebrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -371170,11 +371175,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0085140 BIRNLEX:1509 - - - - - UMLS:C0085140 ncithesaurus:Fore-Brain @@ -371192,14 +371192,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]. developmental relationships need revised @@ -371252,24 +371252,24 @@ Classes for population already exist in IDO ('organism population', I midbrain http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG - + - + - + definitional - + Bgee:AN @@ -371342,11 +371342,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0025462 BIRNLEX:1667 - - - - - UMLS:C0025462 ncithesaurus:Mesencephalon @@ -371490,7 +371485,7 @@ Classes for population already exist in IDO ('organism population', I - + Part of the forebrain consisting of paired olfactory bulbs and cerebral hemispheres. Organ component of neuraxis that has as its parts the cerebral cortex, cerebral white matter, basal ganglia, septum and fornix, as well as subcortical gray and white matter structures[FMA:62000]. @@ -371550,14 +371545,14 @@ Classes for population already exist in IDO ('organism population', I telencephalon - + - + Bgee:AN @@ -371701,14 +371696,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The division of the forebrain that develops from the foremost primary cerebral vesicle. @@ -371771,24 +371766,24 @@ Classes for population already exist in IDO ('organism population', I diencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + - + definitional - + definitional @@ -371866,11 +371861,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0012144 BIRNLEX:1503 - - - - - UMLS:C0012144 ncithesaurus:Diencephalon @@ -371924,7 +371914,7 @@ Classes for population already exist in IDO ('organism population', I - + Rostral segment of the hindbrain that has as its parts the pons (where present) and the cerebellum[WP,modified]. Anterior part of the hindbrain ventral to the cerebellum[BIRNLEX:965]. @@ -371959,14 +371949,14 @@ Classes for population already exist in IDO ('organism population', I metencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -372168,11 +372158,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0025148 BIRNLEX:957 - - - - - UMLS:C0025148 ncithesaurus:Medulla_Oblongata @@ -372347,7 +372332,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a small intestine [Automatically generated definition]. Intestinal epithelium which lines the lumen of the mid intestine.[TAO] BTO:0001258 @@ -372372,14 +372357,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of small intestine - + - + FMA @@ -372542,6 +372527,7 @@ Classes for population already exist in IDO ('organism population', I An endothelium that is part of an arteriole [Automatically generated definition]. + EMAPA:36286 FMA:62115 MA:0000705 @@ -372550,6 +372536,7 @@ Classes for population already exist in IDO ('organism population', I arteriole endothelium uberon UBERON:0001916 + endothelium of arteriole @@ -372777,7 +372764,7 @@ Classes for population already exist in IDO ('organism population', I - + Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]. Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG] @@ -372817,14 +372804,14 @@ Classes for population already exist in IDO ('organism population', I midbrain tegmentum http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png - + - + ZFA @@ -372951,7 +372938,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -372997,14 +372984,14 @@ Classes for population already exist in IDO ('organism population', I neocortex http://upload.wikimedia.org/wikipedia/commons/7/77/Neocortex.jpg - + - + Wikipedia @@ -373119,8 +373106,9 @@ Classes for population already exist in IDO ('organism population', I - + The hyaline cartilaginous structures that support the bronchi, present as irregular rings in the larger bronchi (and not as regular as in the trachea), and as small plates and islands in the smaller bronchi; as the branching continues through the bronchial tree, the amount of hyaline cartilage in the walls decreases until it is absent in the smallest bronchioles[MP]. + EMAPA:35192 FMA:62649 MA:0001835 @@ -373137,17 +373125,18 @@ Classes for population already exist in IDO ('organism population', I cartilagines bronchiales uberon UBERON:0001956 + cartilage of bronchus - + - + MP @@ -373322,7 +373311,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that lines a terminal bronchiole. A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[DOI:10.1242/dev.115469] @@ -373344,14 +373333,14 @@ Classes for population already exist in IDO ('organism population', I terminal bronchiole epithelium - + - + FMA @@ -373525,7 +373514,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -373584,14 +373573,14 @@ Classes for population already exist in IDO ('organism population', I bile - + - + 0.3% in humans @@ -373809,7 +373798,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a esophagus [Automatically generated definition]. EMAPA:26987 FMA:63050 @@ -373838,14 +373827,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001974 lamina propria of esophagus - + - + FMA @@ -374077,7 +374066,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -374118,14 +374107,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of esophagus - + - + FMA @@ -374438,8 +374427,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -374452,7 +374441,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -374467,6 +374456,7 @@ Classes for population already exist in IDO ('organism population', I A vessel through which blood circulates in the body. consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus + Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG] Any of the vessels through which blood circulates in the body.[AAO] The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG] @@ -374503,40 +374493,41 @@ Classes for population already exist in IDO ('organism population', I vas sanguineum UBERON:0001981 + blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -374903,10 +374894,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell. Phylogenetic analyses of the concatenated data set using maximum parsimony, maximum likelihood and distance based (neighbour joining) methods all converged on a nearly identical, well supported topology defining four principal eutherian lineages. The results affirm monophyly of traditional placental orders (except Artiodactyla and Insectivora), and also support some previously proposed, as well as new, superordinal clades.[well established][VHOG] @@ -374942,44 +374933,44 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/6/66/Placenta.jpg http://upload.wikimedia.org/wikipedia/commons/f/f1/Placenta.svg - + - + - + - + - + https://github.com/obophenotype/uberon/issues/1376 - + ISBN:0073040584 - + Wikipedia - + ISBN:0073040584 @@ -375165,7 +375156,7 @@ Classes for population already exist in IDO ('organism population', I - + Cartilage tissue primarily composed of type II collagen (thin fibrils) and a glassy appearance. Cartilage (tissue) which consists of chondrocytes and collagen, the intercellular matrix of which is an amorphous gel with a perichondrium[FMA:64783]. Cartilage tissue primarily composed of type II collagen (thin fibrils) and a glassy appearance.[VSAO] @@ -375188,7 +375179,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/2/2a/Gray292.png http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg - + @@ -375201,7 +375192,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO-text-def @@ -375287,9 +375278,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood.. @@ -375329,35 +375320,35 @@ Classes for population already exist in IDO ('organism population', I pulmonary artery https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png - + - + - + - + Wikipedia - + EHDAA2 XAO - + EHDAA2 @@ -375778,11 +375769,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0000905 BIRNLEX:812 - - - - - UMLS:C0000905 ncithesaurus:Accessory_Nerve @@ -376106,7 +376092,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376119,7 +376105,7 @@ Classes for population already exist in IDO ('organism population', I - + The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]. @@ -376170,25 +376156,25 @@ Classes for population already exist in IDO ('organism population', I hindbrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + - + modified-source-relation ABA - + Bgee:AN @@ -376267,11 +376253,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0035507 BIRNLEX:942 - - - - - UMLS:C0035507 ncithesaurus:Hind-Brain @@ -376410,7 +376391,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376444,14 +376425,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of bronchus - + - + FMA @@ -376685,7 +376666,7 @@ Classes for population already exist in IDO ('organism population', I - + The pontine raphe nucleus is one of the raphe nuclei. It is located in the pontine tegmentum. [WP,unvetted]. @@ -376716,14 +376697,14 @@ Classes for population already exist in IDO ('organism population', I pontine raphe nucleus - + - + Wikipedia @@ -376806,7 +376787,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376875,14 +376856,14 @@ Classes for population already exist in IDO ('organism population', I lung https://github.com/obophenotype/uberon/issues/701 - + - + some species only have a single lung @@ -377152,7 +377133,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377178,14 +377159,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of bronchiole - + - + FMA @@ -377281,9 +377262,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + The truncus arteriosus and bulbus cordis are divided by the aorticopulmonary septum. The truncus arteriosus gives rise to the ascending aorta and the pulmonary trunk. The bulbus cordis gives rise to the smooth parts (outflow tract) of the left and right ventricles. assume spelling error for ncit EHDAA2:0004143 @@ -377301,15 +377282,15 @@ Classes for population already exist in IDO ('organism population', I truncus arteriosus - + - + - + @@ -377328,19 +377309,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + EHDAA2 - + EHDAA2 @@ -377371,7 +377352,7 @@ Classes for population already exist in IDO ('organism population', I - + The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves[GO]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves[ZFA]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves.[TAO] relationship loss: develops_from endocardial ring (TAO:0005072)[TAO] @@ -377403,14 +377384,14 @@ Classes for population already exist in IDO ('organism population', I endocardial cushion http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png - + - + ZFA @@ -377486,8 +377467,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The sinus venosus is a large cardiac chamber at the inflow tract that receives venous blood from systemic circulation. precedes the atrium on the venous side of the chordate heart. Heart region collecting blood from the paired common cardinal veins and delivering to the atrium. One of four components of the heart. The sinus venosus also acts as a pacemaker and is the first to contract. Kimmel et al, 1995.[TAO] Part of the circulatory system which receives blood from the systemic veins and contracts to pump the blood into the atrium of the heart.[AAO] @@ -377522,24 +377503,24 @@ Classes for population already exist in IDO ('organism population', I sinus venosus http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png - + - + - + VHOG - + Bgee:AN @@ -377641,7 +377622,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377672,7 +377653,7 @@ Classes for population already exist in IDO ('organism population', I - + The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]. Consider adding a layer-of-skin grouping class for all skin layers @@ -377712,24 +377693,24 @@ Classes for population already exist in IDO ('organism population', I dermis http://upload.wikimedia.org/wikipedia/commons/2/23/EpidermisPainted.svg - + - + - + FMA - + definitional @@ -377769,11 +377750,6 @@ Classes for population already exist in IDO ('organism population', I corium BTO:0000294 - - - - - corium Wikipedia:Dermis @@ -377792,7 +377768,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377811,7 +377787,7 @@ Classes for population already exist in IDO ('organism population', I - + Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]. A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells. Le Guellec et al, 2004.[TAO] @@ -377846,24 +377822,24 @@ Classes for population already exist in IDO ('organism population', I hypodermis http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg - + - + - + ZFA - + FMA-modified @@ -378284,8 +378260,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A cardiac ventricle that is in the right side of the heart. The muscular chamber on the right and in front of the left ventricle. It generally receives venous blood from the right atrium and conveys it into the pulmonary artery. [(1988)_Dorian_AF, Amsterdam, Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B._Anatomy, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier's_Encyclopaedic_Dictionary_of_Medicine][VHOG] @@ -378316,24 +378292,24 @@ Classes for population already exist in IDO ('organism population', I heart right ventricle http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg - + - + - + PMID:17276708 - + cjm @@ -378514,7 +378490,7 @@ Classes for population already exist in IDO ('organism population', I - + Cardiac chamber through which blood leaves the heart. A chamber of the heart that receives blood from one or more atria and pumps it by muscular contraction into the arteries.[AAO] One of four heart chambers.[TAO] @@ -378553,14 +378529,14 @@ Classes for population already exist in IDO ('organism population', I cardiac ventricle - + - + Bgee:AN @@ -378635,7 +378611,7 @@ Classes for population already exist in IDO ('organism population', I - + A cardiac ventricle that is in the left side of the heart. Thick-walled muscular chamber constituting the left border and apex of the heart. It receives oxygenated blood from the left atrium through the mitral orifice and send it off into the aorta. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG] @@ -378667,14 +378643,14 @@ Classes for population already exist in IDO ('organism population', I heart left ventricle http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg - + - + GO @@ -378958,6 +378934,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm]. + Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO] Skeletal system that consists of the paired fins (pectoral or pelvic fins).[TAO] The pectoral and pelvic girdles, which articulate with the axial skeleton, together with their associated limbs, the forelimbs and hind limbs, form the appendicular skeleton.[AAO] @@ -378983,6 +378960,7 @@ Classes for population already exist in IDO ('organism population', I skeleton appendiculare UBERON:0002091 + @@ -379471,7 +379449,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -379513,14 +379491,14 @@ Classes for population already exist in IDO ('organism population', I skin of body http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg - + - + Wikipathways:WP2062 @@ -379869,7 +379847,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -379918,14 +379896,14 @@ Classes for population already exist in IDO ('organism population', I spleen https://upload.wikimedia.org/wikipedia/commons/d/d6/Illu_spleen.jpg - + - + multiple sources - true spleen appear in jawed vertebrates @@ -379983,22 +379961,22 @@ Classes for population already exist in IDO ('organism population', I - + - + - - + + @@ -380076,19 +380054,19 @@ Classes for population already exist in IDO ('organism population', I liver https://upload.wikimedia.org/wikipedia/commons/6/64/Leber_Schaf.jpg - + - + - + - + @@ -380103,25 +380081,25 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA-weakened - + EHDAA2 - + http://www.stembook.org/node/512 @@ -380296,11 +380274,6 @@ Classes for population already exist in IDO ('organism population', I intestinum tenue BTO:0000651 - - - - - intestinum tenue Wikipedia:Small_intestine @@ -380326,7 +380299,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -380379,7 +380352,7 @@ Classes for population already exist in IDO ('organism population', I https://upload.wikimedia.org/wikipedia/commons/b/b1/GallbladderAnatomy-en.svg https://upload.wikimedia.org/wikipedia/commons/f/f4/Abdomal_organs.svg - + @@ -380392,7 +380365,7 @@ Classes for population already exist in IDO ('organism population', I - + definitional @@ -381003,7 +380976,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -381042,14 +381015,14 @@ Classes for population already exist in IDO ('organism population', I superior olivary complex http://upload.wikimedia.org/wikipedia/commons/4/46/Gray713.png - + - + NIFSTD @@ -381140,7 +381113,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -381198,14 +381171,14 @@ Classes for population already exist in IDO ('organism population', I locus ceruleus http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png - + - + check ZFA NIFSTD @@ -381246,11 +381219,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0023951 BIRNLEX:905 - - - - - UMLS:C0023951 ncithesaurus:Locus_Coeruleus @@ -381339,7 +381307,7 @@ Classes for population already exist in IDO ('organism population', I - + Nucleus containing parasympathetic neurons giving rise to the parasympathetic division of the facial nerve, innervating the salivary glands (Brodal, Neurological Anatomy, 3rd ed., 1981, pg 703). @@ -381375,14 +381343,14 @@ Classes for population already exist in IDO ('organism population', I superior salivatory nucleus http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray788.png - + - + definitional @@ -381512,7 +381480,7 @@ Classes for population already exist in IDO ('organism population', I - + The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]. Layer that lines the lumen of the heart.[TAO] Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO] @@ -381554,14 +381522,14 @@ Classes for population already exist in IDO ('organism population', I endocardium http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png - + - + Bgee:AN @@ -381975,8 +381943,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The conducting airway of the lungs found terminal to the bronchi; these structures contain neither cartilage nor mucous-secreting glands; the epithelium of the bronchioles becomes thinner with each branching. bronchiolar lacks submucosa and cartilage plates; they have 3 layers: mucosa, muscular layer and outer layer @@ -382006,24 +381974,24 @@ Classes for population already exist in IDO ('organism population', I bronchiole https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png - + - + - + ncit - + FMA @@ -382287,7 +382255,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -382345,7 +382313,7 @@ Classes for population already exist in IDO ('organism population', I integument - + @@ -382358,7 +382326,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -382699,7 +382667,7 @@ Classes for population already exist in IDO ('organism population', I - + Vasculature that is part of the eye region. not part of the eye in ZFA. Note this changed to a blood vessel in ZFA @@ -382720,14 +382688,14 @@ Classes for population already exist in IDO ('organism population', I vasculature of eye - + - + ISBN:0781772214 @@ -382786,7 +382754,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -382826,14 +382794,14 @@ Classes for population already exist in IDO ('organism population', I musculoskeletal system - + - + check ctenophore @@ -382876,7 +382844,7 @@ Classes for population already exist in IDO ('organism population', I - + Nonsynovial joint in which the articulating bones or cartilages are connected by ligaments. Examples: sagittal suture, inferior tibiofibular syndesmosis, gomphosis.[FMA]. A joint where fibrous tissue such as ligament connects two calcified tissues.[TAO] AEO:0000178 @@ -382896,7 +382864,7 @@ Classes for population already exist in IDO ('organism population', I fibrous joint - + @@ -382909,7 +382877,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -383307,18 +383275,19 @@ Classes for population already exist in IDO ('organism population', I - + - - + + Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO). TODO - add superclass to unify with VNC? + Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG] AAO:0010151 @@ -383362,6 +383331,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002240 + @@ -383370,34 +383340,34 @@ Classes for population already exist in IDO ('organism population', I spinal cord http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg - + - + - + - + ZFA - + definitional - + definitional @@ -383438,11 +383408,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0037925 BIRNLEX:1709 - - - - - UMLS:C0037925 ncithesaurus:Spinal_Cord @@ -383488,11 +383453,6 @@ Classes for population already exist in IDO ('organism population', I medulla spinalis BTO:0001279 - - - - - medulla spinalis Wikipedia:Spinal_cord @@ -383599,7 +383559,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -383650,14 +383610,14 @@ Classes for population already exist in IDO ('organism population', I ventral horn of spinal cord - + - + FMA-abduced-lr @@ -383840,11 +383800,6 @@ Classes for population already exist in IDO ('organism population', I brainstem reticular formation MA:0003185 - - - - - brainstem reticular formation NeuroNames:1223 @@ -383961,7 +383916,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -383991,14 +383946,14 @@ Classes for population already exist in IDO ('organism population', I dorsal mesentery http://upload.wikimedia.org/wikipedia/commons/8/85/Gray985.png - + - + EHDAA2 @@ -384162,11 +384117,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0006121 BIRNLEX:1565 - - - - - UMLS:C0006121 ncithesaurus:Brain_Stem @@ -384770,7 +384720,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -384811,14 +384761,14 @@ Classes for population already exist in IDO ('organism population', I coelemic cavity lumen - + - + definitional @@ -384918,8 +384868,9 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a back [Automatically generated definition]. + EMAPA:35161 FMA:85216 MA:0000496 @@ -384928,16 +384879,17 @@ Classes for population already exist in IDO ('organism population', I muscle organ of back uberon UBERON:0002324 + muscle of back - + - + prolog @@ -384985,9 +384937,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -385042,15 +384994,15 @@ Classes for population already exist in IDO ('organism population', I notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -385069,19 +385021,19 @@ Classes for population already exist in IDO ('organism population', I - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -385166,8 +385118,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. currently classified as an epithelial vesicle, consistent with EHDAA2 and https://github.com/obophenotype/uberon/wiki/The-neural-crest. Consider making 'somitic mesoderm' a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk @@ -385213,11 +385165,11 @@ Classes for population already exist in IDO ('organism population', I somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -385230,13 +385182,13 @@ Classes for population already exist in IDO ('organism population', I - + GOTAX:0000352 - + ZFA @@ -385566,7 +385518,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a bronchus [Automatically generated definition]. EMAPA:35194 FMA:86619 @@ -385595,14 +385547,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002338 lamina propria of bronchus - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -385728,12 +385680,12 @@ Classes for population already exist in IDO ('organism population', I - - - - - - + + + + + + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams). @@ -385773,66 +385725,66 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + Hall and others restrict NC to vertebrates but we opt for a less restrictive constraint to avoid inconsistencies when areas such as P1 area of pallium in hagfishes inherit cell lineage from telecephalon-contributing NC cells ISBN:0073040584 - + BTO - + PMID:11523831 - + pre migratory https://github.com/obophenotype/uberon/wiki/The-neural-crest - + PMID:11523831 @@ -386045,7 +385997,7 @@ Classes for population already exist in IDO ('organism population', I - + Embryonic ectoderm that gives rise to nervous tissue. (...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG] neurectodermal @@ -386081,14 +386033,14 @@ Classes for population already exist in IDO ('organism population', I neurectoderm - + - + ZFA @@ -386133,15 +386085,15 @@ Classes for population already exist in IDO ('organism population', I - - + + - + A region of the serous membrane that forms the innermost layer of the pericardium and the outer surface of the heart. TODO - check links with UBERON:0002425 visceral serous pericardium. develops from proepicardium. WP:Epicardium -- When considered as a part of the pericardium, it is the inner layer, or visceral pericardium, continuous with the serous layer. @@ -386171,34 +386123,34 @@ Classes for population already exist in IDO ('organism population', I epicardium - + - + - + - + multiple - + FMA-inferred - + FMA @@ -386375,11 +386327,6 @@ Classes for population already exist in IDO ('organism population', I heart muscle FMA:9462 - - - - - heart muscle ZFA:0001319 @@ -386390,11 +386337,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + @@ -386431,23 +386378,23 @@ Classes for population already exist in IDO ('organism population', I conducting system of heart - + - + - + - + - + @@ -386460,31 +386407,31 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA - + FMA - + FMA - + FMA @@ -386551,7 +386498,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -386615,7 +386562,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/d/d2/Sinoatrial_node_low_mag.jpg http://upload.wikimedia.org/wikipedia/commons/d/de/Sinoatrial_node_2_low_mag.jpg - + @@ -386628,7 +386575,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -386905,8 +386852,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -386936,11 +386883,11 @@ Classes for population already exist in IDO ('organism population', I cardiac Purkinje fiber http://upload.wikimedia.org/wikipedia/commons/9/96/Gray498.png - + - + @@ -386953,7 +386900,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -386961,7 +386908,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -387102,7 +387049,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387115,7 +387062,7 @@ Classes for population already exist in IDO ('organism population', I - + Serous membrane which is divided into parietal and visceral serous pericardium. EMAPA:19030 FMA:9582 @@ -387129,24 +387076,24 @@ Classes for population already exist in IDO ('organism population', I serous pericardium - + - + - + FMA - + FMA @@ -387187,7 +387134,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387225,14 +387172,14 @@ Classes for population already exist in IDO ('organism population', I peritoneum http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png - + - + MP @@ -387285,14 +387232,14 @@ Classes for population already exist in IDO ('organism population', I - + - + Membrane organ which is attached to the pericardial sac proper and the central tendon of diaphragm and is continuous with the pretracheal fascia.[FMA]. most superficial part of pericardium; continuous with the outer adventitial layer of the neighboring great blood vessels. [Wikipedia:Pericardium] EMAPA:19029 @@ -387308,11 +387255,11 @@ Classes for population already exist in IDO ('organism population', I fibrous pericardium - + - + @@ -387325,13 +387272,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + WP @@ -387361,7 +387308,7 @@ Classes for population already exist in IDO ('organism population', I - + Membrane organ that surrounds the brain and the spinal cord. Membrane covering the brain and spinal cord. It is represented by a single layer in fishes, two in amphibians, reptiles and birds and three in mammals (named dura mater, arachnoid and pia mater). [TFD][VHOG] In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG] @@ -387399,7 +387346,7 @@ Classes for population already exist in IDO ('organism population', I meninx https://upload.wikimedia.org/wikipedia/commons/4/48/Illu_meninges.jpg - + @@ -387412,7 +387359,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -387469,8 +387416,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Thick, fibrous meningeal covering surrounding the brain and spinal cord. It is the outermost of the three meningeal coverings. It consists of two layers: the periosteal dura linking the inner surface of the skull and the meningeal dura that lies above the arachnoid dural membrane. The meningeal layer draws away from the periosteal layer and certain locations to form the dural reflections. the outermost of the three layers of the meninges surrounding the brain and spinal cord. The other two meningeal layers are the pia mater and the arachnoid mater. The dura surrounds the brain and the spinal cord and is responsible for keeping in the cerebrospinal fluid[Wikipedia:Dura_mater]. @@ -387501,24 +387448,24 @@ Classes for population already exist in IDO ('organism population', I dura mater http://upload.wikimedia.org/wikipedia/commons/8/8e/Meninges-en.svg - + - + - + PMID:16496288 - + definitional @@ -387752,7 +387699,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387810,14 +387757,14 @@ Classes for population already exist in IDO ('organism population', I bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -387889,8 +387836,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -387898,6 +387845,7 @@ Classes for population already exist in IDO ('organism population', I Any skeletal muscle that is part of the head region. + UBERON:0003899 AAO:0000107 BTO:0000021 @@ -387922,29 +387870,30 @@ Classes for population already exist in IDO ('organism population', I head muscles UBERON:0002376 + defined generically so could in theory encompass FBbt:00003260 'skeletal muscle of head', or the muscle of a starfish Aristotle's lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984) cranial muscle - + - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships - + EHDAA2-abduced @@ -388019,8 +387968,9 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle that is part of the cervical (neck) region. + EMAPA:36050 FMA:9617 GAID:149 @@ -388035,18 +387985,19 @@ Classes for population already exist in IDO ('organism population', I neck muscle organ uberon UBERON:0002377 + muscle of neck - + - + prolog @@ -388104,7 +388055,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388112,6 +388063,7 @@ Classes for population already exist in IDO ('organism population', I Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis. + BTO:0001261 EMAPA:35103 FMA:9620 @@ -388130,18 +388082,19 @@ Classes for population already exist in IDO ('organism population', I uberon abdominal wall musculature UBERON:0002378 + muscle of abdomen - + - + prolog @@ -388397,14 +388350,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -388451,24 +388404,24 @@ Classes for population already exist in IDO ('organism population', I hematopoietic system - + - + - + FMA - + definitional @@ -388524,7 +388477,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388534,8 +388487,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -388582,25 +388535,25 @@ Classes for population already exist in IDO ('organism population', I bile duct http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png - + - + - + EMAPA MA - + XAO @@ -388778,7 +388731,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388823,14 +388776,14 @@ Classes for population already exist in IDO ('organism population', I visceral pleura - + - + FMA @@ -388904,7 +388857,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388950,14 +388903,14 @@ Classes for population already exist in IDO ('organism population', I pleural cavity http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png - + - + Wikipedia @@ -389128,7 +389081,7 @@ Classes for population already exist in IDO ('organism population', I - + A double-walled sac containing the heart and the roots of the great vessels. FMA:9868 RETIRED_EHDAA2:0001443 @@ -389142,14 +389095,14 @@ Classes for population already exist in IDO ('organism population', I pericardial sac http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png - + - + FMA @@ -389167,7 +389120,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -389224,14 +389177,14 @@ Classes for population already exist in IDO ('organism population', I pericardium http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png - + - + MA @@ -389416,7 +389369,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -389471,7 +389424,7 @@ Classes for population already exist in IDO ('organism population', I autonomic nervous system http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + @@ -389484,7 +389437,7 @@ Classes for population already exist in IDO ('organism population', I - + EMAPA MA NIFSTD @@ -389535,11 +389488,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0004388 BIRNLEX:1123 - - - - - UMLS:C0004388 ncithesaurus:Autonomic_Nervous_System @@ -390150,7 +390098,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues. consider including separate class for developmental structure (adult human is stratified; in EHDAA2 is unilaminar) The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]. @@ -390177,14 +390125,14 @@ Classes for population already exist in IDO ('organism population', I oral epithelium - + - + AAO-modified @@ -390247,8 +390195,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -390276,24 +390224,24 @@ Classes for population already exist in IDO ('organism population', I visceral serous pericardium - + - + - + cjm - + FMA @@ -390396,11 +390344,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0152295 BIRNLEX:711 - - - - - UMLS:C0152295 ncithesaurus:Cerebral_White_Matter @@ -390561,7 +390504,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -390609,7 +390552,7 @@ Classes for population already exist in IDO ('organism population', I decidua http://upload.wikimedia.org/wikipedia/commons/f/fa/Gray33.png - + @@ -390622,7 +390565,7 @@ Classes for population already exist in IDO ('organism population', I - + maternal MA @@ -390674,11 +390617,6 @@ Classes for population already exist in IDO ('organism population', I maternal placenta EMAPA:35269 - - - - - maternal placenta GOC:dph @@ -390713,7 +390651,7 @@ Classes for population already exist in IDO ('organism population', I - + The mucous secreting gland associated with the mucuous membrane lining the uterus. simple or branched tubular @@ -390741,7 +390679,7 @@ Classes for population already exist in IDO ('organism population', I endometrial gland http://upload.wikimedia.org/wikipedia/commons/2/28/Gray1169.png - + @@ -390754,7 +390692,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Tubular_gland @@ -391238,7 +391176,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -391247,8 +391185,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -391274,11 +391212,11 @@ Classes for population already exist in IDO ('organism population', I iris epithelium - + - + @@ -391291,13 +391229,13 @@ Classes for population already exist in IDO ('organism population', I - + MA - + MP @@ -391375,7 +391313,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -391406,7 +391344,7 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/wiki/Modeling-endochondral-elements-Design-Pattern http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg - + @@ -391419,7 +391357,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO @@ -391610,8 +391548,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -391637,11 +391575,11 @@ Classes for population already exist in IDO ('organism population', I tunica media https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg - + - + @@ -391654,13 +391592,13 @@ Classes for population already exist in IDO ('organism population', I - + cjm - + cjm @@ -391680,11 +391618,6 @@ Classes for population already exist in IDO ('organism population', I tunica media vasorum BTO:0002011 - - - - - tunica media vasorum Wikipedia:Tunica_media @@ -391702,8 +391635,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]. the FMA class represents a more generic layer which is the superclass of the layer found in both blood vessels and lymph vessels (and also endocardium) - we should probably follow this structure the FMA class represents a structure which may have both epithelium and fibroelastic connective tissue as parts @@ -391728,11 +391661,11 @@ Classes for population already exist in IDO ('organism population', I tunica intima https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg - + - + @@ -391745,13 +391678,13 @@ Classes for population already exist in IDO ('organism population', I - + check for exceptions, e.g. capillaries - + ISBN:0073040584 @@ -391884,11 +391817,6 @@ Classes for population already exist in IDO ('organism population', I glandula BTO:0000522 - - - - - glandula Wikipedia:Gland @@ -392035,9 +391963,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches. One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO] A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG] @@ -392073,15 +392001,15 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png - + - + - + @@ -392094,19 +392022,19 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16313389 - + http://tolweb.org/Chordata/2499 - + PMID:16313389 @@ -392175,7 +392103,7 @@ Classes for population already exist in IDO ('organism population', I - + Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic. Do not merge with neurogenic placode Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons @@ -392195,7 +392123,7 @@ Classes for population already exist in IDO ('organism population', I cranial placode - + @@ -392208,7 +392136,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:11523831 PMID:22512454 @@ -392515,6 +392443,7 @@ Classes for population already exist in IDO ('organism population', I A spinal cord segment that adjacent_to a cervical region. + BIRNLEX:1499 FMA:71166 MA:0003081 @@ -392530,6 +392459,7 @@ Classes for population already exist in IDO ('organism population', I segmenta cervicalia medullae spinalis [1-8 uberon UBERON:0002726 + cervical spinal cord @@ -392543,11 +392473,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0581619 BIRNLEX:1499 - - - - - UMLS:C0581619 ncithesaurus:Cervical_Spinal_Cord @@ -392833,11 +392758,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0228802 BIRNLEX:2644 - - - - - UMLS:C0228802 ncithesaurus:Hypoglossal_Nucleus @@ -393035,7 +392955,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393049,14 +392969,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002926 gustatory epithelium - + - + NIFSTD @@ -393257,6 +393177,7 @@ Classes for population already exist in IDO ('organism population', I The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted]. + BIRNLEX:966 FMA:71167 MA:0003082 @@ -393273,6 +393194,7 @@ Classes for population already exist in IDO ('organism population', I thoracic spinal cord uberon UBERON:0003038 + thoracic spinal cord http://upload.wikimedia.org/wikipedia/commons/6/68/Gray820.png @@ -393288,11 +393210,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0581620 BIRNLEX:966 - - - - - UMLS:C0581620 ncithesaurus:Thoracic_Spinal_Cord @@ -393439,7 +393356,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393452,7 +393369,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate. consider adding class for organizer. Consider adding separate class for isthmus as a structure Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG] @@ -393482,11 +393399,11 @@ Classes for population already exist in IDO ('organism population', I midbrain-hindbrain boundary - + - + @@ -393500,13 +393417,13 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA @@ -393551,8 +393468,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis. The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO] relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO] @@ -393580,11 +393497,11 @@ Classes for population already exist in IDO ('organism population', I periderm - + - + @@ -393597,13 +393514,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ZFA @@ -393760,7 +393677,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393780,7 +393697,7 @@ Classes for population already exist in IDO ('organism population', I - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO] It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG] @@ -393805,14 +393722,14 @@ Classes for population already exist in IDO ('organism population', I presomitic mesoderm - + - + Bgee:AN @@ -393865,8 +393782,6 @@ Classes for population already exist in IDO ('organism population', I - - @@ -393911,26 +393826,6 @@ Classes for population already exist in IDO ('organism population', I blood island - - - - - - - - - - - - - ISBN:0073040584 - - - - - - ISBN:0073040584 - @@ -393998,8 +393893,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A horseshoe-shaped thickening of the endoderm at the cranial (rostral) end of the primitive streak formed by the involution of Spemann's organizer cells which, together with the notochord, induces the formation of the neural plate from the overlying ectodermal cells and contributes mesodermal type cells to the surrounding tissue. TODO - check; developmental relationship to anterior hypoblast in ZFA? Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO] @@ -394024,24 +393919,24 @@ Classes for population already exist in IDO ('organism population', I prechordal plate - + - + - + ZFA - + PMID:16313393 @@ -394098,9 +393993,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -394142,34 +394037,34 @@ Classes for population already exist in IDO ('organism population', I intermediate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + - + AAO - + EMAPA - + XAO @@ -394610,7 +394505,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -394648,7 +394543,7 @@ Classes for population already exist in IDO ('organism population', I eye primordium - + @@ -394661,7 +394556,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16496288 XAO @@ -394717,8 +394612,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -394747,24 +394642,24 @@ Classes for population already exist in IDO ('organism population', I optic cup - + - + - + ZFA - + ZFA @@ -394829,7 +394724,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -394870,7 +394765,7 @@ Classes for population already exist in IDO ('organism population', I lens placode http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png - + @@ -394883,7 +394778,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -394947,9 +394842,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG] @@ -394981,34 +394876,34 @@ Classes for population already exist in IDO ('organism population', I neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -395119,7 +395014,7 @@ Classes for population already exist in IDO ('organism population', I - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO] Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG] @@ -395148,7 +395043,7 @@ Classes for population already exist in IDO ('organism population', I paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -395161,7 +395056,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -395230,8 +395125,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -395257,11 +395152,11 @@ Classes for population already exist in IDO ('organism population', I epibranchial placode - + - + @@ -395275,13 +395170,13 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + EHDAA2-abduced @@ -395384,7 +395279,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -395428,7 +395323,7 @@ Classes for population already exist in IDO ('organism population', I lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -395441,7 +395336,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 VHOG @@ -395525,7 +395420,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -395568,7 +395463,7 @@ Classes for population already exist in IDO ('organism population', I myotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + @@ -395581,7 +395476,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-abduced @@ -395642,7 +395537,7 @@ Classes for population already exist in IDO ('organism population', I - + Trunk portion of the neural crest. The trunk neural crest lies between the vagal and sacral neural crest and gives rise to two groups of cells. One group migrates dorsolateral and populates the skin, forming pigment cells and the other migrates ventrolateral through the anterior sclerotome to become the epinephrine-producing cells of the adrenal gland and the neurons of the sympathetic nervous system. Some cells remain in the sclerotome to form the dorsal root ganglia [Wikipedia]. Post-cranial portion of the neural crest. Exact anatomical derivations not experimentally resolved in amphibians.[AAO] We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG] @@ -395662,14 +395557,14 @@ Classes for population already exist in IDO ('organism population', I trunk neural crest - + - + ZFA @@ -395712,15 +395607,15 @@ Classes for population already exist in IDO ('organism population', I - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO] @@ -395740,15 +395635,15 @@ Classes for population already exist in IDO ('organism population', I heart primordium - + - + - + @@ -395761,19 +395656,19 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA - + XAO @@ -395828,8 +395723,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. Skeletogenic portion of somites.[AAO] The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG] @@ -395856,11 +395751,11 @@ Classes for population already exist in IDO ('organism population', I sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -395879,13 +395774,13 @@ Classes for population already exist in IDO ('organism population', I - + VHOG:0000680 - + ZFA @@ -397436,8 +397331,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -397485,24 +397380,24 @@ Classes for population already exist in IDO ('organism population', I chorion membrane http://upload.wikimedia.org/wikipedia/commons/5/51/Gray24.png - + - + - + Hymans - + ISBN:0073040584 @@ -397602,7 +397497,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -397652,14 +397547,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg http://upload.wikimedia.org/wikipedia/commons/c/c3/Illu_conducting_passages.jpg - + - + EHDAA2 @@ -398516,7 +398411,7 @@ Classes for population already exist in IDO ('organism population', I - + A mesenchyme that is part of a chorion. TODO - check @@ -398537,7 +398432,7 @@ Classes for population already exist in IDO ('organism population', I chorionic mesenchyme - + @@ -398556,7 +398451,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 @@ -398679,8 +398574,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -398712,24 +398607,24 @@ Classes for population already exist in IDO ('organism population', I skeleton of lower jaw - + - + - + EHDAA2 - + VHOG-modified @@ -398768,11 +398663,6 @@ Classes for population already exist in IDO ('organism population', I lower jaw MA:0001906 - - - - - lower jaw ZFA:0001273 @@ -398864,7 +398754,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -398872,7 +398762,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -398899,7 +398789,7 @@ Classes for population already exist in IDO ('organism population', I mesentery of stomach - + @@ -398912,7 +398802,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -399538,7 +399428,7 @@ Classes for population already exist in IDO ('organism population', I - + A meninx that is part of a hindbrain [Automatically generated definition]. consider changing genus to subdivision of meninx Meninges that are part of the hindbrain. [Bgee_curator][VHOG] @@ -399556,14 +399446,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003291 meninx of hindbrain - + - + definitional @@ -399781,7 +399671,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -399790,7 +399680,7 @@ Classes for population already exist in IDO ('organism population', I - + Racemose mucous glands beneath the mucous membrane of the pharynx. BTO:0004849 EHDAA2:0001461 @@ -399803,14 +399693,14 @@ Classes for population already exist in IDO ('organism population', I pharyngeal gland - + - + BTO @@ -399972,7 +399862,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood island that is part of a mesoderm. in EHDAA2, gives rise to blood and dorsal aorta UBERON:0003305 @@ -399985,7 +399875,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003304 mesoderm blood island - + @@ -399998,7 +399888,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -400050,7 +399940,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing camera-type eye. TODO - change mesenchyme relationships to precursor_of EHDAA2:0000485 @@ -400062,14 +399952,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003314 eye mesenchyme - + - + EHDAA2 @@ -400109,6 +399999,7 @@ Classes for population already exist in IDO ('organism population', I Mesenchyme that is part of a developing ovary [Automatically generated definition]. + EHDAA2:0001362 EHDAA:8128 VHOG:0001441 @@ -400123,6 +400014,7 @@ Classes for population already exist in IDO ('organism population', I ovary mesenchyme uberon UBERON:0003315 + mesenchyme of ovary @@ -400259,7 +400151,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing lower jaw [Automatically generated definition]. EHDAA2:0001024 EHDAA:8003 @@ -400272,14 +400164,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003324 mesenchyme of lower jaw - + - + EHDAA2 @@ -400792,6 +400684,7 @@ Classes for population already exist in IDO ('organism population', I A serous membrane that is part of a duodenum [Automatically generated definition]. + 1st part serosa, 2nd - 4th adventitia EMAPA:27247 FMA:14948 @@ -400805,6 +400698,7 @@ Classes for population already exist in IDO ('organism population', I visceral peritoneum of duodenum uberon UBERON:0003336 + serosa of duodenum @@ -401666,7 +401560,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -401676,8 +401570,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An epithelium that is part of a pharynx [Automatically generated definition]. Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO] BSA:0000112 @@ -401697,24 +401591,24 @@ Classes for population already exist in IDO ('organism population', I pharyngeal epithelium - + - + - + ZFA - + ZFA @@ -401766,7 +401660,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -401774,7 +401668,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a midgut. BTO:0005053 EHDAA2:0001195 @@ -401787,14 +401681,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003352 epithelium of midgut - + - + BTO @@ -401820,11 +401714,6 @@ Classes for population already exist in IDO ('organism population', I midgut epithelium BTO:0005053 - - - - - midgut epithelium OBOL:automatic @@ -402177,7 +402066,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402190,7 +402079,7 @@ Classes for population already exist in IDO ('organism population', I - + An unilaminar epithelium that surrounds a pelvic appendage bud. UBERON:0005232 EHDAA2:0001034 @@ -402206,24 +402095,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003371 pelvic appendage bud ectoderm - + - + - + EHDAA2 - + EHDAA2 @@ -402245,12 +402134,6 @@ Classes for population already exist in IDO ('organism population', I EMAPA:16780 - - - - hindlimb bud ectoderm - - @@ -402296,7 +402179,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402309,7 +402192,7 @@ Classes for population already exist in IDO ('organism population', I - + An unilaminar epithelium that surrounds a pectoral appendage bud. UBERON:0005231 UBERON:0005663 @@ -402326,24 +402209,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003372 pectoral appendage bud ectoderm - + - + - + EHDAA2 - + EHDAA2 @@ -402359,12 +402242,6 @@ Classes for population already exist in IDO ('organism population', I EMAPA:16407 - - - - forelimb bud ectoderm - - @@ -402413,7 +402290,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402427,7 +402304,7 @@ Classes for population already exist in IDO ('organism population', I - + An extraembryonic structure that develops_from a ectoderm and is part of a chorion. BTO:0005145 EMAPA:16113 @@ -402438,14 +402315,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003374 chorionic ectoderm - + - + ISBN:0073040584 @@ -402491,6 +402368,7 @@ Classes for population already exist in IDO ('organism population', I A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]. + EHDAA2:0004155 EMAPA:17326 FMA:7282 @@ -402509,6 +402387,7 @@ Classes for population already exist in IDO ('organism population', I textus muscularis of myocardium of right cardiac atrium uberon UBERON:0003379 + cardiac muscle of right atrium @@ -402840,6 +402719,7 @@ Classes for population already exist in IDO ('organism population', I A portion of cardiac muscle tissue that is part of an interventricular septum [Automatically generated definition]. + EHDAA2:0004158 EMAPA:17335 FMA:84084 @@ -402852,6 +402732,7 @@ Classes for population already exist in IDO ('organism population', I uberon interventricular septum muscle UBERON:0003383 + cardiac muscle tissue of interventricular septum @@ -404677,7 +404558,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -404685,7 +404566,7 @@ Classes for population already exist in IDO ('organism population', I - + A bone that is part of a facial skeleton [Automatically generated definition]. test whether 'facial bone' is an exact synonym EMAPA:19019 @@ -404706,14 +404587,14 @@ Classes for population already exist in IDO ('organism population', I facial bone - + - + MA @@ -404904,7 +404785,7 @@ Classes for population already exist in IDO ('organism population', I - + The inferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery. EMAPA:37429 @@ -404922,14 +404803,14 @@ Classes for population already exist in IDO ('organism population', I artery of lower lip - + - + FMA @@ -405345,7 +405226,7 @@ Classes for population already exist in IDO ('organism population', I - + An endothelium of capillary that is part of a respiratory system [Automatically generated definition]. EMAPA:37575 MA:0001808 @@ -405376,14 +405257,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003489 respiratory system capillary endothelium - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -405615,7 +405496,7 @@ Classes for population already exist in IDO ('organism population', I - + An arteriole that is part of a respiratory system [Automatically generated definition]. EMAPA:37568 MA:0001803 @@ -405623,14 +405504,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003495 respiratory system arteriole - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -405664,7 +405545,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood vessel that is part of a head [Automatically generated definition]. EMAPA:36610 MA:0000575 @@ -405676,14 +405557,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003496 head blood vessel - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -410298,6 +410179,7 @@ Classes for population already exist in IDO ('organism population', I An elastic tissue that is part of a trachea [Automatically generated definition]. + MA:0001861 cartilaginous trachea elastic connective tissue cartilaginous trachea elastic tissue @@ -410319,6 +410201,7 @@ Classes for population already exist in IDO ('organism population', I windpipe textus connectivus elasticus uberon UBERON:0003617 + trachea elastic tissue @@ -410763,11 +410646,6 @@ Classes for population already exist in IDO ('organism population', I cavitas abdominis GAID:17 - - - - - cavitas abdominis Wikipedia:Abdominal_cavity @@ -410795,7 +410673,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -410822,7 +410700,7 @@ Classes for population already exist in IDO ('organism population', I cranial suture - + @@ -410835,7 +410713,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16496288 @@ -410875,7 +410753,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -410890,7 +410768,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411102,7 +410980,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411110,7 +410988,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411137,7 +411015,7 @@ Classes for population already exist in IDO ('organism population', I intrahepatic bile duct - + @@ -411150,7 +411028,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -411187,8 +411065,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A circle of arteries that supply blood to the brain. The Circle of Willis comprises the following arteries: Anterior cerebral artery (left and right); Anterior communicating artery; Internal carotid artery (left and right); Posterior cerebral artery (left and right); Posterior communicating artery (left and right).The basilar artery and middle cerebral arteries, supplying the brain, are also considered part of the circle. In zebrafish, the circle of vessels comprised of the basal communicating artery (BCA) and posterior communicating segments (PCS) superficially resemble but are not homologous to the human circle of Willis arterial circle @@ -411211,24 +411089,24 @@ Classes for population already exist in IDO ('organism population', I circle of Willis http://upload.wikimedia.org/wikipedia/commons/2/2e/Circle_of_Willis_en.svg - + - + - + FMA-modified - + FMA-modified @@ -411360,11 +411238,6 @@ Classes for population already exist in IDO ('organism population', I innominate vein GAID:529 - - - - - innominate vein Wikipedia:Brachiocephalic_vein @@ -411373,12 +411246,6 @@ Classes for population already exist in IDO ('organism population', I innominate veins Wikipedia:Brachiocephalic_vein - - - - vena brachiocephalica - Wikipedia:Brachiocephalic_vein - @@ -411656,7 +411523,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411682,14 +411549,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003716 recurrent laryngeal nerve - + - + Wikipedia @@ -412388,7 +412255,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a thorax [Automatically generated definition]. MA:0000561 muscle organ of thorax @@ -412398,14 +412265,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003830 thoracic segment muscle - + - + prolog @@ -412517,7 +412384,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a esophagus [Automatically generated definition]. merge muscle and muscle layer? EMAPA:26983 @@ -412534,14 +412401,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003832 esophagus muscle - + - + MA @@ -413551,7 +413418,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -413559,7 +413426,7 @@ Classes for population already exist in IDO ('organism population', I - + A neural plate that develops_from a future spinal cord. Neural plate that is part of the spinal cord. [Bgee_curator][VHOG] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG] @@ -413572,14 +413439,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003854 spinal cord neural plate - + - + ZFA @@ -413832,7 +413699,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults (...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG] @@ -413848,14 +413715,14 @@ Classes for population already exist in IDO ('organism population', I intraembryonic coelom - + - + Wikipedia @@ -413917,7 +413784,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -413976,14 +413843,14 @@ Classes for population already exist in IDO ('organism population', I fallopian tube http://upload.wikimedia.org/wikipedia/commons/6/68/Scheme_female_reproductive_system-en.svg - + - + FMA-abduced-lr @@ -414058,7 +413925,7 @@ Classes for population already exist in IDO ('organism population', I - + Paired ducts of the embryo that run down the lateral sides of the urogenital ridge and terminate at the mullerian eminence in the primitive urogenital sinus. In the female, they will develop to form the fallopian tubes, uterus, and the upper portion of the vagina; in the male, they are lost. These ducts are made of tissue of mesodermal origin[WP]. develops either by lengthwise splitting of the archinephric duct (in chondrichthyans and some amphibians) or by a elongated invagination of the coelomic epithelium (other vertebrates) In males, the oviducts regress. The cranial end of the oviduct maintains an opening into the coelom (which primitively may have been the anteriormost coelomic funnels connecting the nephrocoel with the coelom). This opening is the ostium tubae[USM]. Either of the paired embryonic ducts developing into the uterine tubes, uterus, and vagina in the female and becoming largely obliterated in the male. [TFD][VHOG] Transient developmental organ which gives rise to oviducts in female (documented to persist in some male frogs).[AAO] @@ -414088,14 +413955,14 @@ Classes for population already exist in IDO ('organism population', I Mullerian duct http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + - + Wikipedia @@ -414217,8 +414084,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -414252,11 +414119,11 @@ Classes for population already exist in IDO ('organism population', I liver primordium - + - + @@ -414275,13 +414142,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ventral foregut endoderm Zaret 1996 @@ -414404,7 +414271,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414424,14 +414291,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003898 skeletal muscle tissue of trunk - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -414492,7 +414359,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414513,8 +414380,9 @@ Classes for population already exist in IDO ('organism population', I - + The part of the retina that contains neurons and photoreceptor cells[GO]. + (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG] AAO:0011095 BTO:0000929 @@ -414539,18 +414407,19 @@ Classes for population already exist in IDO ('organism population', I uberon neural retinal epithelium UBERON:0003902 + retinal neural layer - + - + Bgee:AN @@ -414824,7 +414693,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414854,14 +414723,14 @@ Classes for population already exist in IDO ('organism population', I pancreas primordium http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + Wikipedia @@ -414903,16 +414772,16 @@ Classes for population already exist in IDO ('organism population', I - - + + - - + + The embryonic pancreas develops from two separate anlagen in the foregut epithelium, one dorsal and two ventral pancreatic buds[PMID]. EFO:0003470 EMAPA:35645 @@ -414933,19 +414802,19 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/4/49/Suckale08FBS_fig1_pancreas_development.jpeg http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + - + @@ -414958,26 +414827,26 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia:Pancreas#Embryological_development - + zebrafish Wikipedia:Pancreatic_bud - + EHDAA2-inferred @@ -415019,8 +414888,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Pancreatic bud that gives rise to the accessory pancreatic duct. The pancreatic bud that gives rise to the accessory pancreatic duct.[AAO] In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG] @@ -415048,24 +414917,24 @@ Classes for population already exist in IDO ('organism population', I dorsal pancreatic bud http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + EHDAA2 - + XAO @@ -415112,8 +414981,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Pancreatic bud that gives rise to the major pancreatic duct. In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG] The ventral pancreatic bud becomes the head and uncinate process, and comes from the hepatic diverticulum[WP] @@ -415141,24 +415010,24 @@ Classes for population already exist in IDO ('organism population', I ventral pancreatic bud http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + EHDAA2 - + PMID:16417468 WP @@ -415272,6 +415141,7 @@ Classes for population already exist in IDO ('organism population', I BTO:0000956 EHDAA2:0004567 EMAPA:32928 + FBbt:00047143 MA:0003201 NCIT:C12963 TAO:0005123 @@ -416273,7 +416143,7 @@ Classes for population already exist in IDO ('organism population', I - + A transitional population of migrating mesenchymal cells that derive from somites and that will become dermal cells. Not to be confused with 'dermatome segment of skin'. AAO:0011028 @@ -416299,7 +416169,7 @@ Classes for population already exist in IDO ('organism population', I dermatome http://upload.wikimedia.org/wikipedia/commons/f/f3/Gray64.png - + @@ -416312,7 +416182,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-abduced @@ -416557,7 +416427,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416576,14 +416446,14 @@ Classes for population already exist in IDO ('organism population', I cortical intermediate zone - + - + Wikipedia @@ -416618,7 +416488,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416645,14 +416515,14 @@ Classes for population already exist in IDO ('organism population', I biliary ductule - + - + BTO @@ -416737,7 +416607,7 @@ Classes for population already exist in IDO ('organism population', I - + The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium. consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure The layer of undifferentiated, proliferating cells that line the neural tube lumen @@ -416755,7 +416625,7 @@ Classes for population already exist in IDO ('organism population', I neural tube ventricular layer - + @@ -416768,7 +416638,7 @@ Classes for population already exist in IDO ('organism population', I - + NCBIBook:NBK10047 @@ -416828,7 +416698,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416852,7 +416722,7 @@ Classes for population already exist in IDO ('organism population', I neural tube mantle layer - + @@ -416865,7 +416735,7 @@ Classes for population already exist in IDO ('organism population', I - + by division NCBIBook:NBK10047 @@ -416902,7 +416772,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416919,14 +416789,14 @@ Classes for population already exist in IDO ('organism population', I neural tube marginal layer - + - + forms from axons @@ -416967,7 +416837,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416992,14 +416862,14 @@ Classes for population already exist in IDO ('organism population', I neural tube basal plate - + - + Shh Swenson @@ -417164,7 +417034,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -417179,7 +417049,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -417262,8 +417132,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An internal pocketing of pharyngeal endoderm that contacts a region of ectoderm (a pharyngeal cleft) and interdigitates in the anterior and posterior directions with the pharyngeal arches. Outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits. Crump et al, 2004.[TAO] A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG] @@ -417296,24 +417166,24 @@ Classes for population already exist in IDO ('organism population', I The pouches are polarized structures. For example, whereas the rostral half of each pouch expresses Bmp-7, the caudal half expresses FGF-8 and the dorsal aspect of each pouch is marked via its expression of Pax-1. each pouch has an individual sense of identity. Shh expression is a prominent early feature of the caudal endoderm of the second arch, and individual pouches mark the anterior limits of expression of Hox genes within the pharyngeal endoderm; Hox-a2 has a rostral boundary at the second pouch, Hox-a3 at the third pouch and Hox-a4 at the most caudal pouch[PMID:16313389] pharyngeal pouch - + - + - + http://tolweb.org/Chordata/2499 - + EHDAA2 ZFA @@ -417704,9 +417574,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -417739,34 +417609,34 @@ Classes for population already exist in IDO ('organism population', I optic vesicle http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png - + - + - + - + ZFA - + GO-def - + ZFA @@ -417914,8 +417784,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. this term denotes the primary heart field; GO:0003128 denotes the superclass of primary and secondary: specific region of the lateral mesoderm into the area which will form the primary beating heart tube[GO:0003138] XAO:0004185 @@ -417928,24 +417798,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -418004,7 +417874,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelial tube that will give rise to the mature heart. the paired, longitudinal, endothelial-lined channels formed from the cardiogenic mesoderm in embryonic development; angiogenic cell clusters (aka angioblastic cords) located in a horse-shoe shape configuration in the cardiogenic plate coalesce to form the right and left endocardial heart tubes which then fuse in cephalo-caudal direction to form a single primitive heart tube. AAO:0010411 @@ -418024,14 +417894,14 @@ Classes for population already exist in IDO ('organism population', I heart tube - + - + ZFA-modified @@ -418175,8 +418045,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The His-Purkinje system receives signals from the AV node and is composed of the fibers that regulate cardiac muscle contraction in the ventricles. the intraventricular conduction system from the bundle of His to the distal Purkinje fibers, which carries the impulse to the ventricles. HPS @@ -418187,11 +418057,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004146 His-Purkinje system - + - + @@ -418204,13 +418074,13 @@ Classes for population already exist in IDO ('organism population', I - + GO - + PMID:12626327 PMID:21234997 github:michaelerice @@ -418382,8 +418252,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An embryonic group of progenitor cells that forms from an outpouching of the septum transversum near the venous pole of the heart and gives rise to the epicardium. propepicardial Proepicardial clusters in Zebrafish form on the pericardial wall, adjacent to the atrioventricular (AV) junction and near the venous pole[ZFA] @@ -418395,24 +418265,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004160 proepicardium - + - + - + todo check other taxa - + ZFA @@ -418967,8 +418837,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A portion of smooth muscle tissue that is part of a large intestine [Automatically generated definition]. MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa EMAPA:35469 @@ -418984,24 +418854,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004220 large intestine smooth muscle - + - + - + MA - + consider merging @@ -419082,7 +418952,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -419119,14 +418989,14 @@ Classes for population already exist in IDO ('organism population', I intestine smooth muscle - + - + consider merging @@ -420175,7 +420045,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of smooth muscle tissue that is part of a small intestine [Automatically generated definition]. MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa EMAPA:35783 @@ -420200,14 +420070,14 @@ Classes for population already exist in IDO ('organism population', I small intestine smooth muscle - + - + consider merging @@ -421465,7 +421335,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -421473,7 +421343,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -421489,14 +421359,14 @@ Classes for population already exist in IDO ('organism population', I eye muscle - + - + MA @@ -421527,6 +421397,7 @@ Classes for population already exist in IDO ('organism population', I Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body. + Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO] skeletal AEO:0000168 @@ -421549,6 +421420,7 @@ Classes for population already exist in IDO ('organism population', I uberon UBERON:0004288 + skeleton @@ -421583,7 +421455,7 @@ Classes for population already exist in IDO ('organism population', I - + The bilaminar epithelium formed from the myotome and dermatome. Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]. Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO] @@ -421606,7 +421478,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004290 dermomyotome - + @@ -421625,7 +421497,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 ZFA @@ -421872,8 +421744,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -421891,24 +421763,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004293 parasympathetic nerve - + - + - + NCBIBook:NBK10065 - + NCBIBook:NBK10065 @@ -421981,11 +421853,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals[VHOG]. A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals. [TFD][VHOG] Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG] @@ -422010,55 +421882,55 @@ Classes for population already exist in IDO ('organism population', I allantois http://upload.wikimedia.org/wikipedia/commons/a/a5/Gray25.png - + - + - + - + - + - + EHDAA2-modified - + Hymans - + Hymans - + hindgut diverticulum endoderm ISBN:0073040584 - + ISBN:0073040584 @@ -422114,14 +421986,14 @@ Classes for population already exist in IDO ('organism population', I - + - + Outermost layer of cells in the blastodermic vesicle, which will develop into the trophoblast layer and then contact the endometrium and take part in establishing the embryo's means of nutrition. distinction between trophectoderm and trophoblast unclear/inconsistent in many sources The outer cellular layer of the mammalian blastocyst. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.750, see_Kardong_KV][VHOG] @@ -422139,11 +422011,11 @@ Classes for population already exist in IDO ('organism population', I trophectoderm - + - + @@ -422156,13 +422028,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -422565,7 +422437,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -422621,14 +422493,14 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch artery http://upload.wikimedia.org/wikipedia/commons/8/84/Gray473.png - + - + ZFA @@ -422842,7 +422714,7 @@ Classes for population already exist in IDO ('organism population', I - + A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]. Acellular anatomical structure composed of collagen, Descemet's membrane is secreted as a basement membrane of the corneal endothelium. Located between the stroma and the corneal endothelium, it is approximately 0.15 micrometer thick at 6 months post-fertilization.[ZFIN] @@ -422872,14 +422744,14 @@ Classes for population already exist in IDO ('organism population', I Descemet's membrane https://github.com/obophenotype/uberon/issues/15 - + - + Cline et al @@ -424336,7 +424208,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -424344,7 +424216,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of cardiac muscle tissue that is part of a myocardium [Automatically generated definition]. Note placement of MA class based on parthood relationship EMAPA:32688 @@ -424355,14 +424227,14 @@ Classes for population already exist in IDO ('organism population', I cardiac muscle tissue of myocardium - + - + MA @@ -424433,11 +424305,9 @@ Classes for population already exist in IDO ('organism population', I A portion of smooth muscle tissue that is part of a bronchiole [Automatically generated definition]. - FMA:261045 uberon UBERON:0004515 - smooth muscle tissue of bronchiole @@ -425227,7 +425097,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -425261,7 +425131,7 @@ Classes for population already exist in IDO ('organism population', I liver lobule - + @@ -425274,7 +425144,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA @@ -425462,7 +425332,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -425494,14 +425364,14 @@ Classes for population already exist in IDO ('organism population', I interventricular septum membranous part - + - + Wikipedia @@ -425708,8 +425578,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The raphe nuclei are thin plates of cells in and immediately adjacent to the sagittal plane. BAMS:RA EMAPA:35721 @@ -425738,25 +425608,25 @@ Classes for population already exist in IDO ('organism population', I raphe nuclei http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png - + - + - + GO Wikipedia - + Wikipedia @@ -425785,11 +425655,6 @@ Classes for population already exist in IDO ('organism population', I raphe nuclei FMA:84017 - - - - - raphe nuclei NLXANAT:20090205 @@ -426267,7 +426132,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426276,7 +426141,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426307,7 +426172,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426330,11 +426195,11 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin - + - + @@ -426347,13 +426212,13 @@ Classes for population already exist in IDO ('organism population', I - + VSAO - + definitional @@ -426435,7 +426300,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426457,14 +426322,14 @@ Classes for population already exist in IDO ('organism population', I pelvic appendage - + - + definitional @@ -426533,7 +426398,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426557,14 +426422,14 @@ Classes for population already exist in IDO ('organism population', I pectoral appendage - + - + definitional @@ -427050,15 +426915,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + The dentary is a dermal bone that forms the antero-lateral part of the lower jaw in fishes and amphibians, extending to the whole lower jaw in mammals[VHOG,modified]. Dermal bone that is usually the anteriormost bone of the lower jaw, and that articulates with the angular, or anguloarticular bone, posteriorly, and carries part of the mandibular sensory canal and pore openings of the mandibular sensory canal on its lateral surface. The dentary is a paired bone.[TAO] Ossified element of intramembranous origin that invests the lateral margin of Meckel's cartilage thereby forming the lateral side of the mandible in anurans and salamanders (Duellman & Trueb, 1994:293). In caecilians, the dentary is part of a compound bone termed the pseudodentary.[AAO] @@ -427082,15 +426947,15 @@ Classes for population already exist in IDO ('organism population', I dentary - + - + - + @@ -427103,7 +426968,7 @@ Classes for population already exist in IDO ('organism population', I - + mandibular series ISBN:0073040584 ZFA @@ -427111,13 +426976,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2-modified @@ -427215,7 +427080,7 @@ Classes for population already exist in IDO ('organism population', I - + A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO]. A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO] EMAPA:37744 @@ -427229,7 +427094,7 @@ Classes for population already exist in IDO ('organism population', I Four classes of mineralized tissues are found in vertebrates: bone, cartilage, dentine, and enamel. We think of cartilage and bone as skeletal tissues and of enamel and dentine as dental tissues, but enamel and dentine arose evolutionarily together with bone as skeletal tissues in the dermal skeleton (exoskeleton) of early vertebrates. Scales and teeth of sharks are examples of dermal skeletal elements that are still composed of the three ancient components-enamel, dentine, and bone. Cartilage, on the other hand, provided the basis for the second vertebrate skeletal system, the endoskeleton (Smith and Hall, 1990; Hall, 1998a,b). some invertebrate skeletal tissues have surprisingly bone-like features. Examples include chondrocytes interconnected by cell processes in cephalopod cartilages (Cole and Hall, 2004a,b), and the calcium phosphate layer in the shells of brachiopods (Rodland et al., 2003). However, neither bone nor mineralized cartilage have been found in invertebrates. Editors notes: TODO - develops_from skeletal tissue - + @@ -427242,7 +427107,7 @@ Classes for population already exist in IDO ('organism population', I - + 2012-08-14 VSAO:0000015 VSAO @@ -427585,7 +427450,7 @@ Classes for population already exist in IDO ('organism population', I - + The primitive cartilagionous skeletal structure of the fetal skull that grows to envelop the rapidly growing embyonic brain. In humans, the chondrocranium begins forming at 28 days from mesenchymal condensations and is fully formed between week 7 and 9 of fetal development. While the majority of the chondrocranium is succeeded by the bony skull in most higher vertebrates, some components do persist into adulthood.[1] In Cartilagious fishes and Agnathans, the chondrocranium persist throughout life.[2] Embryologically, the chondrocranium represent the basal cranial structure, and lay the base for the formation of the endocranium in higher vertebrates[WP]. in contrast to chondrocranium, this structure is entirely cartiliginous. In Chondricthyes this is the same as the neurocranium. FMA:76621 is an undefined fetal structure, so we assume the correct placement is here. Note that this is distinct from MA:0000317 which is the uberon:neurocranium (the part of the cranium that encloses the brain) AAO:0000094 @@ -427607,7 +427472,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004761 cartilaginous neurocranium - + @@ -427620,7 +427485,7 @@ Classes for population already exist in IDO ('organism population', I - + PMC1571569 @@ -427717,7 +427582,7 @@ Classes for population already exist in IDO ('organism population', I - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO] Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO] @@ -427733,14 +427598,14 @@ Classes for population already exist in IDO ('organism population', I skeletal element - + - + VSAO @@ -427793,10 +427658,12 @@ Classes for population already exist in IDO ('organism population', I A bone that is part of a cranium. here cranium = skull - mandible + SCTID:181792001 cranium bone uberon UBERON:0004766 + cranial bone @@ -427868,7 +427735,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -427907,14 +427774,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004770 articular system - + - + FMA @@ -428082,7 +427949,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a respiratory system [Automatically generated definition]. EMAPA:37576 MA:0001821 @@ -428097,14 +427964,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004779 respiratory system lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428180,7 +428047,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a gastrointestinal system. MA:0001899 NCIT:C49299 @@ -428189,14 +428056,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004780 gastrointestinal system lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428230,7 +428097,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a gallbladder [Automatically generated definition]. EMAPA:35371 FMA:278594 @@ -428249,14 +428116,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004781 gallbladder lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428850,10 +428717,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A mucosa that is part of a gastrointestinal system. BTO:0000546 BTO:0005568 @@ -428869,44 +428736,44 @@ Classes for population already exist in IDO ('organism population', I The gut mucosa of amphioxus has insulin-secreting cells. http://www.ncbi.nlm.nih.gov/pubmed/16417468 gastrointestinal system mucosa - + - + - + - + - + PMID:16417468 - + PMID:16417468 - + PMID:16417468 - + BTO-modified @@ -430566,7 +430433,7 @@ Classes for population already exist in IDO ('organism population', I - + An endothelium of artery that is part of a respiratory system [Automatically generated definition]. EMAPA:37566 @@ -430587,14 +430454,14 @@ Classes for population already exist in IDO ('organism population', I respiratory system arterial endothelium - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -431451,7 +431318,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -431474,14 +431341,14 @@ Classes for population already exist in IDO ('organism population', I splanchnopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -431509,7 +431376,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -431532,14 +431399,14 @@ Classes for population already exist in IDO ('organism population', I somatopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -431728,6 +431595,7 @@ Classes for population already exist in IDO ('organism population', I A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila. + optic nerve BTO:0000966 EV:0100351 @@ -431737,6 +431605,7 @@ Classes for population already exist in IDO ('organism population', I uberon UBERON:0004904 + for the vertebrate-specific structure, see UBERON:0000941 (cranial nerve II) neuron projection bundle connecting eye with brain @@ -431766,7 +431635,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts. + Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. FBbt:00005811 joint uberon @@ -431777,7 +431646,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts. + Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 @@ -432071,8 +431940,8 @@ Classes for population already exist in IDO ('organism population', I - - + + EHDAA2:0000171 EMAPA:16561 EMAPA_RETIRED:16565 @@ -432083,11 +431952,11 @@ Classes for population already exist in IDO ('organism population', I biliary bud http://upload.wikimedia.org/wikipedia/commons/4/4f/Gray1088.png - + - + @@ -432100,13 +431969,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2-modified @@ -432445,6 +432314,7 @@ Classes for population already exist in IDO ('organism population', I FMA:71131 uberon alimentary system subdivision + gut section intestinal tract segment of intestinal tract subdivision of alimentary system @@ -432464,6 +432334,12 @@ Classes for population already exist in IDO ('organism population', I alimentary system subdivision FMA:71131 + + + + gut section + FBbt:00100315 + @@ -432890,11 +432766,6 @@ Classes for population already exist in IDO ('organism population', I pylorus submucosa FMA:17462 - - - - - pylorus submucosa OBOL:automatic @@ -433697,7 +433568,7 @@ Classes for population already exist in IDO ('organism population', I - + A mucosa that is part of a pyloric antrum [Automatically generated definition]. BTO:0004107 FMA:17055 @@ -433730,14 +433601,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004997 mucosa of pyloric antrum - + - + BTO @@ -436328,7 +436199,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -436354,14 +436225,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005075 forebrain-midbrain boundary - + - + definitional @@ -437348,7 +437219,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -437361,7 +437232,7 @@ Classes for population already exist in IDO ('organism population', I - + A tubuloacinar seromucous gland that is located principally in the submucosa of the trachea. Excretory ducts from this gland pass through the lamina propria to the tracheal lumen. @@ -437472,7 +437343,7 @@ Classes for population already exist in IDO ('organism population', I - + An external ectoderm that is part of a optic eminence [Automatically generated definition]. EMAPA:16539 RETIRED_EHDAA2:0001311 @@ -437481,14 +437352,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005216 optic eminence surface ectoderm - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -437897,7 +437768,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells. Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head. (Source: BioGlossary, www.Biology-Text.com)[TAO] EFO:0003492 @@ -437919,14 +437790,14 @@ Classes for population already exist in IDO ('organism population', I head mesenchyme - + - + EHDAA2 @@ -437993,7 +437864,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -438009,14 +437880,14 @@ Classes for population already exist in IDO ('organism population', I trunk mesenchyme - + - + EHDAA2 @@ -438039,7 +437910,7 @@ Classes for population already exist in IDO ('organism population', I - + The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]. The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG] @@ -438064,14 +437935,14 @@ Classes for population already exist in IDO ('organism population', I myelencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -438442,7 +438313,7 @@ Classes for population already exist in IDO ('organism population', I - + The outer neural tube region in which post-mitotic neuroblasts migrate along radial glia to form the adult cortical layers[MP]. A single stem cell in the ventricular layer can give rise to neurons (and glial cells) in any of the cortical layers (Walsh and Cepko 1988)[NCBIBook:NBK10047] in humans develops into cortical layers II-VI @@ -438463,14 +438334,14 @@ Classes for population already exist in IDO ('organism population', I cortical plate - + - + NCBIBook:NBK10047 @@ -439251,7 +439122,7 @@ Classes for population already exist in IDO ('organism population', I - + An apical ectodermal ridge that is part of a pectoral appendage bud. An ectodermal thickening at the end of the forelimb bud in the developing embryo. [TFD][VHOG] Apical ectodermal ridge that is part of the pectoral fin bud.[TAO] @@ -439278,14 +439149,14 @@ Classes for population already exist in IDO ('organism population', I pectoral appendage apical ectodermal ridge - + - + EHDAA2 @@ -439402,7 +439273,7 @@ Classes for population already exist in IDO ('organism population', I - + An apical ectodermal ridge that is part of a pelvic appendage bud. An ectodermal thickening at the end of the hindlimb bud in the developing embryo. [TFD][VHOG] Apical ectodermal ridge that is part of the pelvic fin bud.[TAO] @@ -439425,14 +439296,14 @@ Classes for population already exist in IDO ('organism population', I pelvic appendage apical ectodermal ridge - + - + EHDAA2 @@ -439749,7 +439620,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea. TAO:0002188 ZFA:0001688 @@ -439757,7 +439628,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005427 corneal primordium - + @@ -439776,7 +439647,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -439875,7 +439746,7 @@ Classes for population already exist in IDO ('organism population', I - + The dilated structure that is lined by endothelial cells and located at the arterial pole of the heart just above (distal to) the truncus arteriosus in mammalian embryos; it is the primordial vascular channel from which the aortic arches (and eventually the dorsal aortae) arise; the aortic sac is homologous to the ventral aorta of gill-bearing vertebrates. the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]. EHDAA2:0004145 @@ -439890,7 +439761,7 @@ Classes for population already exist in IDO ('organism population', I aortic sac - + @@ -439903,7 +439774,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -440048,7 +439919,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440063,19 +439934,19 @@ Classes for population already exist in IDO ('organism population', I - + - + - + @@ -440241,7 +440112,7 @@ Classes for population already exist in IDO ('organism population', I - + A longitudinal groove in the neural tube wall that divides the neural tube into dorsal (alar) and ventral (basal) halves (dorsal receives input from sensory neurons, ventral effects motor functions); stretches from the mesencephalon caudad[TMD]. sulcus limitans BAMS:slim @@ -440252,14 +440123,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005478 sulcus limitans of neural tube - + - + EHDAA2 @@ -440550,7 +440421,7 @@ Classes for population already exist in IDO ('organism population', I - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -440568,14 +440439,14 @@ Classes for population already exist in IDO ('organism population', I primitive heart tube - + - + ZFA @@ -440649,7 +440520,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest which gives rise to the trigeminal ganglion. todo - compare ZFA and EHDAA2 representation We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG] @@ -440666,7 +440537,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal neural crest - + @@ -440685,7 +440556,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -440711,7 +440582,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440740,7 +440611,7 @@ Classes for population already exist in IDO ('organism population', I gonad primordium - + @@ -440753,7 +440624,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -440811,7 +440682,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440821,8 +440692,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Somite located in the head region, caudal to the otic vesicle. in humans this includes somites 1-4 They provide the epaxial and hypaxial muscles of the neck, the pharyngeal and laryngeal muscles that develop in the caudal branchial arches and the musculature of the tongue. Despite their localisation in the head, myogenic precursors from occipital somites essentially follow the trunk programmes (E. H. Walters and S. D., unpublished). during evolution, have been secondarily incorporated into the head (Gans and Northcutt, 1983) @@ -440836,24 +440707,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005594 head somite - + - + - + EHDAA2 - + EHDAA2 @@ -440900,7 +440771,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440920,7 +440791,7 @@ Classes for population already exist in IDO ('organism population', I lung primordium - + @@ -440933,7 +440804,7 @@ Classes for population already exist in IDO ('organism population', I - + XAO @@ -441006,8 +440877,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The portion of mesentery attached to the greater curvature of the stomach is named the dorsal mesentery (or dorsal mesogastrium, when referring to the portion at the stomach), and the part which suspends the colon is termed the mesocolon. The dorsal mesogastrium develops into the greater omentum. The dorsal sheet of the primitive mesentery that encloses the stomach. The greater omentum develops from the dorsal mesogastrium. [TFD][VHOG] EHDAA2:0000416 @@ -441023,11 +440894,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005602 dorsal mesogastrium - + - + @@ -441040,13 +440911,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -441084,8 +440955,8 @@ Classes for population already exist in IDO ('organism population', I - - + + EMAPA:16844 MA:0001636 VHOG:0000215 @@ -441095,24 +440966,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005604 extrahepatic part of hepatic duct - + - + - + MA - + MA @@ -441998,11 +441869,6 @@ Classes for population already exist in IDO ('organism population', I peritoneal mesothelium BTO:0003156 - - - - - peritoneal mesothelium EMAPA:16139 @@ -442574,7 +442440,7 @@ Classes for population already exist in IDO ('organism population', I - + . EHDAA2:0000474 EMAPA:31862 @@ -442587,7 +442453,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005728 extraembryonic mesoderm - + @@ -442600,7 +442466,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -442743,7 +442609,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -442759,14 +442625,14 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin field - + - + ISBN:9780878932504 ZFA-inferred @@ -443584,7 +443450,7 @@ Classes for population already exist in IDO ('organism population', I - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -443594,7 +443460,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005856 developing mesenchymal condensation - + @@ -443613,7 +443479,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO-modified-relation @@ -443635,7 +443501,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443656,7 +443522,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005863 cartilaginous condensation - + @@ -443669,7 +443535,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -443720,7 +443586,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443742,14 +443608,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005865 pre-muscle condensation - + - + AEO @@ -443760,7 +443626,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443780,7 +443646,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005866 pre-cartilage condensation - + @@ -443793,7 +443659,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -443884,8 +443750,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A subdivision of skeleton that supports pharyngeal arch 2. it's not clear where AAO:'hyobranchial skeleton' belongs AAO:0000665 @@ -443902,24 +443768,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005884 hyoid arch skeleton - + - + - + ZFA - + cjm @@ -444181,6 +444047,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]. + Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO] AAO:0000963 EMAPA:17214 @@ -444195,6 +444062,7 @@ Classes for population already exist in IDO ('organism population', I uberon skeleton axiale UBERON:0005944 + axial skeleton plus cranial skeleton @@ -444312,7 +444180,7 @@ Classes for population already exist in IDO ('organism population', I - + Anteriosuperior, smooth-walled portion of the cavity of the right ventricle, beginning at the supraventricular crest and terminating in the pulmonary trunk. infundibulum EMAPA:37926 @@ -444335,14 +444203,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005953 outflow part of right ventricle - + - + PMID:17276708 @@ -444387,11 +444255,6 @@ Classes for population already exist in IDO ('organism population', I infundibulum of right ventricle FMA:7216 - - - - - infundibulum of right ventricle MP:0010428 @@ -444514,11 +444377,6 @@ Classes for population already exist in IDO ('organism population', I aortic vestibule FMA:9473 - - - - - aortic vestibule MP:0010429 @@ -444667,7 +444525,7 @@ Classes for population already exist in IDO ('organism population', I - + A sheet of somatopleure that grows upward over the embryo and eventually meets in the midline enclosing the embryo, eventually giving rise to the amnion and chorion[Kardong]. EMAPA:16076 amnionic fold @@ -444676,14 +444534,14 @@ Classes for population already exist in IDO ('organism population', I amniotic fold - + - + ISBN:0073040584 @@ -444873,7 +444731,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -444897,14 +444755,14 @@ Classes for population already exist in IDO ('organism population', I atrioventricular septum - + - + PMID:15797462 Wikipedia @@ -444952,7 +444810,7 @@ Classes for population already exist in IDO ('organism population', I - + The paired arteries that carry blood to the yolk sac from the dorsal aorta. EHDAA2:0002208 EMAPA:16207 @@ -444964,14 +444822,14 @@ Classes for population already exist in IDO ('organism population', I vitelline artery http://upload.wikimedia.org/wikipedia/commons/5/55/Gray31.png - + - + ventral branch @@ -445292,7 +445150,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445325,14 +445183,14 @@ Classes for population already exist in IDO ('organism population', I aortico-pulmonary spiral septum http://upload.wikimedia.org/wikipedia/commons/b/b9/Gray470.png - + - + PMID:6844926 Wikipedia @@ -445387,7 +445245,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445431,14 +445289,14 @@ Classes for population already exist in IDO ('organism population', I buccopharyngeal membrane http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png - + - + EHDAA2 @@ -445511,7 +445369,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445534,14 +445392,14 @@ Classes for population already exist in IDO ('organism population', I future diencephalon - + - + EHDAA2 @@ -445723,8 +445581,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -445743,24 +445601,24 @@ Classes for population already exist in IDO ('organism population', I future central tendon - + - + - + EHDAA2 - + mesenchyme cranial part Wikipedia @@ -445871,7 +445729,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445895,14 +445753,14 @@ Classes for population already exist in IDO ('organism population', I future spinal cord - + - + EHDAA2 @@ -445948,8 +445806,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -445967,24 +445825,24 @@ Classes for population already exist in IDO ('organism population', I gallbladder primordium - + - + - + EMAPA - + EHDAA2 @@ -446002,7 +445860,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -446021,7 +445879,7 @@ Classes for population already exist in IDO ('organism population', I the collection consisting of the two lateral swellings and the medial swelling lingual swellings - + @@ -446034,7 +445892,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446129,7 +445987,7 @@ Classes for population already exist in IDO ('organism population', I - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG] @@ -446144,7 +446002,7 @@ Classes for population already exist in IDO ('organism population', I notochordal plate - + @@ -446157,7 +446015,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446194,7 +446052,7 @@ Classes for population already exist in IDO ('organism population', I - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -446211,14 +446069,14 @@ Classes for population already exist in IDO ('organism population', I The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -446256,7 +446114,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -446289,7 +446147,7 @@ Classes for population already exist in IDO ('organism population', I pleuroperitoneal canal - + @@ -446302,7 +446160,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446334,8 +446192,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -446366,24 +446224,24 @@ Classes for population already exist in IDO ('organism population', I The embryonic ventricle or primitive ventricle of the developing heart gives rise to the trabeculated parts of the left and right ventricles. In contrast, the smooth parts of the left and right ventricles originate from the embryological bulbus cordis. The primitive ventricle becomes divided by a septum, the septum inferius or ventricular septum, which grows upward from the lower part of the ventricle, its position being indicated on the surface of the heart by a furrow. Its dorsal part increases more rapidly than its ventral portion, and fuses with the dorsal part of the septum intermedium. For a time an interventricular foramen exists above its ventral portion, but this foramen is ultimately closed by the fusion of the aortic septum with the ventricular septum[WP] future cardiac ventricle - + - + - + ZFA - + EMAPA @@ -446432,8 +446290,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A dense syncitial-like mesenchymal thickening in the dorsal mesogastrium[ISBN]. the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing spleen[MP]. check difference between splenic and spleen in EMAPA; note that in EHDAA2 the class 'spleen' refers to the mesenchyme UBERON:0009750 @@ -446450,11 +446308,11 @@ Classes for population already exist in IDO ('organism population', I spleen primordium - + - + @@ -446467,13 +446325,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-modified - + XAO @@ -446532,7 +446390,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA:924 EMAPA:16663 RETIRED_EHDAA2:0002089 @@ -446544,14 +446402,14 @@ Classes for population already exist in IDO ('organism population', I See: https://github.com/obophenotype/mouse-anatomy-ontology/issues/13 and https://github.com/obophenotype/uberon/issues/693 -- consider merging into trigeminal ganglion, as this complicates the model future trigeminal ganglion - + - + EHDAA2 @@ -447013,6 +446871,7 @@ Classes for population already exist in IDO ('organism population', I The pharynx is the part of the digestive system immediately posterior to the mouth[GO]. currently this is an extremely generic class, encompassing both protostomes and deuterostomes. + 2023-04-20 branchial pharyngeal FBbt:00005380 @@ -447655,7 +447514,7 @@ Classes for population already exist in IDO ('organism population', I - + A cartilaginous joint that connects left and right mandibles/dentary bones. Mandibular symphysis is unpaired[TAO,modified]. this is placed as part of lower jaw region, as in this ontology the skeleton does not include joints Joint that articulates the left and right dentary bones. Mandibular symphysis is unpaired.[TAO] @@ -447679,7 +447538,7 @@ Classes for population already exist in IDO ('organism population', I mandibular symphysis http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png - + @@ -447692,7 +447551,7 @@ Classes for population already exist in IDO ('organism population', I - + connects adjacent mandibles @@ -447986,7 +447845,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448001,7 +447860,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448037,14 +447896,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The three-lobed cloverleaf-shaped aponeurosis situated at the center of the diaphragm; the central tendon is fused with the fibrous pericardium that provides attachment for the muscle fibers. In mammals, the diaphragm muscle divides the thoracoabdominal cavity into thorax and abdomen. In most mammals, the diaphragm is a flat sheet with muscle fibers radiating outward from a central tendon, and the diaphragm's apposition to the cranial surface of the liver gives it a dome-shape. Muscle fiber contraction reduces the curvature of the dome, thereby expanding the thoracic cavity and aspirating air into the lungs.[well established][VHOG] EMAPA:17702 @@ -448062,24 +447921,24 @@ Classes for population already exist in IDO ('organism population', I central tendon of diaphragm - + - + - + VHOG - + definitional @@ -448179,7 +448038,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448200,7 +448059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448248,7 +448107,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448273,14 +448132,14 @@ Classes for population already exist in IDO ('organism population', I median lingual swelling http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray979.png - + - + EHDAA2 @@ -448429,6 +448288,7 @@ Classes for population already exist in IDO ('organism population', I The edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm. + EFO:0001403 EMAPA:37835 FMA:58342 @@ -448448,6 +448308,7 @@ Classes for population already exist in IDO ('organism population', I limbus corneae UBERON:0006761 + This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343 @@ -448471,11 +448332,6 @@ Classes for population already exist in IDO ('organism population', I corneal limbus FMA:58342 - - - - - corneal limbus GAID:896 @@ -448582,7 +448438,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448603,7 +448459,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0006815 areolar connective tissue - + @@ -448616,7 +448472,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -448756,7 +448612,6 @@ Classes for population already exist in IDO ('organism population', I A subdivision of a the reproductive tract in a female organism that is the site of embryo development. uterus - FBbt:00004924 TADS:0000421 WBbt:0006760 uberon @@ -449064,7 +448919,7 @@ Classes for population already exist in IDO ('organism population', I - + A head mesenchyme that develops_from a mesoderm. merged in 'head mesoderm' from XAO/AAO and EFO here. Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme AAO:0011051 @@ -449092,7 +448947,7 @@ Classes for population already exist in IDO ('organism population', I head mesenchyme from mesoderm - + @@ -449105,7 +448960,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 XAO @@ -449928,7 +449783,7 @@ Classes for population already exist in IDO ('organism population', I - + The stroma of the ovary is a peculiar soft tissue, abundantly supplied with blood vessels, consisting for the most part of spindle-shaped cells with a small amount of ordinary connective tissue. These cells have been regarded by some anatomists as unstriped muscle cells, which, indeed, they most resemble; by others as connective-tissue cells. On the surface of the organ this tissue is much condensed, and forms a layer composed of short connective-tissue fibers, with fusiform cells between them. The stroma of the ovary may contain interstitial cells resembling those of the testis. CALOHA:TS-1246 @@ -449950,14 +449805,14 @@ Classes for population already exist in IDO ('organism population', I ovary stroma - + - + FMA @@ -450535,7 +450390,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest that migrates into the mandibular arch. TAO:0007064 XAO:0000024 @@ -450544,7 +450399,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007098 mandibular neural crest - + @@ -450557,7 +450412,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -450573,7 +450428,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest that migrates into the hyoid arch. TAO:0007065 XAO:0000025 @@ -450583,7 +450438,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007099 hyoid neural crest - + @@ -450596,7 +450451,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -450621,7 +450476,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -450635,7 +450490,7 @@ Classes for population already exist in IDO ('organism population', I - + A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]. note we reserve the subclass 'heart' from the vertebrate multi-chambered heart. 'The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian'. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis SPD:0000130 @@ -450650,14 +450505,14 @@ Classes for population already exist in IDO ('organism population', I Gene notes: Bmp, Nkx, Gata primary circulatory organ - + - + GO uses blood circulation generically to include the haemolymphatic fluid of arthropods @@ -450692,8 +450547,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of the minute vascular projections of the fetal chorion that combines with maternal uterine tissue to form the placenta. The mouse and human placentas have labyrinthine and villous types of interdigitation between maternal and fetal tissues, respectively @@ -450723,24 +450578,24 @@ Classes for population already exist in IDO ('organism population', I chorionic villus http://upload.wikimedia.org/wikipedia/commons/1/1e/Gray29.png - + - + - + BTO - + MP-def @@ -452037,14 +451892,12 @@ Classes for population already exist in IDO ('organism population', I The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis. - CALOHA:TS-0085 FMA:21426 Wikipedia:Bone_marrow#Stroma bone marrow stroma uberon UBERON:0007195 - stroma of bone marrow @@ -452085,7 +451938,7 @@ Classes for population already exist in IDO ('organism population', I - + The structure from the trachea, bronchi, and bronchioles that forms the airways that supply air to the lungs. The lining of the tracheobronchial tree consists of ciliated columnar epithelial cells. UBERON:0004102 @@ -452102,14 +451955,14 @@ Classes for population already exist in IDO ('organism population', I tracheobronchial tree - + - + Wikipedia @@ -452264,7 +452117,7 @@ Classes for population already exist in IDO ('organism population', I - + relationship to Meckel's cartilage to be added Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG] EHDAA2:0000031 @@ -452278,14 +452131,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007237 1st arch mandibular component - + - + EHDAA2 @@ -452401,7 +452254,7 @@ Classes for population already exist in IDO ('organism population', I - + A tunica adventitia that is part of a artery. EMAPA:36295 EV:0100030 @@ -452413,14 +452266,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007240 tunica adventitia of artery - + - + FMA @@ -452708,7 +452561,7 @@ Classes for population already exist in IDO ('organism population', I - + A pre-cartilage condensation that is part of a trachea. EHDAA2:0002070 EHDAA:7082 @@ -452716,14 +452569,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007267 trachea pre-cartilage rings - + - + EHDAA2 @@ -452909,7 +452762,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -452930,14 +452783,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007272 pectoral appendage skeleton - + - + VSAO @@ -452972,7 +452825,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -452990,14 +452843,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007273 pelvic appendage skeleton - + - + VSAO @@ -453030,8 +452883,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -453058,24 +452911,24 @@ Classes for population already exist in IDO ('organism population', I presumptive hindbrain - + - + - + XAO-abduced - + cjm @@ -453132,7 +452985,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453146,14 +452999,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007278 presumptive sinus venosus - + - + ZFA @@ -453239,7 +453092,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453258,14 +453111,14 @@ Classes for population already exist in IDO ('organism population', I presumptive midbrain hindbrain boundary - + - + ZFA @@ -453304,7 +453157,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453321,14 +453174,14 @@ Classes for population already exist in IDO ('organism population', I presumptive segmental plate - + - + https://github.com/obophenotype/uberon/wiki/The-neural-crest EDHAA2 @@ -453427,7 +453280,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453453,7 +453306,7 @@ Classes for population already exist in IDO ('organism population', I presumptive paraxial mesoderm - + @@ -453469,7 +453322,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1277 @@ -453855,7 +453708,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453901,7 +453754,7 @@ Classes for population already exist in IDO ('organism population', I pancreatic duct http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1100.png - + @@ -453914,7 +453767,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -454661,7 +454514,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -454669,7 +454522,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007524 dense mesenchyme tissue - + @@ -454682,7 +454535,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -454927,7 +454780,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -454947,14 +454800,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007616 layer of synovial tissue - + - + BTO @@ -455019,6 +454872,7 @@ Classes for population already exist in IDO ('organism population', I An anatomical cavity that surrounded_by a synovial joint. + FMA:11356 articular cavity (synovial joint) cavitas articularis (junctura synovialis) @@ -455027,6 +454881,7 @@ Classes for population already exist in IDO ('organism population', I joint cavity synovial cavity UBERON:0007617 + synovial cavity of joint @@ -455155,7 +455010,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455180,7 +455035,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal nuclear complex http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png - + @@ -455193,7 +455048,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -455245,8 +455100,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -455267,24 +455122,24 @@ Classes for population already exist in IDO ('organism population', I future meninx - + - + - + EHDAA2 - + ISBN:0073040584 @@ -455329,7 +455184,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455344,14 +455199,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007647 ectomeninx - + - + ISBN:9781607950325 @@ -455489,7 +455344,7 @@ Classes for population already exist in IDO ('organism population', I - + . EFO:0003626 EHDAA2:0001457 @@ -455508,14 +455363,14 @@ Classes for population already exist in IDO ('organism population', I relation conflict: ZFA vs EHDAA2. Note EHDAA2 term renamed to 'early PA endoderm' early pharyngeal endoderm - + - + cjm @@ -455552,7 +455407,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455560,7 +455415,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455579,7 +455434,7 @@ Classes for population already exist in IDO ('organism population', I gustatory pore https://upload.wikimedia.org/wikipedia/commons/0/0e/Taste_bud.svg - + @@ -455592,7 +455447,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -455825,9 +455680,10 @@ Classes for population already exist in IDO ('organism population', I - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature + The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]. in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system BTO:0001085 @@ -455839,17 +455695,18 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0489903 uberon UBERON:0007798 + vascular system - + - + MA @@ -456144,7 +456001,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesentery that is located in the peritoneum. FMA:20570 TAO:0005129 @@ -456154,14 +456011,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007826 peritoneal mesentery - + - + FMA @@ -456240,11 +456097,13 @@ Classes for population already exist in IDO ('organism population', I A bone that is part of a pectoral girdle region. + EMAPA:35669 MA:0000292 bone of pectoral girdle uberon UBERON:0007829 + pectoral girdle bone @@ -456290,6 +456149,7 @@ Classes for population already exist in IDO ('organism population', I A bone element or fused bone that is part of pelvic girdle. check sacrum, coccyx (MA does NOT include these) + typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone EMAPA:18028 MA:0000293 @@ -456300,6 +456160,7 @@ Classes for population already exist in IDO ('organism population', I pelvic girdle bone uberon UBERON:0007830 + pelvic girdle bone/zone @@ -456522,7 +456383,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -456565,14 +456426,14 @@ Classes for population already exist in IDO ('organism population', I pelvic girdle skeleton http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png - + - + PMID:21455939 @@ -456736,8 +456597,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -456763,11 +456624,11 @@ Classes for population already exist in IDO ('organism population', I cartilage element - + - + @@ -456780,13 +456641,13 @@ Classes for population already exist in IDO ('organism population', I - + VSAO - + VSAO @@ -456995,7 +456856,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457003,7 +456864,7 @@ Classes for population already exist in IDO ('organism population', I - + A bone that is part of a craniocervical region. EMAPA:37245 MA:0000569 @@ -457013,7 +456874,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007914 bone of craniocervical region - + @@ -457026,7 +456887,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457393,7 +457254,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457401,7 +457262,7 @@ Classes for population already exist in IDO ('organism population', I - + Musculature system of the pharyngeal and head regions. in MA this is restricted to skeletal muscles EMAPA:37259 @@ -457415,7 +457276,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008229 craniocervical region musculature - + @@ -457428,7 +457289,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457475,8 +457336,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Subdivision of thorax, which in humans is the posterior part of the thorax and is demarcated from the chest by the external surface of the posterolateral part of the rib cage and the anterior surface of the thoracic vertebral column; together with the chest, it constitutes the thorax. EMAPA:37234 FMA:24217 @@ -457492,30 +457353,25 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008231 dorsal thoracic segment of trunk - + - + - + FMA - - - - - MA - + FMA @@ -457576,7 +457432,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457585,7 +457441,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle of back that is part of a dorsal thoracic segment of trunk. EMAPA:37261 MA:0000508 @@ -457594,7 +457450,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008243 upper back muscle - + @@ -457607,7 +457463,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457750,7 +457606,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a duodenum. CALOHA:TS-2087 @@ -457764,14 +457620,14 @@ Classes for population already exist in IDO ('organism population', I duodenal epithelium - + - + FMA @@ -457840,7 +457696,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457854,7 +457710,7 @@ Classes for population already exist in IDO ('organism population', I - + An embryonic structure that is derived from the inner cell mass and lies above the hypoblast and gives rise to the three primary germ layers. EHDAA2:0000444 EHDAA:42 @@ -457870,14 +457726,14 @@ Classes for population already exist in IDO ('organism population', I The epiblast cells (appearing on day 8 of human embryonic development) make up a columnar epithelium with dense microvilli on the apical surface. During gastrulation, the epiblast cells undergo epithelial-to-mesenchymal transition and delaminate to become the loose mesenchyme of the primitive streak. The epiblast is present in postimplantation mouse embryos between E5.5-E7.5. inner cell mass derived epiblast - + - + Wikipedia @@ -457904,7 +457760,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458023,7 +457879,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458038,7 +457894,7 @@ Classes for population already exist in IDO ('organism population', I neural tube derived brain https://github.com/obophenotype/uberon/issues/338 - + @@ -458051,7 +457907,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -458072,8 +457928,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An out-pocket of thickened ventral foregut epithelium adjacent to the developing heart. Constitutes the first morphological sign of the embryonic liver. The anterior portion of the hepatic diverticulum gives rise to the liver and intrahepatic biliary tree, while the posterior portion forms the gall bladder and extrahepatic bile ducts. in mice, the hepatic diverticulum forms by E9 and expands into an obvious liver bud by E10 The caudal part of the septum transversum is invaded by the hepatic diverticulum which divides within it to form the liver and thus gives rise to the ventral mesentery of the foregut. @@ -458092,11 +457948,11 @@ Classes for population already exist in IDO ('organism population', I hepatic diverticulum http://upload.wikimedia.org/wikipedia/commons/4/4f/Gray1088.png - + - + @@ -458109,14 +457965,14 @@ Classes for population already exist in IDO ('organism population', I - + caudal part EHDAA2 - + EHDAA2 @@ -458155,13 +458011,13 @@ Classes for population already exist in IDO ('organism population', I - + BTO:0001642 uberon UBERON:0008836 liver bud - + @@ -458174,7 +458030,7 @@ Classes for population already exist in IDO ('organism population', I - + http://www.stembook.org/node/512 @@ -458241,7 +458097,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458256,10 +458112,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + Dense regular connective tissue connecting two or more adjacent skeletal elements[VSAO,modified]. logical definition deliberately made strict to avoid classifying MA:spiral ligament as both nonskeletal and skeletal. see https://github.com/obophenotype/mouse-anatomy-ontology/issues/71 Dense regular connective tissue connecting two or more adjacent skeletal elements or supporting an organ.[VSAO] @@ -458284,44 +458140,44 @@ Classes for population already exist in IDO ('organism population', I skeletal ligament https://upload.wikimedia.org/wikipedia/commons/9/9a/Knee_diagram.svg - + - + - + - + - + AEO - + AEO - + bones or cartilage organs - + VSAO @@ -458391,7 +458247,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458418,14 +458274,14 @@ Classes for population already exist in IDO ('organism population', I stomach muscularis externa - + - + MA-abduced @@ -458471,7 +458327,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458503,7 +458359,7 @@ Classes for population already exist in IDO ('organism population', I pyloric canal https://upload.wikimedia.org/wikipedia/commons/3/33/Illu_stomach.jpg - + @@ -458516,7 +458372,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -458570,7 +458426,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458595,7 +458451,7 @@ Classes for population already exist in IDO ('organism population', I pyloric gastric gland http://upload.wikimedia.org/wikipedia/commons/b/bf/Gray1054.png - + @@ -458608,7 +458464,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Tubular_gland @@ -458667,7 +458523,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458700,14 +458556,14 @@ Classes for population already exist in IDO ('organism population', I hypodermis skeletal muscle layer - + - + MP-def @@ -458910,10 +458766,11 @@ Classes for population already exist in IDO ('organism population', I - - + + Subdivision of endoskeleton derived from pharyngeal arches. + Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO] Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO] The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG] @@ -458939,27 +458796,28 @@ Classes for population already exist in IDO ('organism population', I visceral skeletal system visceral skeleton UBERON:0008895 + splanchnocranium http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg - + - + - + https://github.com/obophenotype/uberon/issues/83 - + redundant Grays PMID:11237469 @@ -459195,7 +459053,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459204,7 +459062,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]. Intramembranous bone that forms superficially in the organism.[TAO] other AOs are not yet in sync with this classification @@ -459219,7 +459077,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008907 dermal bone - + @@ -459238,7 +459096,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO @@ -459350,7 +459208,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459358,7 +459216,7 @@ Classes for population already exist in IDO ('organism population', I - + A parenchyma that is part of a lung. EMAPA:35522 FMA:27360 @@ -459371,7 +459229,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008946 lung parenchyma - + @@ -459384,7 +459242,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -459986,7 +459844,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459995,7 +459853,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial ganglion which develops from an epibranchial placode. TAO:0001555 ZFA:0001555 @@ -460005,7 +459863,7 @@ Classes for population already exist in IDO ('organism population', I Epibranchial ganglia orchestrate the development of the cranial neurogenic crest epibranchial ganglion - + @@ -460018,7 +459876,7 @@ Classes for population already exist in IDO ('organism population', I - + NCBIBook:NBK53175 @@ -460062,8 +459920,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Endocardium that is part of the right atrium. EHDAA2:0000274 FMA:7281 @@ -460077,24 +459935,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009129 right atrium endocardium - + - + - + EHDAA2 - + EHDAA2 @@ -460258,7 +460116,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -460275,14 +460133,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -460298,7 +460156,7 @@ Classes for population already exist in IDO ('organism population', I - + EMAPA:16549 RETIRED_EHDAA2:0001454 pharyngeal region @@ -460306,14 +460164,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009145 pharyngeal region of foregut - + - + EHDAA2 @@ -460429,20 +460287,20 @@ Classes for population already exist in IDO ('organism population', I - + Any suture between facial bones. uberon UBERON:0009199 facial suture - + - + between two adjacent facial bones @@ -460458,7 +460316,7 @@ Classes for population already exist in IDO ('organism population', I - + The superior surface of the tongue divided by the sulcus terminalis into an anterior two-thirds, the presulcal part (pars presulcalis). and a posterior one-third, the postsulcal part (pars postsulcalis). FMA:54651 NCIT:C32482 @@ -460471,14 +460329,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009471 dorsum of tongue - + - + FMA @@ -460713,7 +460571,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of mesenchymal tissue associated with an individual pharyngeal arch. this represents a part of the entire arch mesenchyme (UBERON:0010046), and is therefore a superclass of the individual arch mesenchyme classes. Alternate definition: primordial embryonic connective tissue associated with the branchial arches, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to facial and cranial nerve-associated structures. EMAPA:32755 @@ -460725,7 +460583,7 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch mesenchymal region - + @@ -460738,7 +460596,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -460785,14 +460643,14 @@ Classes for population already exist in IDO ('organism population', I - + - + An epithelium that is part of a foregut-midgut junction. EHDAA2:0000573 EMAPA:16564 @@ -460801,24 +460659,24 @@ Classes for population already exist in IDO ('organism population', I epithelium of foregut-midgut junction - + - + - + EHDAA2 - + EHDAA2 @@ -461173,7 +461031,7 @@ Classes for population already exist in IDO ('organism population', I - + A submucosa that is part of a intestine. FMA:15696 submucosa of intestine @@ -461181,14 +461039,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009566 intestinal submucosa - + - + FMA @@ -461306,7 +461164,7 @@ Classes for population already exist in IDO ('organism population', I - + A sulcus limitans of neural tube that is part of a future medulla oblongata. EHDAA2:0001100 EMAPA:17561 @@ -461314,14 +461172,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009576 medulla oblongata sulcus limitans - + - + EHDAA2 @@ -461536,7 +461394,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -461544,7 +461402,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a 1st arch mandibular component. UBERON:0010043 EHDAA2:0000034 @@ -461557,14 +461415,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009584 1st arch mandibular mesenchyme - + - + EMAPA @@ -461680,9 +461538,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461696,7 +461554,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009610 forebrain neural plate - + @@ -461705,20 +461563,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461733,9 +461591,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461749,7 +461607,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009611 midbrain neural plate - + @@ -461758,20 +461616,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461786,9 +461644,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461802,7 +461660,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009614 hindbrain neural plate - + @@ -461811,20 +461669,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461840,8 +461698,8 @@ Classes for population already exist in IDO ('organism population', I - - + + TODO - developmental relationships for lines TAO:0007044 ZFA:0007044 @@ -461851,24 +461709,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009615 midbrain hindbrain boundary neural plate - + - + - + ZFA - + https://github.com/obophenotype/uberon/issues/438 Bgee:AN @@ -461902,14 +461760,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461934,24 +461792,24 @@ Classes for population already exist in IDO ('organism population', I presumptive midbrain - + - + - + ZFA - + ZFA @@ -461997,7 +461855,7 @@ Classes for population already exist in IDO ('organism population', I - + Bilateral mesenchymal mesoderm parallel and immediately adjacent to the neural tube/notochord; it generates a subset of extra-ocular, and other head, muscles. A major contributor to neurocranium [PMID:16313393] EHDAA2:0000736 @@ -462014,14 +461872,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009617 head paraxial mesoderm - + - + EHDAA2 @@ -462074,7 +461932,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -462082,14 +461940,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -462111,10 +461969,12 @@ Classes for population already exist in IDO ('organism population', I + EMAPA:35878 MA:0001859 uberon UBERON:0009644 + trachea non-cartilage connective tissue @@ -462141,7 +462001,7 @@ Classes for population already exist in IDO ('organism population', I - + A basement membrane that is part of a bronchus. MA classifies as type of connective tissue: https://github.com/obophenotype/mouse-anatomy-ontology/issues/108 EMAPA:37809 @@ -462153,14 +462013,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009652 bronchus basement membrane - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -462212,8 +462072,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A basement membrane that is part of a trachea. EMAPA:37552 MA:0001854 @@ -462223,25 +462083,25 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009653 trachea basement membrane - + - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships - + MA-modified @@ -462432,7 +462292,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004566 EMAPA:32911 MA:0003203 @@ -462443,14 +462303,14 @@ Classes for population already exist in IDO ('organism population', I gut mesentery https://github.com/obophenotype/uberon/issues/509 - + - + EHDAA2 @@ -462537,8 +462397,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -462555,24 +462415,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009670 rectal lumen - + - + - + cjm - + EHDAA2 @@ -462595,9 +462455,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0001371 uberon @@ -462607,15 +462467,15 @@ Classes for population already exist in IDO ('organism population', I dorsal pancreas - + - + - + @@ -462628,19 +462488,19 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 - + cjm @@ -462651,9 +462511,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0001393 uberon @@ -462663,15 +462523,15 @@ Classes for population already exist in IDO ('organism population', I ventral pancreas - + - + - + @@ -462684,19 +462544,19 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 - + cjm @@ -462723,8 +462583,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Any endocardium that is part of the right ventricle of the heart. Endocardium of ventricle which is continuous tricuspid valve, pulmonary valve and with the tunica intima of the pulmonary trunk. EHDAA2:0002188 @@ -462741,24 +462601,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009712 endocardium of right ventricle - + - + - + EHDAA2 - + FMA @@ -462821,7 +462681,7 @@ Classes for population already exist in IDO ('organism population', I - + Any endocardium that is part of the left ventricle of the heart. Endocardium of ventricle which is continuous with mitral valve, aortic valve, atrioventricular septum and the tunica intima of the aorta. EHDAA2:0002182 @@ -462837,14 +462697,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009713 endocardium of left ventricle - + - + FMA @@ -462930,7 +462790,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -462945,14 +462805,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009722 entire pharyngeal arch endoderm - + - + EHDAA2 @@ -463107,7 +462967,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -463120,7 +462980,7 @@ Classes for population already exist in IDO ('organism population', I - + A serous sac that has the pleura and the pleural cavity as parts. despite its name the class EHDAA2:0004737 is not a true cavity, it corresponds to what we call the sac EHDAA2:0004737 @@ -463131,24 +462991,24 @@ Classes for population already exist in IDO ('organism population', I pleural sac - + - + - + FMA - + FMA-abduced-lr @@ -463263,8 +463123,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An epithelium that is part of a embryonic cloaca. cloacal epithelium EHDAA2:0004585 @@ -463272,24 +463132,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009846 embryonic cloacal epithelium - + - + - + EHDAA2 - + EHDAA2 @@ -463435,7 +463295,7 @@ Classes for population already exist in IDO ('organism population', I - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -463445,14 +463305,14 @@ Classes for population already exist in IDO ('organism population', I anterior lateral plate mesoderm - + - + ZFA @@ -463527,9 +463387,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -463549,34 +463409,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009889 secondary heart field - + - + - + - + GO:0003129 - + PMID:17276708 - + PMID:17276708 @@ -463745,14 +463605,14 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0001315 EHDAA:1122 uberon UBERON:0009920 optic neural crest - + @@ -463765,7 +463625,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -464050,7 +463910,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -464065,14 +463925,14 @@ Classes for population already exist in IDO ('organism population', I placental labyrinth villous - + - + MP @@ -464190,7 +464050,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -464226,7 +464086,7 @@ Classes for population already exist in IDO ('organism population', I anterior part of tongue https://upload.wikimedia.org/wikipedia/commons/4/4c/Illu04_tongue.jpg - + @@ -464242,7 +464102,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:1607950324 @@ -464411,8 +464271,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The sum total of mesenchymal tissue in the pharyngeal arch region. Pharyngeal mesenchyme is undifferentiated, loose connective tissue derived mostly from mesoderm, and also contains ectodermally derived neural crest cells. EHDAA2:0001459 EMAPA:16550 @@ -464424,11 +464284,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010046 entire pharyngeal arch associated mesenchyme - + - + @@ -464441,13 +464301,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + cjm @@ -464628,13 +464488,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004610 uberon UBERON:0010059 hypoglossal cord - + @@ -464647,7 +464507,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -464674,7 +464534,7 @@ Classes for population already exist in IDO ('organism population', I - + An anatomical space with at least one opening to another space or the exterior. AEO:0000221 EHDAA2:0004616 @@ -464682,14 +464542,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010064 open anatomical space - + - + cjm @@ -464822,9 +464682,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -464838,34 +464698,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010083 future dermis - + - + - + - + EHDAA2 - + EHDAA2 - + XAO @@ -464892,9 +464752,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -464907,34 +464767,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010084 future diaphragm - + - + - + - + EHDAA2 - + PMID:23586979 - + PMID:23586979 @@ -465333,7 +465193,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465345,14 +465205,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010191 aortic system - + - + Wikipedia @@ -465476,7 +465336,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465498,14 +465358,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010212 laryngeal apparatus - + - + EHDAA2 @@ -465527,30 +465387,30 @@ Classes for population already exist in IDO ('organism population', I - - + + uberon UBERON:0010213 laryngeal pre-cartilage condensation - + - + - + EHDAA2-abstracted - + EHDAA2-abstracted @@ -465560,35 +465420,35 @@ Classes for population already exist in IDO ('organism population', I - + - - - + + + EHDAA2:0004085 uberon UBERON:0010221 Many sources say: thyroid cartilage from arch 4 other laryngeal cartilage (cricoid/arytenoid) from 6? laryngeal associated mesenchyme - + - + - + - + @@ -465601,25 +465461,25 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia - + Wikipedia - + Wikipedia @@ -465650,7 +465510,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465668,14 +465528,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010227 future cardiac atrium - + - + ZFA @@ -465709,7 +465569,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465734,14 +465594,14 @@ Classes for population already exist in IDO ('organism population', I eyeball of camera-type eye - + - + FMA @@ -465827,7 +465687,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465840,8 +465700,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -465854,11 +465714,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010252 1st arch mandibular mesenchyme from neural crest - + - + @@ -465871,13 +465731,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -465896,7 +465756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465910,8 +465770,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -465928,24 +465788,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010254 2nd arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -465964,7 +465824,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465978,7 +465838,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a neural crest and is part of a 3rd arch mesenchyme. In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG] EHDAA2:0000083 @@ -465993,14 +465853,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010255 3rd arch mesenchyme from neural crest - + - + EHDAA2 @@ -466041,7 +465901,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466055,8 +465915,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a 4th arch mesenchyme. In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG] EHDAA2:0000098 @@ -466071,24 +465931,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010256 4th arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -466129,7 +465989,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466143,8 +466003,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a 6th arch mesenchyme. EHDAA2:0004077 neural crest derived arch 6 mesenchyme @@ -466154,24 +466014,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010257 6th arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -466199,7 +466059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466212,14 +466072,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010258 mesenchyme from rhombencephalic neural crest - + - + EHDAA2 @@ -466287,7 +466147,7 @@ Classes for population already exist in IDO ('organism population', I - + A group of bones comprised of hyoid body and two pairs of cornua (i.e. greater cornua and lesser cornua), and lies just below the tongue, above the thyroid cartilage. Apparatus located in the floor of the mouth, under the mandibular arcade. The apparatus consists of a central corpus and four pairs of processes. This apparatus serves as the site of insertion for a variety of muscles associated with movements of the tongue and as the origin of the m. hyoglossus.[AAO] relationship loss: part_of hyolaryngeal complex (AAO:0000226)[AAO] @@ -466306,14 +466166,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010272 hyoid apparatus - + - + AAO @@ -466420,8 +466280,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Portion of tissue that is dorsolateral to the floor plate and part of the midbrain. DHBA:12322 EFO:0003567 @@ -466435,11 +466295,11 @@ Classes for population already exist in IDO ('organism population', I midbrain basal plate - + - + @@ -466452,13 +466312,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ZFA @@ -466486,7 +466346,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of neural tube that gives rise to the midbrain. we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed TAO:0007039 @@ -466495,14 +466355,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010286 midbrain neural tube - + - + ZFA @@ -466518,21 +466378,21 @@ Classes for population already exist in IDO ('organism population', I - + . Wikipedia:Sclera#Histology uberon UBERON:0010291 layer of sclera - + - + cjm @@ -466753,7 +466613,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466769,14 +466629,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010312 immature eye - + - + definitional @@ -467028,20 +466888,20 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a limb/fin bud. uberon UBERON:0010329 paired limb/fin bud mesenchyme - + - + EHDAA2-abduced @@ -467076,20 +466936,20 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a extraembryonic membrane. uberon UBERON:0010333 extraembryonic membrane mesenchyme - + - + EHDAA2-abduced @@ -467108,7 +466968,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467121,32 +466981,32 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a mandibular process mesenchyme. EHDAA2:0004603 uberon UBERON:0010336 mandibular process mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -467165,7 +467025,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467178,32 +467038,32 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a mandibular process mesenchyme. EHDAA2:0004604 uberon UBERON:0010337 mandibular process mesenchyme from head mesenchyme - + - + - + EHDAA2 - + EHDAA2 @@ -467222,7 +467082,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467235,21 +467095,21 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mandibular mesenchyme. EHDAA2:0000036 uberon UBERON:0010339 1st arch mandibular mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467268,7 +467128,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467282,7 +467142,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mesenchyme. EMAPA:16130 mesenchyme derived from head mesoderm of mesenchyme of 1st arch @@ -467290,14 +467150,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010341 1st arch mesenchyme from head mesenchyme - + - + EMAPA @@ -467322,7 +467182,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467336,7 +467196,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 2nd arch mesenchyme. EHDAA2:0000067 EMAPA:16280 @@ -467348,14 +467208,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010343 2nd arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467380,7 +467240,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467394,7 +467254,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 3rd arch mesenchyme. EHDAA2:0000082 EMAPA:16403 @@ -467406,14 +467266,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010344 3rd arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467438,7 +467298,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467452,7 +467312,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 4th arch mesenchyme. EHDAA2:0000097 EMAPA:16771 @@ -467464,14 +467324,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010345 4th arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467496,7 +467356,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467510,7 +467370,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 6th arch mesenchyme. EHDAA2:0004078 head mesenchyme derived arch 6 mesenchyme @@ -467520,14 +467380,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010347 6th arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467900,7 +467760,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467915,14 +467775,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010375 pancreas dorsal primordium - + - + EHDAA2 @@ -467951,7 +467811,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467966,14 +467826,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010376 pancreas ventral primordium - + - + EHDAA2 @@ -468006,7 +467866,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -468020,7 +467880,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010377 mesenchyme from somatopleure - + @@ -468033,7 +467893,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -468065,7 +467925,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -468078,7 +467938,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010378 mesenchyme from splanchnopleure - + @@ -468091,7 +467951,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -468430,7 +468290,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that forms as a replacement or substitution of another element or tissue. VSAO:0000135 XAO:0004016 @@ -468439,7 +468299,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010522 replacement element - + @@ -468452,7 +468312,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -468471,7 +468331,7 @@ Classes for population already exist in IDO ('organism population', I - + A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses. MESH:D055806 TAO:0005251 @@ -468481,14 +468341,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010523 microcirculatory vessel - + - + ZFA @@ -469023,7 +468883,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469046,14 +468906,14 @@ Classes for population already exist in IDO ('organism population', I bone of appendage girdle complex - + - + UBERONREF:0000003 @@ -469306,7 +469166,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscles of the pelvic girdle, hindlimb or pelvic fin. Muscles of the pelvic girdle, thigh, leg (crus), and foot (pes).[AAO] AAO:0000218 @@ -469324,14 +469184,14 @@ Classes for population already exist in IDO ('organism population', I pelvic complex muscle - + - + prolog @@ -469399,7 +469259,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle of a pectoral girdle, pectoral fin or anterior limb. the MA class belongs here, based on its current child classes Muscles of the pectoral girdle, arm, forearm, and hand (brachium, antebrachium, manus respectively).[AAO] @@ -469416,14 +469276,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010891 pectoral complex muscle - + - + prolog @@ -469475,8 +469335,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO] FMA:23879 @@ -469489,11 +469349,11 @@ Classes for population already exist in IDO ('organism population', I subdivision of skeleton - + - + @@ -469506,13 +469366,13 @@ Classes for population already exist in IDO ('organism population', I - + UBERONREF:0000003 - + VSAO @@ -469562,7 +469422,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of either the head or the neck. NCIT:C32716 UMLS:C0448281 @@ -469572,14 +469432,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010959 craniocervical muscle - + - + prolog @@ -469604,7 +469464,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469612,7 +469472,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469630,7 +469490,7 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch cartilage - + @@ -469643,7 +469503,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -470096,7 +469956,7 @@ Classes for population already exist in IDO ('organism population', I - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -470106,7 +469966,7 @@ Classes for population already exist in IDO ('organism population', I postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -470119,7 +469979,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -470159,7 +470019,7 @@ Classes for population already exist in IDO ('organism population', I - + Gland of the lamina epithelialis mucosae which perforate the lamina muscularis, with their adenomeres located in the submucosal connective tissue. BTO:0003751 EMAPA:37970 @@ -470168,14 +470028,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011148 submucosal gland - + - + perforates @@ -470199,7 +470059,7 @@ Classes for population already exist in IDO ('organism population', I - + Subdivision of skull that consists of the facial bones. EHDAA2:0002206 EHDAA:8361 @@ -470218,7 +470078,7 @@ Classes for population already exist in IDO ('organism population', I facial skeleton http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg - + @@ -470231,7 +470091,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -470453,7 +470313,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a large intestine. FMA:15654 @@ -470467,14 +470327,14 @@ Classes for population already exist in IDO ('organism population', I lamina propria of large intestine - + - + FMA @@ -470519,7 +470379,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a large intestine. FMA:14971 NCIT:C32927 @@ -470532,14 +470392,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011198 muscle layer of large intestine - + - + FMA @@ -470597,7 +470457,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a small intestine. FMA:14932 NCIT:C33569 @@ -470613,14 +470473,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011201 muscle layer of small intestine - + - + FMA @@ -470768,7 +470628,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscles within the eye (bulbus oculi).[AAO] AAO:0010038 EMAPA:18808 @@ -470779,14 +470639,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011222 intra-ocular muscle - + - + EMAPA @@ -470942,7 +470802,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the trunk that is in the dorsum[cjm]. In humans, the subdivision of trunk which is demarcated from the trunk proper by the external surface of the posterolateral part of the rib cage, the anterior surface of the thoracic vertebral column and the posterior axillary lines, the external surface of the posterior abdominal wall; together with the trunk proper, it constitutes the trunk[FMA] EMAPA:35162 @@ -470957,7 +470817,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011270 dorsal trunk - + @@ -470970,7 +470830,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -471005,8 +470865,8 @@ Classes for population already exist in IDO ('organism population', I - - + + compare with 'stratum basale of epidermis'. This class is the source for many adult structures - see WP2062. See also: 'enveloping layer of ectoderm' EHDAA2:0001845 uberon @@ -471015,11 +470875,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011272 embryonic skin basal layer - + - + @@ -471032,13 +470892,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -471371,7 +471231,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471395,14 +471255,14 @@ Classes for population already exist in IDO ('organism population', I lumen of esophagus - + - + FMA @@ -471466,7 +471326,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471484,14 +471344,14 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin skeleton - + - + ISBN:9780878932504 @@ -471563,7 +471423,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471584,14 +471444,14 @@ Classes for population already exist in IDO ('organism population', I jaw region http://eol.org/collections/11578 - + - + EMAPA FMA-abduced ZFA-abduced @@ -471610,14 +471470,14 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0001020 lower jaw future lip uberon UBERON:0011596 future lower lip - + @@ -471630,7 +471490,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Mandibular_prominence @@ -471669,14 +471529,14 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that develops_from a ectoderm and is part of a oral epithelium. EHDAA2:0004137 uberon UBERON:0011642 oral epithelium from ectoderm - + @@ -471689,7 +471549,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -472775,7 +472635,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a wall of esophagus. In the upper esophagus, part of the externa is skeletal muscle, rather than smooth muscle FMA:62998 @@ -472789,14 +472649,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011878 muscle layer of esophagus - + - + upper part Wikipedia:Muscular_layer @@ -472858,7 +472718,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -472900,7 +472760,7 @@ Classes for population already exist in IDO ('organism population', I anterior uvea - + @@ -472913,7 +472773,7 @@ Classes for population already exist in IDO ('organism population', I - + MP @@ -472953,7 +472813,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -472978,7 +472838,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011899 epimysium - + @@ -472991,7 +472851,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -473044,7 +472904,7 @@ Classes for population already exist in IDO ('organism population', I - + Masses of developing blood cells attached to endothelium in the yolk sac. EHDAA2:0000177 EMAPA:16115 @@ -473055,14 +472915,14 @@ Classes for population already exist in IDO ('organism population', I yolk sac blood island - + - + EHDAA2 @@ -473570,9 +473430,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -473588,7 +473448,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012082 bronchial lumen - + @@ -473597,20 +473457,20 @@ Classes for population already exist in IDO ('organism population', I - + - + FMA - + FMA @@ -474037,7 +473897,7 @@ Classes for population already exist in IDO ('organism population', I - + The deep cervical artery (Profunda cervicalis) is an artery of the neck. FMA:10659 @@ -474049,14 +473909,14 @@ Classes for population already exist in IDO ('organism population', I deep cervical artery - + - + FMA @@ -474114,11 +473974,6 @@ Classes for population already exist in IDO ('organism population', I cervical artery MA:0001936 - - - - - cervical artery Wikipedia:Transverse_cervical_artery @@ -474283,20 +474138,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004588 uberon UBERON:0012361 internal anal region - + - + EHDAA2 @@ -474317,7 +474172,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of an intestine. FMA:15697 intestinal muscularis propria @@ -474327,14 +474182,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012367 muscle layer of intestine - + - + FMA @@ -474622,7 +474477,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -474644,7 +474499,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012429 hematopoietic tissue - + @@ -474657,7 +474512,7 @@ Classes for population already exist in IDO ('organism population', I - + defitional @@ -474802,7 +474657,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -474819,14 +474674,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012463 cloacal lumen - + - + cjm @@ -475016,20 +474871,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004589 uberon UBERON:0012469 external anal region - + - + EHDAA2 @@ -475056,7 +474911,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -475076,14 +474931,14 @@ Classes for population already exist in IDO ('organism population', I skeleton of pectoral complex - + - + FMA @@ -475152,7 +475007,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -475172,14 +475027,14 @@ Classes for population already exist in IDO ('organism population', I skeleton of pelvic complex - + - + FMA @@ -476036,7 +475891,7 @@ Classes for population already exist in IDO ('organism population', I - + A vein that drains a lip. SCTID:367664002 labial vein of face @@ -476047,14 +475902,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013136 vein of lip - + - + FMA @@ -476190,9 +476045,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0000033 EMAPA:16384 endoderm of mandibular component @@ -476200,34 +476055,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013156 1st arch mandibular endoderm - + - + - + - + EHDAA2 - + EHDAA2 - + EHDAA2 @@ -476342,7 +476197,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -476366,14 +476221,14 @@ Classes for population already exist in IDO ('organism population', I cranial cavity http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg - + - + Wikipedia @@ -476669,7 +476524,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -476686,14 +476541,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013525 stomach lumen - + - + FMA @@ -476744,7 +476599,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a intestinal villus. FMA:63587 intestinal villus epithelium @@ -476754,14 +476609,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013636 epithelium of intestinal villus - + - + FMA @@ -477621,7 +477476,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -477639,14 +477494,14 @@ Classes for population already exist in IDO ('organism population', I paired anteriolateral division of the embryonic prosencephalon plus the lamina terminalis from which the olfactory lobes, cerebral cortex, and subcortical nuclei are derived[MP] future telencephalon - + - + definitional @@ -478226,6 +478081,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum. + EHDAA2:0002013 FMA:77169 Wikipedia:Thoracic_skeleton @@ -478234,6 +478090,7 @@ Classes for population already exist in IDO ('organism population', I thoracic skeleton uberon UBERON:0014477 + thoracic skeleton @@ -478405,6 +478262,7 @@ Classes for population already exist in IDO ('organism population', I A ventral horn of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:1410 SCTID:367876000 UMLS:C0228632 @@ -478413,6 +478271,7 @@ Classes for population already exist in IDO ('organism population', I uberon thoracic spinal cord anterior horn UBERON:0014610 + thoracic spinal cord ventral horn @@ -478471,12 +478330,14 @@ Classes for population already exist in IDO ('organism population', I A gray matter of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1521 SCTID:362438009 UMLS:C0228610 cervical spinal cord gray matter uberon UBERON:0014613 + cervical spinal cord gray matter @@ -478523,12 +478384,14 @@ Classes for population already exist in IDO ('organism population', I A white matter of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1531 SCTID:174829001 UMLS:C0228616 cervical spinal cord white matter uberon UBERON:0014614 + cervical spinal cord white matter @@ -478575,6 +478438,7 @@ Classes for population already exist in IDO ('organism population', I A ventral horn of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1680 SCTID:174363005 UMLS:C0228615 @@ -478583,6 +478447,7 @@ Classes for population already exist in IDO ('organism population', I uberon cervical spinal cord anterior horn UBERON:0014621 + cervical spinal cord ventral horn @@ -478641,12 +478506,14 @@ Classes for population already exist in IDO ('organism population', I A gray matter of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:980 SCTID:362441000 UMLS:C0228627 thoracic spinal cord gray matter uberon UBERON:0014636 + thoracic spinal cord gray matter @@ -478693,6 +478560,7 @@ Classes for population already exist in IDO ('organism population', I A white matter of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:999 SCTID:367881009 UMLS:C0228633 @@ -478700,6 +478568,7 @@ Classes for population already exist in IDO ('organism population', I thoracic spinal cord white matter uberon UBERON:0014637 + thoracic spinal cord white matter @@ -478856,7 +478725,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -478871,14 +478740,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0014704 pleuroperitoneal canal lumen - + - + EHDAA2 @@ -478920,7 +478789,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a median lingual swelling. EHDAA2:0001085 EMAPA:17188 @@ -478929,7 +478798,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0014705 median lingual swelling epithelium - + @@ -478942,7 +478811,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -479545,20 +479414,20 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pectoral appendage (forelimb or pectoral fin). uberon UBERON:0014794 pectoral appendage muscle - + - + prolog @@ -479585,20 +479454,20 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pelvic appendage (hindlimb or pelvic fin). uberon UBERON:0014795 pelvic appendage muscle - + - + prolog @@ -479667,6 +479536,10 @@ Classes for population already exist in IDO ('organism population', I + + + + @@ -479679,10 +479552,6 @@ Classes for population already exist in IDO ('organism population', I - - - - @@ -479693,6 +479562,12 @@ Classes for population already exist in IDO ('organism population', I + + + + + + @@ -479711,12 +479586,6 @@ Classes for population already exist in IDO ('organism population', I - - - - - - A muscle organ that consists of skeletal muscle tissue ensheathed in epimysium, that develops from myotome and that is innervated by some somatic motor neuron. Skeletal muscles are typically attached (via a tendon) to a bone but there are exceptions (e.g. intrinsic tongue muscles). skeletal muscle AAO:0011099 @@ -479801,7 +479670,7 @@ Classes for population already exist in IDO ('organism population', I - + One of the primary blood vessel sprouts that originate from the dorsal aorta and posterior cardinal vein and align dorsoventrally at the myotomal boundaries between somites. Blood vessels that connect the dorsal aorta or the posterior cardinal vein and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these don't have venous or arterial markers[ZFA:0001285, ZFIN:ZDB-PUB-030908-4]. EFO:0003664 @@ -479819,7 +479688,7 @@ Classes for population already exist in IDO ('organism population', I intersomitic vessel - + @@ -479832,7 +479701,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -479892,20 +479761,20 @@ Classes for population already exist in IDO ('organism population', I - + these layers primarily refer to the mammalian future neocortex uberon UBERON:0014950 layer of developing cerebral cortex - + - + EMAPA @@ -479915,7 +479784,7 @@ Classes for population already exist in IDO ('organism population', I - + consider merging into myocardial compact layer FMA:83105 perimysial connective tissue of subepicardium @@ -479924,14 +479793,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015128 subepicardial layer of epicardium - + - + FMA @@ -480030,7 +479899,7 @@ Classes for population already exist in IDO ('organism population', I - + A gland that is typically found in or near the orbital region, in or around either the medial or lateral canthi, and is typically associated with secretions onto the eyeball or associated ducts. Includes the Harderian, nictitans and lacrimal glands. the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104] the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648] @@ -480040,14 +479909,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015152 gland of ocular region - + - + inferred @@ -480558,7 +480427,7 @@ Classes for population already exist in IDO ('organism population', I - + A basement membrane of epithelium that is part of a respiratory system. EMAPA:37570 MA:0001815 @@ -480566,14 +480435,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015329 respiratory system basement membrane - + - + MA @@ -480634,7 +480503,7 @@ Classes for population already exist in IDO ('organism population', I - + The hepatic artery proper (also proper hepatic artery), arises from the common hepatic artery and runs alongside the portal vein and the common bile duct to form the portal triad. The hepatic artery proper gives off a small supraduodenal artery to the duodenal bulb. Then the right gastric artery comes off and runs to the left along the lesser curvature of the stomach to meet the left gastric artery, which is a branch of the celiac trunk. It subsequently gives off the cystic artery, which feeds the gallbladder, before bifurcating into the right and left hepatic arteries. Of note, the right and left hepatic arteries may demonstrate variant anatomy. A replaced right hepatic artery may arise from the superior mesenteric artery (SMA) and a replaced left hepatic artery may arise from the left gastric artery. EMAPA:37217 @@ -480649,7 +480518,7 @@ Classes for population already exist in IDO ('organism population', I proper hepatic artery - + @@ -480662,7 +480531,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -480699,7 +480568,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480708,7 +480577,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480728,14 +480597,14 @@ Classes for population already exist in IDO ('organism population', I left hepatic artery - + - + FMA @@ -480780,7 +480649,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480789,7 +480658,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480809,14 +480678,14 @@ Classes for population already exist in IDO ('organism population', I right hepatic artery - + - + FMA @@ -481178,7 +481047,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a duodenum. EMAPA:27255 @@ -481192,14 +481061,14 @@ Classes for population already exist in IDO ('organism population', I duodenum lamina propria - + - + FMA @@ -481280,7 +481149,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -481295,7 +481164,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482210,7 +482079,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482233,7 +482102,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0016887 entire extraembryonic component - + @@ -482246,7 +482115,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -482798,7 +482667,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482814,14 +482683,14 @@ Classes for population already exist in IDO ('organism population', I skeletal musculature - + - + MA @@ -482961,7 +482830,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482976,7 +482845,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -484692,7 +484561,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -484706,14 +484575,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0034710 spinal cord ventricular layer - + - + EHDAA2 @@ -484768,12 +484637,14 @@ Classes for population already exist in IDO ('organism population', I Any of the cranial nerves, or their central nervous system analogs (the optic tract, the epiphyseal tract). These analogs are not true nerves, and are instead evaginated sensory afferents emanating from the brain. + uberon cranial nerve fiber bundle cranial nerve fiber tract cranial nerve or tract neuron projection bundle from brain UBERON:0034713 + cranial neuron projection bundle @@ -486222,7 +486093,7 @@ Classes for population already exist in IDO ('organism population', I - + Any of several arteries that arise from the aorta and supply blood to the esophagus. FMA:4149 @@ -486236,7 +486107,7 @@ Classes for population already exist in IDO ('organism population', I esophageal artery - + @@ -486249,7 +486120,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -486624,7 +486495,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -486672,11 +486543,6 @@ Classes for population already exist in IDO ('organism population', I accessory visual structures FMA:76554 - - - - - accessory visual structures Wikipedia:Accessory_visual_structures @@ -486766,7 +486632,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -486782,14 +486648,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0035763 cavity of cardiac chamber - + - + FMA @@ -487269,20 +487135,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004070 uberon UBERON:0036072 respiratory primordium epithelium - + - + EHDAA2 @@ -487309,21 +487175,21 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004071 respiratory primordium associated mesenchyme uberon UBERON:0036073 respiratory primordium mesenchyme - + - + EHDAA2 @@ -487774,7 +487640,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487782,7 +487648,7 @@ Classes for population already exist in IDO ('organism population', I - + Wall of ventricle which is continuous with the wall of aorta. FMA:9556 left ventricular wall @@ -487790,7 +487656,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036285 wall of left ventricle - + @@ -487803,7 +487669,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -487828,7 +487694,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487836,7 +487702,7 @@ Classes for population already exist in IDO ('organism population', I - + Wall of ventricle which is continuous with the wall of pulmonary trunk. FMA:9533 right ventricular wall @@ -487844,7 +487710,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036286 wall of right ventricle - + @@ -487857,7 +487723,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -487890,7 +487756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487902,14 +487768,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036288 anterior wall of left ventricle - + - + FMA @@ -488144,7 +488010,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488152,21 +488018,21 @@ Classes for population already exist in IDO ('organism population', I - + FMA:14657 gallbladder wall uberon UBERON:0036343 wall of gallbladder - + - + FMA @@ -488185,7 +488051,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488193,14 +488059,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15089 brachiocephalic arterial wall uberon UBERON:0036351 wall of brachiocephalic artery - + @@ -488213,7 +488079,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488232,7 +488098,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488240,14 +488106,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15090 subclavian arterial wall uberon UBERON:0036352 wall of subclavian artery - + @@ -488260,7 +488126,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488279,7 +488145,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488291,21 +488157,21 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15704 anal canal wall uberon UBERON:0036362 wall of anal canal - + - + FMA @@ -488324,7 +488190,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488332,7 +488198,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA:18211 pulmonary arterial wall @@ -488341,7 +488207,7 @@ Classes for population already exist in IDO ('organism population', I wall of pulmonary artery - + @@ -488354,7 +488220,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488373,7 +488239,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488382,7 +488248,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA:18303 uterine tube wall wall of fallopian tube @@ -488391,7 +488257,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036441 wall of uterine tube - + @@ -488404,7 +488270,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488435,7 +488301,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488444,13 +488310,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA:231590 uberon UBERON:0036553 wall of synovial tendon sheath - + @@ -488463,7 +488329,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488476,7 +488342,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488484,14 +488350,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:58098 eyeball wall uberon UBERON:0036925 wall of eyeball - + @@ -488504,7 +488370,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488523,7 +488389,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488531,14 +488397,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:66284 common carotid arterial wall uberon UBERON:0037094 wall of common carotid artery - + @@ -488551,7 +488417,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488570,7 +488436,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488578,9 +488444,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + Wall of organ which has as its parts the endocardium, myocardium , epicardium, and the cardiac septum, surrounded by the pericardial sac proper and is continuous with the walls of the systemic and pulmonary arterial and venous trees. FMA:7274 cardiac wall @@ -488588,15 +488454,15 @@ Classes for population already exist in IDO ('organism population', I UBERON:0037144 wall of heart - + - + - + @@ -488609,19 +488475,19 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA - + FMA @@ -488655,7 +488521,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488669,14 +488535,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0039222 cystic artery - + - + FMA Wikipedia @@ -488717,20 +488583,20 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15395 uberon UBERON:0039228 sigmoid vein - + - + FMA @@ -488792,14 +488658,14 @@ Classes for population already exist in IDO ('organism population', I - + Ovarian vein, each instance of which is a tributary of some inferior vena cava that drains the right pampiniform plexus of some broad ligament. FMA:14342 uberon UBERON:0039856 right ovarian vein - + @@ -488812,7 +488678,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -489010,7 +488876,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -489026,14 +488892,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:2001053 future internal carotid artery - + - + EHDAA2 @@ -489762,8 +489628,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A collection of Purkinje fibers that receives signals from the right and left bundle branches and innervates the ventricular cardiac muscle. The Purkinje fiber network creates synchronized contractions of the heart ventricles. Purkinje fibre network @@ -489771,11 +489637,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:8000009 Purkinje fiber network - + - + @@ -489790,7 +489656,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -489798,7 +489664,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -489998,7 +489864,7 @@ Classes for population already exist in IDO ('organism population', I Arteriole of villus of small intestine. - http://orcid.org/0000-0003-4183-8865/ + http://orcid.org/0000-0003-4183-8865 @@ -490109,7 +489975,7 @@ Classes for population already exist in IDO ('organism population', I An arteriole located in the colon. http://orcid.org/0000-0003-3440-1876 - http://orcid.org/0000-0003-4183-8865/ + http://orcid.org/0000-0003-4183-8865 @@ -490442,7 +490308,7 @@ Classes for population already exist in IDO ('organism population', I A submucosal gland found in a respiratory tract. - + 2022-03-24T14:21:59Z EFO:0010666 respiratory tract submucosal gland @@ -490593,7 +490459,7 @@ Classes for population already exist in IDO ('organism population', I Blood located in the placenta. - + 2022-04-04T11:06:09Z uberon UBERON:8470000 @@ -490626,7 +490492,7 @@ Classes for population already exist in IDO ('organism population', I A capillary that is part of the brain. - + 2022-06-24T09:28:31Z uberon UBERON:8480001 @@ -490663,7 +490529,7 @@ Classes for population already exist in IDO ('organism population', I A portion of smooth muscle tissue that is part of the thoracic aorta. - + 2022-06-24T09:30:54Z uberon UBERON:8480002 @@ -490702,7 +490568,7 @@ Classes for population already exist in IDO ('organism population', I An endothelium that is part of the placental artery. - + 2022-06-24T09:34:25Z uberon UBERON:8480005 @@ -490734,7 +490600,7 @@ Classes for population already exist in IDO ('organism population', I An artery that is part of the placenta. - + 2022-06-24T11:25:24Z uberon UBERON:8480007 @@ -490766,7 +490632,7 @@ Classes for population already exist in IDO ('organism population', I A vein that is part of the placenta. - + 2022-06-27T09:30:52Z uberon UBERON:8480008 @@ -490803,7 +490669,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is above the clavicle zone in the pectoral girdle region. - + 2022-08-29T14:17:12Z uberon UBERON:8480025 @@ -490840,7 +490706,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is above the iliac crest in the pelvic girdle bone/zone. - + 2022-08-29T14:19:16Z skin of posterior iliac crest region uberon @@ -490879,7 +490745,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is part of the external genitalia. - + 2022-08-30T06:55:06Z uberon UBERON:8480029 @@ -490917,7 +490783,7 @@ Classes for population already exist in IDO ('organism population', I Subserosa that is part of the uterine tube. It contains loose connective tissue, blood vessels and lymphatic tissue. - + 2022-10-21T08:55:11Z subserosa of fallopian tube subserosa of oviduct @@ -490947,6 +490813,72 @@ Classes for population already exist in IDO ('organism population', I + + + + + + + + + + + A muscle tissue that is associated with soft internal organs (viscera). + + 2023-02-16T10:17:46Z + visceral muscle + uberon + UBERON:8600004 + It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated. + visceral muscle tissue + + + + + A muscle tissue that is associated with soft internal organs (viscera). + BTO:0002780 + CLAO:0001295 + + + + + visceral muscle + BTO:0002780 + + + + + It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated. + FBbt:00005070 + https://en.wikipedia.org/wiki/Smooth_muscle + PMID:8720463 + + + + + + + + + + A striated muscle tissue that is associated with soft internal organs (viscera). + + 2023-02-16T10:34:43Z + striated visceral muscle tissue + uberon + UBERON:8600006 + visceral striated muscle tissue + + + + + A striated muscle tissue that is associated with soft internal organs (viscera). + PMID:8720463 + https://pressbooks.pub/rbtallitsch/chapter/chapter-6-muscle-tissue/ + + + + + + + + + @@ -531,6 +537,14 @@ + + + + + + + + @@ -675,6 +689,14 @@ + + + + + + + + @@ -1172,6 +1194,12 @@ + + + + + + @@ -1999,6 +2027,24 @@ A continuant cannot have an occurrent as part: use 'participates in'. + + + + http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y + lacks_part + + + + + + + + http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y) + lacks_plasma_membrane_part + + + + @@ -2395,7 +2441,7 @@ range: spatial region or site (immaterial continuant) a relation between a material entity and a 2D immaterial entity (the boundary), in which the boundary delimits the material entity A 2D boundary may have holes and gaps, but it must be a single connected entity, not an aggregate of several disconnected parts. Although the boundary is two-dimensional, it exists in three-dimensional space and thus has a 3D shape. - David Osumi-Sutherland + has boundary has_2D_boundary @@ -2417,7 +2463,7 @@ range: spatial region or site (immaterial continuant) - David Osumi-Sutherland + http://www.ncbi.nlm.nih.gov/pubmed/22402613 RO:0002005 uberon @@ -2434,7 +2480,7 @@ range: spatial region or site (immaterial continuant) - David Osumi-Sutherland + has synaptic terminal of @@ -2466,7 +2512,7 @@ range: spatial region or site (immaterial continuant) has_boundary: http://purl.obolibrary.org/obo/RO_0002002 boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - David Osumi-Sutherland + RO:0002007 external uberon @@ -2661,9 +2707,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 - - + David Osumi-Sutherland RO:0002082 uberon @@ -2721,6 +2766,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + David Osumi-Sutherland ends_at_start_of meets @@ -2748,7 +2794,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and an anatomical structure that its soma is part of. - David Osumi-Sutherland + <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0043025> and <http://purl.obolibrary.org/obo/BFO_0000050> some ?Y) @@ -2768,9 +2814,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and some structure its axon forms (chemical) synapses in. - Chris Mungall - David Osumi-Sutherland - David Osumi-Sutherland + + <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0030424> and <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0042734> and <http://purl.obolibrary.org/obo/BFO_0000050> some ( @@ -2782,6 +2827,39 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + + + + + + + + + + + + + + + + + + Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0045211> that part_of some (<http://purl.obolibrary.org/obo/GO_0045202> that has_part some (<http://purl.obolibrary.org/obo/GO_0042734> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) + + + RO:0002103 + uberon + synapsed_by + synapsed_by + synapsed by + synapsed by + + + + @@ -2789,9 +2867,9 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Every B cell[CL_0000236] has plasma membrane part some immunoglobulin complex[GO_0019814] Holds between a cell c and a protein complex or protein p if and only if that cell has as part a plasma_membrane[GO:0005886], and that plasma membrane has p as part. - Alexander Diehl - Chris Mungall - Lindsay Cowell + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0005886> and <http://purl.obolibrary.org/obo/BFO_0000051> some ?Y) @@ -2812,8 +2890,8 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a neuron and some structure (e.g.- a brain region) in which it receives (chemical) synaptic input. - Chris Mungall - David Osumi-Sutherland + + synapsed in http://purl.obolibrary.org/obo/BFO_0000051 some ( http://purl.org/obo/owl/GO#GO_0045211 and http://purl.obolibrary.org/obo/BFO_0000050 some ( @@ -2845,6 +2923,41 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 + + + + + + + + + + + + + + + + + Relation between a neuron and an anatomical structure (including cells) that it chemically synapses to. + + + + <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0042734> that part_of some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000051> some (<http://purl.obolibrary.org/obo/GO_0045211> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) + + + N1 synapsed_to some N2 +Expands to: +N1 SubclassOf ( + has_part some ( + ‘pre-synaptic membrane ; GO:0042734’ that part_of some ( + ‘synapse ; GO:0045202’ that has_part some ( + ‘post-synaptic membrane ; GO:0045211’ that part_of some N2)))) + synapsed to + + + + @@ -2856,7 +2969,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 A general relation between a neuron and some structure in which it either chemically synapses to some target or in which it receives (chemical) synaptic input. - David Osumi-Sutherland + has synapse in <http://purl.obolibrary.org/obo/RO_0002131> some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?) @@ -2925,7 +3038,7 @@ boundary_of: http://purl.obolibrary.org/obo/RO_0002000 Relation between a 'neuron projection bundle' and a region in which one or more of its component neuron projections either synapses to targets or receives synaptic input. T innervates some R Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - David Osumi-Sutherland + <http://purl.obolibrary.org/obo/RO_0002132> some (<http://purl.obolibrary.org/obo/GO_0043005> that (<http://purl.obolibrary.org/obo/RO_0002131> some (<http://purl.obolibrary.org/obo/GO_0045202> that <http://purl.obolibrary.org/obo/BFO_0000050> some Y?))) @@ -2948,7 +3061,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. X continuous_with Y if and only if X and Y share a fiat boundary. - David Osumi-Sutherland + connected to The label for this relation was previously connected to. I relabeled this to "continuous with". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint) @@ -2973,7 +3086,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.The original intent was to treat this as a macro that expands to 'in taxon' only ?Y - however, this is not necessary if we instead have supplemental axioms that state that each pair of sibling tax have a disjointness axiom using the 'in taxon' property - e.g. 'in taxon' some Eukaryota DisjointWith 'in taxon' some Eubacteria - Chris Mungall + RO:0002160 @@ -3076,8 +3189,8 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x is in taxon y if an only if y is an organism, and the relationship between x and y is one of: part of (reflexive), developmentally preceded by, derives from, secreted by, expressed. - Chris Mungall - Jennifer Deegan + + RO:0002162 @@ -3099,7 +3212,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A is spatially_disjoint_from B if and only if they have no parts in common There are two ways to encode this as a shortcut relation. The other possibility to use an annotation assertion between two classes, and expand this to a disjointness axiom. - Chris Mungall + Note that it would be possible to use the relation to label the relationship between a near infinite number of structures - between the rings of saturn and my left earlobe. The intent is that this is used for parsiomoniously for disambiguation purposes - for example, between siblings in a jointly exhaustive pairwise disjointness hierarchy BFO_0000051 exactly 0 (BFO_0000050 some ?Y) @@ -3274,10 +3387,10 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y - Chris Mungall - David Osumi-Sutherland - Melissa Haendel - Terry Meehan + + + + RO:0002202 uberon develops_from @@ -3298,9 +3411,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of develops from - Chris Mungall - David Osumi-Sutherland - Terry Meehan + + + develops into @@ -3314,12 +3427,12 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Candidate definition: x directly_develops from y if and only if there exists some developmental process (GO:0032502) p such that x and y both participate in p, and x is the output of p and y is the input of p, and a substantial portion of the matter of x comes from y, and the start of x is coincident with or after the end of y. - Chris Mungall - David Osumi-Sutherland - has developmental precursor + + FBbt RO:0002207 + has developmental precursor uberon directly_develops_from directly_develops_from @@ -3364,9 +3477,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. - Chris Mungall - David Hill - Tanya Berardini + + + GO Regulation precludes parthood; the regulatory process may not be within the regulated process. @@ -3396,7 +3509,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q. - Chris Mungall + negatively regulates (process to process) @@ -3429,7 +3542,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q. - Chris Mungall + positively regulates (process to process) @@ -3455,7 +3568,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974) osteoclast SubClassOf 'capable of' some 'bone resorption' A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process. - Chris Mungall + has function realized in @@ -3482,7 +3595,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p. - Chris Mungall + has function in RO:0002216 external @@ -3512,7 +3625,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x surrounded_by y if and only if (1) x is adjacent to y and for every region r that is adjacent to x, r overlaps y (2) the shared boundary between x and y occupies the majority of the outermost boundary of x - Chris Mungall + RO:0002219 uberon @@ -3537,7 +3650,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x adjacent to y if and only if x and y share a boundary. This relation acts as a join point with BSPO - Chris Mungall + RO:0002220 external @@ -3565,7 +3678,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of surrounded by - Chris Mungall + RO:0002221 uberon @@ -3584,7 +3697,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends. https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit?pli=1 @@ -3603,6 +3716,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of starts with + Chris Mungall Allen RO:0002223 @@ -3625,6 +3739,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.Every insulin receptor signaling pathway starts with the binding of a ligand to the insulin receptor x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. + Chris Mungall started by RO:0002224 @@ -3649,7 +3764,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops from part of y if and only if there exists some z such that x develops from z and z is part of y - Chris Mungall + RO:0002225 uberon develops_from_part_of @@ -3670,7 +3785,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x develops_in y if x is located in y whilst x is developing - Chris Mungall + EHDAA2 Jonathan Bard, EHDAA2 RO:0002226 @@ -3691,6 +3806,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of ends with + Chris Mungall RO:0002229 uberon @@ -3711,6 +3827,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. + Chris Mungall finished by RO:0002230 @@ -3737,7 +3854,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x 'has starts location' y if and only if there exists some process z such that x 'starts with' z and z 'occurs in' y - Chris Mungall + starts with process that occurs in RO:0002231 external @@ -3762,7 +3879,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x 'has end location' y if and only if there exists some process z such that x 'ends with' z and z 'occurs in' y - Chris Mungall + ends with process that occurs in RO:0002232 external @@ -3787,7 +3904,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p. - Chris Mungall + consumes RO:0002233 external @@ -3814,7 +3931,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p. - Chris Mungall + produces RO:0002234 external @@ -3842,7 +3959,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong] x has developmental contribution from y iff x has some part z such that z develops from y - Chris Mungall + RO:0002254 uberon has_developmental_contribution_from @@ -3864,7 +3981,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has developmental contribution from - Chris Mungall + developmentally contributes to @@ -3878,9 +3995,9 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. t1 induced_by t2 if there is a process of developmental induction (GO:0031128) with t1 and t2 as interacting participants. t2 causes t1 to change its fate from a precursor material anatomical entity type T to T', where T' develops_from T - Chris Mungall - David Osumi-Sutherland - Melissa Haendel + + + induced by Developmental Biology, Gilbert, 8th edition, figure 6.5(F) @@ -3903,7 +4020,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Inverse of developmentally induced by - Chris Mungall + developmentally induces @@ -3919,7 +4036,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p false - Chris Mungall + In general you should not use this relation to make assertions - use one of the more specific relations below this one This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from developmentally preceded by @@ -3969,7 +4086,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x developmentally replaces y if and only if there is some developmental process that causes x to move or to cease to exist, and for the site that was occupied by x to become occupied by y, where y either comes into existence in this site or moves to this site from somewhere else This relation is intended for cases such as when we have a bone element replacing its cartilage element precursor. Currently most AOs represent this using 'develops from'. We need to decide whether 'develops from' will be generic and encompass replacement, or whether we need a new name for a generic relation that encompasses replacement and development-via-cell-lineage - Chris Mungall + replaces RO:0002285 uberon @@ -3987,7 +4104,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Inverse of developmentally preceded by - Chris Mungall + developmentally succeeded by @@ -4003,7 +4120,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'hypopharyngeal eminence' SubClassOf 'part of precursor of' some tongue - Chris Mungall + part of developmental precursor of @@ -4017,7 +4134,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p results in the developmental progression of s iff p is a developmental process and s is an anatomical entity and p causes s to undergo a change in state at some point along its natural developmental cycle (this cycle starts with its formation, through the mature structure, and ends with its loss). This property and its subproperties are being used primarily for the definition of GO developmental processes. The property hierarchy mirrors the core GO hierarchy. In future we may be able to make do with a more minimal set of properties, but due to the way GO is currently structured we require highly specific relations to avoid incorrect entailments. To avoid this, the corresponding genus terms in GO should be declared mutually disjoint. - Chris Mungall + RO:0002295 external results_in_developmental_progression_of @@ -4037,7 +4154,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.every flower development (GO:0009908) results in development of some flower (PO:0009046) p 'results in development of' c if and only if p is a developmental process and p results in the state of c changing from its initial state as a primordium or anlage through its mature state and to its final state. - Chris Mungall + http://www.geneontology.org/GO.doc.development.shtml RO:0002296 external @@ -4061,7 +4178,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.an annotation of gene X to anatomical structure formation with results_in_formation_of UBERON:0000007 (pituitary gland) means that at the beginning of the process a pituitary gland does not exist and at the end of the process a pituitary gland exists. every "endocardial cushion formation" (GO:0003272) results_in_formation_of some "endocardial cushion" (UBERON:0002062) - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002297 external @@ -4085,7 +4202,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.tongue morphogenesis (GO:0043587) results in morphogenesis of tongue (UBERON:0001723) The relationship that links an entity with the process that results in the formation and shaping of that entity over time from an immature to a mature state. - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002298 external @@ -4109,7 +4226,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.bone maturation (GO:0070977) results_in_maturation_of bone (UBERON:0001474) The relationship that links an entity with a process that results in the progression of the entity over time that is independent of changes in it's shape and results in an end point state of that entity. - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002299 external @@ -4131,7 +4248,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q. - cjm + RO:0002304 external causally_upstream_of,_positive_effect @@ -4151,7 +4268,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q. - cjm + RO:0002305 external causally_upstream_of,_negative_effect @@ -4177,7 +4294,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w. Because part_of is transitive, inheres in is a sub-relation of characteristic of part of - Chris Mungall + inheres in part of @@ -4203,7 +4320,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. an annotation of gene X to cell differentiation with results_in_maturation_of CL:0000057 (fibroblast) means that at the end of the process the input cell that did not have features of a fibroblast, now has the features of a fibroblast. The relationship that links a specified entity with the process that results in an unspecified entity acquiring the features and characteristics of the specified entity - Chris Mungall + GOC:mtg_berkeley_2013 RO:0002315 external @@ -4222,7 +4339,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds via some environmental process - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the process of evolution. evolutionarily related to @@ -4234,7 +4351,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that is mediated in some way by the environment or environmental feature (ENVO:00002297) Awaiting class for domain/range constraint, see: https://github.com/OBOFoundry/Experimental-OBO-Core/issues/6 - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving ecological interactions ecologically related to @@ -4248,7 +4365,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. An experimental relation currently used to connect a feature possessed by an organism (e.g. anatomical structure, biological process, phenotype or quality) to a habitat or environment in which that feature is well suited, adapted or provides a reproductive advantage for the organism. For example, fins to an aquatic environment. Usually this will mean that the structure is adapted for this environment, but we avoid saying this directly - primitive forms of the structure may not have evolved specifically for that environment (for example, early wings were not necessarily adapted for an aerial environment). Note also that this is a statement about the general class of structures - not every instance of a limb need confer an advantage for a terrestrial environment, e.g. if the limb is vestigial. - Chris Mungall + adapted for RO:0002322 uberon @@ -4265,7 +4382,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A mereological relationship or a topological relationship - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships mereotopologically related to @@ -4277,7 +4394,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds between entities participating in some developmental process (GO:0032502) - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development developmentally related to @@ -4299,7 +4416,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. a particular instances of akt-2 enables some instance of protein kinase activity c enables p iff c is capable of p and c acts to execute p. - Chris Mungall + catalyzes executes has @@ -4316,7 +4433,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities. - Chris Mungall + This is a grouping relation that collects relations used for the purpose of connecting structure and function RO:0002328 uberon @@ -4337,7 +4454,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. this relation holds between c and p when c is part of some c', and c' is capable of p. - Chris Mungall + false part of structure that is capable of @@ -4367,7 +4484,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. c involved_in p if and only if c enables some process p', and p' is part of p - Chris Mungall + actively involved in enables part of involved in @@ -4384,7 +4501,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. every cellular sphingolipid homeostasis process regulates_level_of some sphingolipid p regulates levels of c if p regulates some amount (PATO:0000070) of c - Chris Mungall + regulates levels of (process to entity) RO:0002332 @@ -4403,7 +4520,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of enables - Chris Mungall + enabled by @@ -4418,7 +4535,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of regulates - Chris Mungall + regulated by (processual) RO:0002334 external @@ -4436,7 +4553,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of negatively regulates - Chris Mungall + RO:0002335 external negatively_regulated_by @@ -4453,7 +4570,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of positively regulates - Chris Mungall + RO:0002336 external positively_regulated_by @@ -4471,7 +4588,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds via some process of localization - Chris Mungall + Do not use this relation directly. It is a grouping relation. related via localization to @@ -4487,7 +4604,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from some initial location l to some destination. - Chris Mungall + RO:0002338 external has_target_start_location @@ -4510,7 +4627,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. This relationship holds between p and l when p is a transport or localization process in which the outcome is to move some cargo c from a an initial location to some destination l. - Chris Mungall + RO:0002339 external has_target_end_location @@ -4529,7 +4646,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Holds between p and l when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that is aligned_with l - Chris Mungall + RO:0002341 external results_in_transport_along @@ -4546,7 +4663,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. Holds between p and m when p is a transportation or localization process and the outcome of this process is to move c from one location to another, and the route taken by c follows a path that crosses m. - Chris Mungall + RO:0002342 external results_in_transport_across @@ -4564,7 +4681,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'pollen tube growth' results_in growth_of some 'pollen tube' - Chris Mungall + RO:0002343 external results_in_growth_of @@ -4580,7 +4697,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. 'mitochondrial transport' results_in_transport_to_from_or_in some mitochondrion (GO:0005739) - Chris Mungall + RO:0002344 external results_in_transport_to_from_or_in @@ -4631,7 +4748,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has input - Chris Mungall + RO:0002352 uberon input_of @@ -4650,7 +4767,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of has output - Chris Mungall + RO:0002353 external uberon @@ -4668,7 +4785,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + formed as result of @@ -4681,7 +4798,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. a is attached to b if and only if a and b are discrete objects or object parts, and there are physical connections between a and b such that a force pulling a will move b, or a force pulling b will move a - Chris Mungall + attached to (anatomical structure to anatomical structure) RO:0002371 uberon @@ -4700,7 +4817,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. m has_muscle_origin s iff m is attached_to s, and it is the case that when m contracts, s does not move. The site of the origin tends to be more proximal and have greater mass than what the other end attaches to. - Chris Mungall + Wikipedia:Insertion_(anatomy) RO:0002372 uberon @@ -4719,7 +4836,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. m has_muscle_insertion s iff m is attaches_to s, and it is the case that when m contracts, s moves. Insertions are usually connections of muscle via tendon to bone. - Chris Mungall + Wikipedia:Insertion_(anatomy) RO:0002373 uberon @@ -4740,7 +4857,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A relationship that holds between two material entities in a system of connected structures, where the branching relationship holds based on properties of the connecting network. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving branching relationships This relation can be used for geographic features (e.g. rivers) as well as anatomical structures (plant branches and roots, leaf veins, animal veins, arteries, nerves) @@ -4760,7 +4877,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R.inferior epigastric vein tributary_of external iliac vein x tributary_of y if and only if x a channel for the flow of a substance into y, where y is larger than x. If x and y are hydrographic features, then y is the main stem of a river, or a lake or bay, but not the sea or ocean. If x and y are anatomical, then y is a vein. - Chris Mungall + drains into drains to tributary channel of @@ -4792,7 +4909,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. A lump of clay and a statue x spatially_coextensive_with y if and inly if x and y have the same location - Chris Mungall + This relation is added for formal completeness. It is unlikely to be used in many practical scenarios spatially coextensive with @@ -4813,7 +4930,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. In the tree T depicted in https://oborel.github.io/obo-relations/branching_part_of.png, B1 is a (direct) branching part of T. B1-1, B1-2, and B1-3 are also branching parts of T, but these are considered indirect branching parts as they do not directly connect to the main stem S x is a branching part of y if and only if x is part of y and x is connected directly or indirectly to the main stem of y - Chris Mungall + RO:0002380 uberon branching_part_of @@ -4833,7 +4950,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction). - Chris Mungall + has developmental potential involving @@ -4845,7 +4962,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y - Chris Mungall + RO:0002385 uberon has_potential_to_developmentally_contribute_to @@ -4862,7 +4979,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to developmentally induce y iff x developmentally induces y or x is capable of developmentally inducing y - Chris Mungall + has potential to developmentally induce @@ -4874,7 +4991,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has the potential to develop into y iff x develops into y or if x is capable of developing into y - Chris Mungall + RO:0002387 uberon has_potential_to_develop_into @@ -4891,7 +5008,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y - Chris Mungall + has potential to directly develop into @@ -4905,7 +5022,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. inverse of upstream of - Chris Mungall + RO:0002404 external causally_downstream_of @@ -4923,7 +5040,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. - Chris Mungall + RO:0002405 external immediately_causally_downstream_of @@ -4957,7 +5074,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. - Chris Mungall + indirectly activates indirectly positively regulates @@ -4984,7 +5101,7 @@ Expands_to: T has_fasciculating_neuron_projection that synapse_in some R. p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. - Chris Mungall + indirectly inhibits indirectly negatively regulates @@ -5011,7 +5128,7 @@ For the second, we consider a relationship to be regulatory if the system in whi For the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral. Each of these 3 primitives can be composed to yield a cross-product of different relation types. - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causally related to @@ -5031,7 +5148,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q. - Chris Mungall + RO:0002411 external causally_upstream_of @@ -5050,7 +5167,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. - Chris Mungall + RO:0002412 external @@ -5070,7 +5187,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q. We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2 - Chris Mungall + influences (processual) RO:0002418 external @@ -5088,7 +5205,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different inverse of causally upstream of or within - Chris Mungall + RO:0002427 external @@ -5114,7 +5231,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' regulates some p - Chris Mungall + involved in regulation of @@ -5133,7 +5250,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' positively regulates some p - Chris Mungall + involved in positive regulation of @@ -5153,7 +5270,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in regulation of p if c is involved in some p' and p' negatively regulates some p - Chris Mungall + involved in negative regulation of @@ -5168,7 +5285,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p OWL does not allow defining object properties via a Union - Chris Mungall + involved in or reguates involved in or involved in regulation of @@ -5186,7 +5303,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different A protein that enables activity in a cytosol. c executes activity in d if and only if c enables p and p occurs_in d. Assuming no action at a distance by gene products, if a gene product enables (is capable of) a process that occurs in some structure, it must have at least some part in that structure. - Chris Mungall + executes activity in enables activity in @@ -5216,7 +5333,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different p contributes to morphology of w if and only if a change in the morphology of p entails a change in the morphology of w. Examples: every skull contributes to morphology of the head which it is a part of. Counter-example: nuclei do not generally contribute to the morphology of the cell they are part of, as they are buffered by cytoplasm. - Chris Mungall + RO:0002433 uberon contributes_to_morphology_of @@ -5235,7 +5352,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different A relationship that holds between two entities in which the processes executed by the two entities are causally connected. This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact. Considering relabeling as 'pairwise interacts with' - Chris Mungall + Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules. in pairwise interaction with @@ -5252,7 +5369,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. - Chris Mungall + binds molecularly binds with molecularly interacts with @@ -5267,7 +5384,7 @@ Each of these 3 primitives can be composed to yield a cross-product of different Axiomatization to GO to be added later - Chris Mungall + An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y. phosphorylates @@ -5289,8 +5406,8 @@ Each of these 3 primitives can be composed to yield a cross-product of different The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. - Chris Mungall - Vasundra Touré + + molecularly controls directly regulates activity of @@ -5310,8 +5427,8 @@ A and B can be physically interacting but not necessarily. Immediately upstream The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. - Chris Mungall - Vasundra Touré + + directly inhibits molecularly decreases activity of directly negatively regulates activity of @@ -5332,8 +5449,8 @@ For example, A and B may be gene products and binding of B by A negatively regul The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. - Chris Mungall - Vasundra Touré + + directly activates molecularly increases activity of directly positively regulates activity of @@ -5344,7 +5461,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + This property or its subproperties is not to be used directly. These properties exist as helper properties that are used to support OWL reasoning. helper property (not for use in curation) @@ -5359,7 +5476,7 @@ For example, A and B may be gene products and binding of B by A positively regul 'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate' x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y. - Chris Mungall + RO:0002473 @@ -5382,7 +5499,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has part that occurs in c if and only if there exists some p1, such that p has_part p1, and p1 occurs in c. - Chris Mungall + has part that occurs in @@ -5402,18 +5519,41 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + is kinase activity + + + + + + See notes for inverse relation + + receives input from + + + + + + + + + This is an exploratory relation. The label is taken from the FMA. It needs aligned with the neuron-specific relations such as has postsynaptic terminal in. + + sends output to + + + + - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage. relation between physical entity and a process or stage @@ -5430,7 +5570,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence starts during y if and only if the time point at which x starts is after or equivalent to the time point at which y starts and before or equivalent to the time point at which y ends. Formally: x existence starts during y iff α(x) >= α(y) & α(x) <= ω(y). - Chris Mungall + RO:0002488 uberon existence_starts_during @@ -5445,7 +5585,7 @@ For example, A and B may be gene products and binding of B by A positively regul x starts ends with y if and only if the time point at which x starts is equivalent to the time point at which y starts. Formally: x existence starts with y iff α(x) = α(y). - Chris Mungall + RO:0002489 uberon existence_starts_with @@ -5460,7 +5600,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y)) - Chris Mungall + The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription. existence overlaps @@ -5473,7 +5613,7 @@ For example, A and B may be gene products and binding of B by A positively regul x exists during y if and only if: 1) the time point at which x begins to exist is after or equal to the time point at which y begins and 2) the time point at which x ceases to exist is before or equal to the point at which y ends. Formally: x existence starts and ends during y iff α(x) >= α(y) & α(x) <= ω(y) & ω(x) <= ω(y) & ω(x) >= α(y) - Chris Mungall + RO:0002491 exists during uberon @@ -5496,7 +5636,7 @@ For example, A and B may be gene products and binding of B by A positively regul Relation between continuant c and occurrent s, such that every instance of c ceases to exist during some s, if it does not die prematurely. x existence ends during y if and only if the time point at which x ends is before or equivalent to the time point at which y ends and after or equivalent to the point at which y starts. Formally: x existence ends during y iff ω(x) <= ω(y) and ω(x) >= α(y). - Chris Mungall + RO:0002492 ceases_to_exist_during uberon @@ -5519,7 +5659,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence ends with y if and only if the time point at which x ends is equivalent to the time point at which y ends. Formally: x existence ends with y iff ω(x) = ω(y). - Chris Mungall + RO:0002493 uberon existence_ends_with @@ -5536,7 +5676,7 @@ For example, A and B may be gene products and binding of B by A positively regul x transformation of y if x is the immediate transformation of y, or is linked to y through a chain of transformation relationships - Chris Mungall + RO:0002494 uberon transformation_of @@ -5552,7 +5692,7 @@ For example, A and B may be gene products and binding of B by A positively regul x immediate transformation of y iff x immediately succeeds y temporally at a time boundary t, and all of the matter present in x at t is present in y at t, and all the matter in y at t is present in x at t - Chris Mungall + RO:0002495 uberon @@ -5588,7 +5728,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence starts during or after y if and only if the time point at which x starts is after or equivalent to the time point at which y starts. Formally: x existence starts during or after y iff α (x) >= α (y). - Chris Mungall + RO:0002496 uberon existence_starts_during_or_after @@ -5624,7 +5764,7 @@ For example, A and B may be gene products and binding of B by A positively regul x existence ends during or before y if and only if the time point at which x ends is before or equivalent to the time point at which y ends. - Chris Mungall + RO:0002497 uberon existence_ends_during_or_before @@ -5654,7 +5794,7 @@ For example, A and B may be gene products and binding of B by A positively regul p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between processes @@ -5665,7 +5805,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + depends on @@ -5678,7 +5818,7 @@ For example, A and B may be gene products and binding of B by A positively regul q towards e2 if and only if q is a relational quality such that q inheres-in some e, and e != e2 and q is dependent on e2 This relation is provided in order to support the use of relational qualities such as 'concentration of'; for example, the concentration of C in V is a quality that inheres in V, but pertains to C. - Chris Mungall + towards @@ -5692,7 +5832,7 @@ For example, A and B may be gene products and binding of B by A positively regul The intent is that the process branch of the causal property hierarchy is primary (causal relations hold between occurrents/processes), and that the material branch is defined in terms of the process branch - Chris Mungall + Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. causal relation between entities @@ -5711,7 +5851,7 @@ For example, A and B may be gene products and binding of B by A positively regul Forelimb SubClassOf has_skeleton some 'Forelimb skeleton' A relation between a segment or subdivision of an organism and the maximal subdivision of material entities that provides structural support for that segment or subdivision. - Chris Mungall + has supporting framework The skeleton of a structure may be a true skeleton (for example, the bony skeleton of a hand) or any kind of support framework (the hydrostatic skeleton of a sea star, the exoskeleton of an insect, the cytoskeleton of a cell). RO:0002551 @@ -5728,7 +5868,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + causally influenced by (entity-centric) causally influenced by @@ -5740,7 +5880,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + interaction relation helper property http://purl.obolibrary.org/obo/ro/docs/interaction-relations/ @@ -5752,7 +5892,7 @@ For example, A and B may be gene products and binding of B by A positively regul - Chris Mungall + molecular interaction relation helper property @@ -5763,7 +5903,7 @@ For example, A and B may be gene products and binding of B by A positively regul Holds between p and c when p is locomotion process and the outcome of this process is the change of location of c - Chris Mungall + RO:0002565 external @@ -5794,8 +5934,8 @@ For example, A and B may be gene products and binding of B by A positively regul The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). - Chris Mungall - Vasundra Touré + + causally influences (entity-centric) causally influences @@ -5808,7 +5948,7 @@ For example, A and B may be gene products and binding of B by A positively regul A relation that holds between elements of a musculoskeletal system or its analogs. - Chris Mungall + Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving the biomechanical processes. biomechanically related to @@ -5820,7 +5960,7 @@ For example, A and B may be gene products and binding of B by A positively regul m1 has_muscle_antagonist m2 iff m1 has_muscle_insertion s, m2 has_muscle_insection s, m1 acts in opposition to m2, and m2 is responsible for returning the structure to its initial position. - Chris Mungall + Wikipedia:Antagonist_(muscle) RO:0002568 uberon @@ -5838,7 +5978,7 @@ For example, A and B may be gene products and binding of B by A positively regul inverse of branching part of - Chris Mungall + RO:0002569 uberon has_branching_part @@ -5850,13 +5990,33 @@ For example, A and B may be gene products and binding of B by A positively regul + + + + + + + x is a conduit for y iff y overlaps through the lumen_of of x, and y has parts on either side of the lumen of x. + + UBERON:cjm + This relation holds between a thing with a 'conduit' (e.g. a bone foramen) and a 'conduee' (for example, a nerve) such that at the time the relationship holds, the conduee has two ends sticking out either end of the conduit. It should therefore note be used for objects that move through the conduit but whose spatial extent does not span the passage. For example, it would not be used for a mountain that contains a long tunnel through which trains pass. Nor would we use it for a digestive tract and objects such as food that pass through. + RO:0002570 + uberon + conduit_for + + conduit_for + conduit for + + + + x lumen_of y iff x is the space or substance that is part of y and does not cross any of the inner membranes or boundaries of y that is maximal with respect to the volume of the convex hull. - Chris Mungall + GOC:cjm RO:0002571 uberon @@ -5874,7 +6034,7 @@ For example, A and B may be gene products and binding of B by A positively regul s is luminal space of x iff s is lumen_of x and s is an immaterial entity - Chris Mungall + RO:0002572 uberon luminal_space_of @@ -5890,7 +6050,7 @@ For example, A and B may be gene products and binding of B by A positively regul inverse of has skeleton - Chris Mungall + RO:0002576 uberon skeleton_of @@ -5907,7 +6067,7 @@ For example, A and B may be gene products and binding of B by A positively regul p directly regulates q iff p is immediately causally upstream of q and p regulates q. - Chris Mungall + directly regulates (processual) @@ -5934,7 +6094,7 @@ For example, A and B may be gene products and binding of B by A positively regul gland SubClassOf 'has part structure that is capable of' some 'secretion by cell' s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p - Chris Mungall + has part structure that is capable of @@ -6004,7 +6164,7 @@ For example, A and B may be gene products and binding of B by A positively regul A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect. - Chris Mungall + causal relation between material entity and a process @@ -6139,7 +6299,7 @@ For example, A and B may be gene products and binding of B by A positively regul a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix. - Melissa Haendel + RO:0003000 external uberon @@ -6160,7 +6320,7 @@ For example, A and B may be gene products and binding of B by A positively regul a produced_by b iff some process that occurs_in b has_output a. - Melissa Haendel + RO:0003001 external uberon @@ -6178,7 +6338,7 @@ For example, A and B may be gene products and binding of B by A positively regul p 'has primary input ot output' c iff either (a) p 'has primary input' c or (b) p 'has primary output' c. - cjm + 2018-12-13T11:26:17Z RO:0004007 external @@ -6196,7 +6356,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has primary output c if (a) p has output c and (b) the goal of process is to modify, produce, or transform c. - cjm + 2018-12-13T11:26:32Z RO:0004008 external @@ -6224,7 +6384,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has primary input c if (a) p has input c and (b) the goal of process is to modify, consume, or transform c. - cjm + 2018-12-13T11:26:56Z RO:0004009 external @@ -6255,7 +6415,7 @@ For example, A and B may be gene products and binding of B by A positively regul Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. - cjm + 2018-01-25T23:20:13Z enables subfunction @@ -6271,7 +6431,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-01-26T23:49:30Z acts upstream of or within, positive effect @@ -6289,7 +6449,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-01-26T23:49:51Z acts upstream of or within, negative effect @@ -6308,7 +6468,7 @@ For example, A and B may be gene products and binding of B by A positively regul c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive - cjm + 2018-01-26T23:53:14Z acts upstream of, positive effect @@ -6328,7 +6488,7 @@ For example, A and B may be gene products and binding of B by A positively regul c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative - cjm + 2018-01-26T23:53:22Z acts upstream of, negative effect @@ -6342,7 +6502,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-03-13T23:55:05Z causally upstream of or within, negative effect @@ -6354,7 +6514,7 @@ For example, A and B may be gene products and binding of B by A positively regul - cjm + 2018-03-13T23:55:19Z causally upstream of or within, positive effect @@ -6368,7 +6528,7 @@ For example, A and B may be gene products and binding of B by A positively regul The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. - Vasundra Touré + regulates activity of @@ -6597,8 +6757,8 @@ For example, A and B may be gene products and binding of B by A positively regul A diagnostic testing device utilizes a specimen. X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. - https://orcid.org/0000-0001-9625-1899 - https://orcid.org/0000-0003-2620-0345 + + A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input. See github ticket https://github.com/oborel/obo-relations/issues/497 2021-11-08T12:00:00Z @@ -6676,7 +6836,7 @@ For example, A and B may be gene products and binding of B by A positively regul p has anatomical participant c iff p has participant c, and c is an anatomical entity - cjm + 2018-09-26T01:08:58Z RO:0040036 external @@ -6729,24 +6889,6 @@ For example, A and B may be gene products and binding of B by A positively regul - - - - http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 ?Y - lacks_part - - - - - - - - http://purl.obolibrary.org/obo/BFO_0000051 exactly 0 (http://purl.obolibrary.org/obo/GO_0005886 and http://purl.obolibrary.org/obo/BFO_0000051 some ?Y) - lacks_plasma_membrane_part - - - - @@ -7152,17 +7294,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - x is a conduit for y iff y passes through the lumen of x. - uberon - conduit_for - conduit for - - - - @@ -7308,17 +7439,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - Relation between an anatomical structure (including cells) and a neuron that chemically synapses to it. - uberon - synapsed_by - synapsed by - - - - @@ -9076,6 +9196,164 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An optically active form of glutamic acid having D-configuration. + 0 + C5H9NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-N + 147.12930 + 147.05316 + N[C@H](CCC(O)=O)C(O)=O + CHEBI:21023 + CHEBI:4183 + Beilstein:1723800 + CAS:6893-26-1 + DrugBank:DB02517 + Gmelin:201189 + HMDB:HMDB0003339 + KEGG:C00217 + KNApSAcK:C00019577 + MetaCyc:D-GLT + PDBeChem:DGL + Reaxys:1723800 + (2R)-2-aminopentanedioic acid + D-Glutamic acid + D-glutamic acid + chebi_ontology + (R)-2-aminopentanedioic acid + D-2-Aminoglutaric acid + D-Glutaminic acid + D-Glutaminsaeure + DGL + glutamic acid D-form + CHEBI:15966 + + D-glutamic acid + + + + + Beilstein:1723800 + Beilstein + + + + + CAS:6893-26-1 + ChemIDplus + + + + + CAS:6893-26-1 + KEGG COMPOUND + + + + + CAS:6893-26-1 + NIST Chemistry WebBook + + + + + Gmelin:201189 + Gmelin + + + + + Reaxys:1723800 + Reaxys + + + + + (2R)-2-aminopentanedioic acid + IUPAC + + + + + + D-Glutamic acid + KEGG_COMPOUND + + + + + D-glutamic acid + IUPAC + + + + + + (R)-2-aminopentanedioic acid + ChEBI + + + + + D-2-Aminoglutaric acid + KEGG_COMPOUND + + + + + D-Glutaminic acid + KEGG_COMPOUND + + + + + D-Glutaminsaeure + ChEBI + + + + + DGL + PDBeChem + + + + + glutamic acid D-form + ChemIDplus + + + + @@ -9116,6 +9394,302 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An optically active form of glutamic acid having L-configuration. + 0 + C5H9NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-N + 147.12930 + 147.05316 + N[C@@H](CCC(O)=O)C(O)=O + CHEBI:21304 + CHEBI:42825 + CHEBI:6224 + BPDB:2297 + Beilstein:1723801 + CAS:56-86-0 + DrugBank:DB00142 + Drug_Central:1310 + Gmelin:3502 + HMDB:HMDB0000148 + KEGG:C00025 + KEGG:D00007 + KNApSAcK:C00001358 + LINCS:LSM-36375 + MetaCyc:GLT + PDBeChem:GLU_LFOH + PMID:15739367 + PMID:15930465 + PMID:16719819 + PMID:16892196 + PMID:19581495 + PMID:22219301 + PMID:22735334 + Reaxys:1723801 + Wikipedia:L-Glutamic_Acid + (2S)-2-aminopentanedioic acid + L-Glutamic acid + L-glutamic acid + chebi_ontology + (S)-2-aminopentanedioic acid + (S)-glutamic acid + E + GLUTAMIC ACID + Glu + Glutamate + L-Glu + L-Glutaminic acid + L-Glutaminsaeure + acide glutamique + acido glutamico + acidum glutamicum + glutamic acid + CHEBI:16015 + + L-glutamic acid + + + + + Beilstein:1723801 + Beilstein + + + + + CAS:56-86-0 + ChemIDplus + + + + + CAS:56-86-0 + KEGG COMPOUND + + + + + CAS:56-86-0 + NIST Chemistry WebBook + + + + + Drug_Central:1310 + DrugCentral + + + + + Gmelin:3502 + Gmelin + + + + + PMID:15739367 + Europe PMC + + + + + PMID:15930465 + Europe PMC + + + + + PMID:16719819 + Europe PMC + + + + + PMID:16892196 + Europe PMC + + + + + PMID:19581495 + Europe PMC + + + + + PMID:22219301 + Europe PMC + + + + + PMID:22735334 + Europe PMC + + + + + Reaxys:1723801 + Reaxys + + + + + (2S)-2-aminopentanedioic acid + IUPAC + + + + + + L-Glutamic acid + KEGG_COMPOUND + + + + + L-glutamic acid + IUPAC + + + + + + (S)-2-aminopentanedioic acid + ChEBI + + + + + (S)-glutamic acid + NIST_Chemistry_WebBook + + + + + E + ChEBI + + + + + GLUTAMIC ACID + PDBeChem + + + + + Glu + ChEBI + + + + + Glutamate + KEGG_COMPOUND + + + + + L-Glu + ChEBI + + + + + L-Glutaminic acid + KEGG_COMPOUND + + + + + L-Glutaminsaeure + ChEBI + + + + + acide glutamique + ChEBI + + + + + + acido glutamico + ChEBI + + + + + + acidum glutamicum + ChEBI + + + + + + glutamic acid + ChEBI + + + + + @@ -10402,6 +10976,69 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + 0 + C2H4NO2R + 74.05870 + 74.02420 + N[C@H]([*])C(O)=O + CHEBI:12909 + CHEBI:13625 + CHEBI:20906 + CHEBI:4097 + KEGG:C00405 + D-alpha-amino acid + D-alpha-amino acids + chebi_ontology + D-Amino acid + D-alpha-amino acids + CHEBI:16733 + + D-alpha-amino acid + + + + + D-alpha-amino acid + ChEBI + + + + + D-alpha-amino acids + IUPAC + + + + + + D-Amino acid + KEGG_COMPOUND + + + + + D-alpha-amino acids + ChEBI + + + + @@ -10799,6 +11436,165 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + High molecular weight, linear polymers, composed of nucleotides containing deoxyribose and linked by phosphodiester bonds; DNA contain the genetic information of organisms. + CHEBI:13302 + CHEBI:21123 + CHEBI:33698 + CHEBI:4291 + CAS:9007-49-2 + KEGG:C00039 + Deoxyribonucleic acid + deoxyribonucleic acids + chebi_ontology + (Deoxyribonucleotide)m + (Deoxyribonucleotide)n + (Deoxyribonucleotide)n+m + DNA + DNAn + DNAn+1 + DNS + Desoxyribonukleinsaeure + deoxyribonucleic acids + desoxyribose nucleic acid + thymus nucleic acid + CHEBI:16991 + + deoxyribonucleic acid + + + + + CAS:9007-49-2 + ChemIDplus + + + + + CAS:9007-49-2 + KEGG COMPOUND + + + + + Deoxyribonucleic acid + KEGG_COMPOUND + + + + + deoxyribonucleic acids + IUPAC + + + + + + (Deoxyribonucleotide)m + KEGG_COMPOUND + + + + + (Deoxyribonucleotide)n + KEGG_COMPOUND + + + + + (Deoxyribonucleotide)n+m + KEGG_COMPOUND + + + + + DNA + IUPAC + + + + + DNA + KEGG_COMPOUND + + + + + DNA + UniProt + + + + + DNAn + KEGG_COMPOUND + + + + + DNAn+1 + KEGG_COMPOUND + + + + + DNS + ChEBI + + + + + Desoxyribonukleinsaeure + ChEBI + + + + + deoxyribonucleic acids + ChEBI + + + + + desoxyribose nucleic acid + ChemIDplus + + + + + thymus nucleic acid + ChEBI + + + + @@ -11036,6 +11832,55 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + Any substance that induces or promotes ferroptosis (a type of programmed cell death dependent on iron and characterized by the accumulation of lipid peroxides) in organisms. + PMID:31899616 + PMID:32015325 + PMID:33167414 + PMID:34012798 + Wikipedia:Ferroptosis + chebi_ontology + ferroptosis inducers + CHEBI:173085 + + ferroptosis inducer + + + + + PMID:31899616 + Europe PMC + + + + + PMID:32015325 + SUBMITTER + + + + + PMID:33167414 + Europe PMC + + + + + PMID:34012798 + Europe PMC + + + + + ferroptosis inducers + ChEBI + + + + @@ -12621,6 +13466,24 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual base + + + + Basen + ChEBI + + + + + Nucleobase + KEGG_COMPOUND + + + + + bases + ChEBI + @@ -12652,24 +13515,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual Base2 KEGG_COMPOUND - - - - Basen - ChEBI - - - - - Nucleobase - KEGG_COMPOUND - - - - - bases - ChEBI - @@ -13113,6 +13958,125 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of glutamate--ammonia ligase (EC 6.3.1.2). + Wikipedia:Glutamine_synthetase + chebi_ontology + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitors + EC 6.3.1.2 inhibitor + EC 6.3.1.2 inhibitors + L-glutamate:ammonia ligase (ADP-forming) inhibitor + L-glutamate:ammonia ligase (ADP-forming) inhibitors + L-glutamine synthetase inhibitor + L-glutamine synthetase inhibitors + glutamate--ammonia ligase (EC 6.3.1.2) inhibitor + glutamate--ammonia ligase (EC 6.3.1.2) inhibitors + glutamate--ammonia ligase inhibitor + glutamate--ammonia ligase inhibitors + glutamine synthetase inhibitor + glutamine synthetase inhibitors + glutamylhydroxamic synthetase inhibitor + glutamylhydroxamic synthetase inhibitors + CHEBI:24319 + + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitor + + + + + EC 6.3.1.2 (glutamate--ammonia ligase) inhibitors + ChEBI + + + + + EC 6.3.1.2 inhibitor + ChEBI + + + + + EC 6.3.1.2 inhibitors + ChEBI + + + + + L-glutamate:ammonia ligase (ADP-forming) inhibitor + ChEBI + + + + + L-glutamate:ammonia ligase (ADP-forming) inhibitors + ChEBI + + + + + L-glutamine synthetase inhibitor + ChEBI + + + + + L-glutamine synthetase inhibitors + ChEBI + + + + + glutamate--ammonia ligase (EC 6.3.1.2) inhibitor + ChEBI + + + + + glutamate--ammonia ligase (EC 6.3.1.2) inhibitors + ChEBI + + + + + glutamate--ammonia ligase inhibitor + ChEBI + + + + + glutamate--ammonia ligase inhibitors + ChEBI + + + + + glutamine synthetase inhibitor + ChEBI + + + + + glutamine synthetase inhibitors + ChEBI + + + + + glutamylhydroxamic synthetase inhibitor + ChEBI + + + + + glutamylhydroxamic synthetase inhibitors + ChEBI + + + + @@ -13703,18 +14667,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual ion - - - - iones - ChEBI - - - - - ions - ChEBI - @@ -13740,6 +14692,18 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual Ionen ChEBI + + + + iones + ChEBI + + + + + ions + ChEBI + @@ -17332,6 +18296,213 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + An alpha-amino-acid anion that is the conjugate base of L-glutamic acid, having anionic carboxy groups and a cationic amino group + -1 + C5H8NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-M + 146.12136 + 146.04588 + [NH3+][C@@H](CCC([O-])=O)C([O-])=O + CHEBI:13107 + CHEBI:21301 + CAS:11070-68-1 + Gmelin:936654 + MetaCyc:GLT + L-glutamate(1-) + hydrogen L-glutamate + chebi_ontology + (2S)-2-ammoniopentanedioate + L-glutamate + L-glutamic acid monoanion + L-glutamic acid, ion(1-) + CHEBI:29985 + + L-glutamate(1-) + + + + + CAS:11070-68-1 + ChemIDplus + + + + + Gmelin:936654 + Gmelin + + + + + L-glutamate(1-) + JCBN + + + + + hydrogen L-glutamate + IUPAC + + + + + + (2S)-2-ammoniopentanedioate + IUPAC + + + + + L-glutamate + ChEBI + + + + + L-glutamate + UniProt + + + + + L-glutamic acid monoanion + JCBN + + + + + L-glutamic acid, ion(1-) + ChemIDplus + + + + + + + + + + + + + + + + + + + + + + + + + + + An alpha-amino-acid anion that is the conjugate base of D-glutamic acid, having anionic carboxy groups and a cationic amino group + -1 + C5H8NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-1/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-M + 146.12136 + 146.04588 + [NH3+][C@H](CCC([O-])=O)C([O-])=O + CHEBI:12979 + CHEBI:21022 + Beilstein:8319427 + MetaCyc:D-GLT + D-glutamate(1-) + hydrogen D-glutamate + chebi_ontology + (2R)-2-ammoniopentanedioate + D-glutamate + D-glutamic acid monoanion + CHEBI:29986 + + D-glutamate(1-) + + + + + Beilstein:8319427 + Beilstein + + + + + D-glutamate(1-) + JCBN + + + + + hydrogen D-glutamate + IUPAC + + + + + + (2R)-2-ammoniopentanedioate + IUPAC + + + + + D-glutamate + UniProt + + + + + D-glutamic acid monoanion + JCBN + + + + @@ -17415,6 +18586,151 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + + + + + + + + An L-alpha-amino acid anion that is the dianion obtained by the deprotonation of the both the carboxy groups of L-glutamic acid. + -2 + C5H7NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m0/s1 + WHUUTDBJXJRKMK-VKHMYHEASA-L + 145.11342 + 145.03860 + N[C@@H](CCC([O-])=O)C([O-])=O + Gmelin:327905 + (2S)-2-aminopentanedioate + L-glutamate + L-glutamate(2-) + chebi_ontology + L-glutamic acid dianion + CHEBI:29988 + + L-glutamate(2-) + + + + + Gmelin:327905 + Gmelin + + + + + (2S)-2-aminopentanedioate + IUPAC + + + + + + L-glutamate + IUPAC + + + + + + L-glutamate(2-) + JCBN + + + + + L-glutamic acid dianion + JCBN + + + + + + + + + + + + + + + + + + + + + -2 + C5H7NO4 + InChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/p-2/t3-/m1/s1 + WHUUTDBJXJRKMK-GSVOUGTGSA-L + 145.11342 + 145.03860 + N[C@H](CCC([O-])=O)C([O-])=O + Beilstein:8143000 + Gmelin:327904 + (2R)-2-aminopentanedioate + D-glutamate + D-glutamate(2-) + chebi_ontology + D-glutamic acid dianion + CHEBI:29989 + + D-glutamate(2-) + + + + + Beilstein:8143000 + Beilstein + + + + + Gmelin:327904 + Gmelin + + + + + (2R)-2-aminopentanedioate + IUPAC + + + + + + D-glutamate + IUPAC + + + + + + D-glutamate(2-) + JCBN + + + + + D-glutamic acid dianion + JCBN + + + + @@ -21148,6 +22464,60 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + chebi_ontology + canonical deoxyribonucleoside residues + common 2'-deoxyribonucleoside residue + common 2'-deoxyribonucleoside residues + dN + dNuc + standard deoxyribonucleoside residues + CHEBI:33793 + + canonical deoxyribonucleoside residue + + + + + canonical deoxyribonucleoside residues + ChEBI + + + + + common 2'-deoxyribonucleoside residue + CBN + + + + + common 2'-deoxyribonucleoside residues + CBN + + + + + dN + CBN + + + + + dNuc + CBN + + + + + standard deoxyribonucleoside residues + ChEBI + + + + @@ -25654,6 +27024,25 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + chebi_ontology + canonical deoxyribonucleotide residues + CHEBI:50298 + + canonical deoxyribonucleotide residue + + + + + canonical deoxyribonucleotide residues + ChEBI + + + + @@ -25858,6 +27247,40 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + A product in capsule, tablet or liquid form that provide essential nutrients, such as a vitamin, an essential mineral, a protein, an herb, or similar nutritional substance. + chebi_ontology + Dietary Supplement + Food Supplementation + Nutritional supplement + CHEBI:50733 + + nutraceutical + + + + + Dietary Supplement + ChEBI + + + + + Food Supplementation + ChEBI + + + + + Nutritional supplement + ChEBI + + + + @@ -26984,6 +28407,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + Zwitterionic form of a D-alpha-amino acid having an anionic carboxy group and a protonated amino group. + 0 + C2H4NO2R + 74.059 + 74.02420 + [NH3+][C@H]([*])C([O-])=O + chebi_ontology + D-alpha-amino acid zwitterions + a D-alpha-amino acid + CHEBI:59871 + + D-alpha-amino acid zwitterion + + + + + D-alpha-amino acid zwitterions + ChEBI + + + + + a D-alpha-amino acid + UniProt + + + + @@ -27139,6 +28600,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + + + + + + + Any alpha-amino acid anion in which the parent amino acid has D-configuration. + -1 + C2H3NO2R + 73.051 + 73.01638 + [C@@H](C(=O)[O-])(N)* + chebi_ontology + D-alpha-amino acid anions + D-alpha-amino carboxylate + CHEBI:60895 + + D-alpha-amino acid anion + + + + + D-alpha-amino acid anions + ChEBI + + + + + D-alpha-amino carboxylate + ChEBI + + + + @@ -28360,6 +29859,159 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + A ligase inhibitor that interferes with the action of a C-N bond-forming ligase (EC 6.3.*.*). + chebi_ontology + C--N bond-forming ligase inhibitor + C--N bond-forming ligase inhibitors + C-N bond-forming ligase (EC 6.3.*) inhibitor + C-N bond-forming ligase (EC 6.3.*) inhibitors + C-N bond-forming ligase inhibitor + C-N bond-forming ligase inhibitors + EC 6.3.* (C-N bond-forming ligase) inhibitorS + EC 6.3.* inhibitor + EC 6.3.* inhibitors + EC 6.3.*.* inhibitor + EC 6.3.*.* inhibitors + CHEBI:75600 + + EC 6.3.* (C-N bond-forming ligase) inhibitor + + + + + C--N bond-forming ligase inhibitor + ChEBI + + + + + C--N bond-forming ligase inhibitors + ChEBI + + + + + C-N bond-forming ligase (EC 6.3.*) inhibitor + ChEBI + + + + + C-N bond-forming ligase (EC 6.3.*) inhibitors + ChEBI + + + + + C-N bond-forming ligase inhibitor + ChEBI + + + + + C-N bond-forming ligase inhibitors + ChEBI + + + + + EC 6.3.* (C-N bond-forming ligase) inhibitorS + ChEBI + + + + + EC 6.3.* inhibitor + ChEBI + + + + + EC 6.3.* inhibitors + ChEBI + + + + + EC 6.3.*.* inhibitor + ChEBI + + + + + EC 6.3.*.* inhibitors + ChEBI + + + + + + + + + Any enzyme inhibitor that interferes with the action of a ligase (EC 6.*.*.*). Ligases are enzymes that catalyse the joining of two molecules with concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate. + Wikipedia:Ligase + chebi_ontology + EC 6.* (ligase) inhibitors + EC 6.* inhibitor + EC 6.* inhibitors + EC 6.*.*.* inhibitor + EC 6.*.*.* inhibitors + ligase inhibitor + ligase inhibitors + CHEBI:75603 + + EC 6.* (ligase) inhibitor + + + + + EC 6.* (ligase) inhibitors + ChEBI + + + + + EC 6.* inhibitor + ChEBI + + + + + EC 6.* inhibitors + ChEBI + + + + + EC 6.*.*.* inhibitor + ChEBI + + + + + EC 6.*.*.* inhibitors + ChEBI + + + + + ligase inhibitor + ChEBI + + + + + ligase inhibitors + ChEBI + + + + @@ -28770,6 +30422,54 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + An EC 6.3.* (C-N bond-forming ligase) inhibitor that interferes with the action of any acid-ammonia (or amine) ligase (EC 6.3.1.*). + chebi_ontology + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitors + EC 6.3.1.* inhibitor + EC 6.3.1.* inhibitors + acid-ammonia (or amine) ligase inhibitor + acid-ammonia (or amine) ligase inhibitors + CHEBI:76823 + + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitor + + + + + EC 6.3.1.* (acid-ammonia/amine ligase) inhibitors + ChEBI + + + + + EC 6.3.1.* inhibitor + ChEBI + + + + + EC 6.3.1.* inhibitors + ChEBI + + + + + acid-ammonia (or amine) ligase inhibitor + ChEBI + + + + + acid-ammonia (or amine) ligase inhibitors + ChEBI + + + + @@ -29428,6 +31128,132 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + + + + + Any amino-acid that is not naturally encoded in the genetic code of any organism. + Wikipedia:Non-proteinogenic_amino_acids + chebi_ontology + non-canonical amino acid + non-canonical amino acids + non-canonical amino-acid + non-canonical amino-acids + non-coded amino acid + non-coded amino acids + non-coded amino-acid + non-coded amino-acids + non-proteinogenic amino acids + non-proteinogenic amino-acid + non-proteinogenic amino-acids + CHEBI:83820 + + non-proteinogenic amino acid + + + + + non-canonical amino acid + ChEBI + + + + + non-canonical amino acids + ChEBI + + + + + non-canonical amino-acid + ChEBI + + + + + non-canonical amino-acids + ChEBI + + + + + non-coded amino acid + ChEBI + + + + + non-coded amino acids + ChEBI + + + + + non-coded amino-acid + ChEBI + + + + + non-coded amino-acids + ChEBI + + + + + non-proteinogenic amino acids + ChEBI + + + + + non-proteinogenic amino-acid + ChEBI + + + + + non-proteinogenic amino-acids + ChEBI + + + + + + + + + + Any alpha-amino acid which is not a member of the group of 23 proteinogenic amino acids. + chebi_ontology + non-proteinogenic alpha-amino acids + non-proteinogenic alpha-amino-acid + non-proteinogenic alpha-amino-acids + CHEBI:83925 + + non-proteinogenic alpha-amino acid + + + + + non-proteinogenic alpha-amino acids + ChEBI + + + + + non-proteinogenic alpha-amino-acid + ChEBI + + + + + non-proteinogenic alpha-amino-acids + ChEBI + + + + @@ -29465,6 +31291,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29639,6 +31466,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + A stem cell that is the precursor of gametes. germline stem cell germ line stem cell @@ -29654,6 +31482,12 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual true + + + + A stem cell that is the precursor of gametes. + doi:10.1016/j.stem.2012.05.016 + @@ -29717,6 +31551,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + A stem cell that is the precursor of female gametes. FBbt:00004873 female germ line stem cell @@ -29732,6 +31567,12 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual true + + + + A stem cell that is the precursor of female gametes. + doi:10.1016/j.stem.2012.05.016 + @@ -29787,6 +31628,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29822,6 +31664,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29939,6 +31782,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -29962,7 +31806,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A cell that will develop into a neuron often after a migration phase. - CL:0000337 BTO:0000930 FMA:70563 neuroblast @@ -30085,61 +31928,61 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -30148,88 +31991,88 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system. Hematopoietic stem cells lack cell markers of effector cells (lin-negative). Lin-negative is defined by lacking one or more of the following cell surface markers: CD2, CD3 epsilon, CD4, CD5 ,CD8 alpha chain, CD11b, CD14, CD19, CD20, CD56, ly6G, ter119. BTO:0000725 @@ -30242,6 +32085,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual blood forming stem cell hemopoietic stem cell colony forming unit hematopoietic + Markers differ between species, and two sets of markers have been described for mice. HSCs are reportedly CD34-positive, CD45-positive, CD48-negative, CD150-positive, CD133-positive, and CD244-negative. hematopoietic stem cell @@ -30278,6 +32122,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual burst forming unit erythroid colony forming unit erythroid erythroid stem cell + erythroid progenitor cell @@ -30299,7 +32144,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -30450,7 +32294,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -30726,7 +32569,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A oligopotent progenitor cell committed to the lymphoid lineage. - CL:0000044 CLP common lymphocyte precursor common lymphocyte progenitor @@ -30902,6 +32744,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -30925,7 +32768,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31161,7 +33003,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31195,7 +33036,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -31337,8 +33177,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex. - CL:0000804 - CL:0000812 BTO:0000782 CALOHA:TS-1001 FMA:62870 @@ -31522,36 +33360,36 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -31567,44 +33405,44 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - - + + - - + + - - + + - - + + - - + + - - + + - - + + A leukocyte with abundant granules in the cytoplasm. @@ -32154,7 +33992,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A connective tissue cell that normally gives rise to other cells that are organized as three-dimensional masses. In humans, this cell type is CD73-positive, CD90-positive, CD105-positive, CD45-negative, CD34-negative, and MHCII-negative. They may further differentiate into osteoblasts, adipocytes, myocytes, neurons, or chondroblasts in vitro. Originally described as residing in the bone marrow, this cell type is now known to reside in many, if not all, adult organs. - CL:0002452 BTO:0002625 BTO:0003298 FMA:70546 @@ -32242,7 +34079,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A fat-storing cell found mostly in the abdominal cavity and subcutaneous tissue of mammals. Fat is usually stored in the form of triglycerides. - CL:0000450 BTO:0000443 CALOHA:TS-0012 FMA:63880 @@ -32317,6 +34153,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A cell capable of processing and presenting lipid and protein antigens to T cells in order to initiate an immune response. APC + Note change of name; nearly all somatic cells can present antigens to T cells via MHC Class I complexes leading to effector responses, but professional antigen presenting cells constitutively express MHC Class II as well as costimulatory molecules, and thus can initiate immune responses via T cells. professional antigen presenting cell @@ -32367,7 +34204,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -32384,7 +34220,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A pigment cell derived from the neural crest. Contains melanin-filled pigment granules, which gives a brown to black appearance. - CL:0000572 BTO:0000847 CALOHA:TS-0613 FMA:70545 @@ -32413,6 +34248,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + pigment cell visual pigment cell @@ -32459,7 +34295,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - @@ -32499,6 +34334,7 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual + @@ -32719,25 +34555,46 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual - + - + + + + + + + + + + + + - + - + + + + + + + + + + + A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions. @@ -32796,7 +34653,6 @@ OBSOLETE. PATO divides qualities between normal (monadic, singly-occurring) qual A neuron that is capable of some hormone secretion in response to neuronal signals. - CL:0000381 BTO:0002691 FBbt:00005130 FMA:83810 @@ -32898,8 +34754,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -32935,12 +34789,6 @@ The modern definition of neurosecretion has evolved to include the release of an Pancreatic beta cells are also reportedly CD284-positive. Upon activation, they upregulate their CD14 expression. type B pancreatic cell - - - - - true - @@ -33061,7 +34909,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33136,7 +34983,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33188,7 +35034,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -33203,7 +35049,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33272,10 +35117,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -33317,7 +35160,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33356,7 +35198,6 @@ The modern definition of neurosecretion has evolved to include the release of an A non-striated, elongated, spindle-shaped cell found lining the digestive tract, uterus, and blood vessels. They develop from specialized myoblasts (smooth muscle myoblast). - CL:0000191 non-striated muscle cell BTO:0004576 CALOHA:TS-2159 @@ -33408,7 +35249,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33679,7 +35519,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33702,7 +35541,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33727,7 +35565,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33753,7 +35590,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -33916,6 +35752,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -33928,14 +35772,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - @@ -33944,26 +35780,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A red blood cell. In mammals, mature erythrocytes are biconcave disks containing hemoglobin whose function is to transport oxygen. @@ -33973,6 +35809,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:81100 RBC red blood cell + erythrocyte @@ -34009,6 +35846,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -34076,6 +35914,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:83585 MESH:D008264 histiocyte + Morphology: Diameter 30_M-80 _M, abundant cytoplasm, low N/C ratio, eccentric nucleus. Irregular shape with pseudopods, highly adhesive. Contain vacuoles and phagosomes, may contain azurophilic granules; markers: Mouse & Human: CD68, in most cases CD11b. Mouse: in most cases F4/80+; role or process: immune, antigen presentation, & tissue remodelling; lineage: hematopoietic, myeloid. macrophage @@ -34347,7 +36186,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell found in the trachea. - CL:1000474 FBbt:00005038 FMA:74793 tracheocyte @@ -34392,7 +36230,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -34421,7 +36258,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell. - CL:0002185 BTO:0000667 CALOHA:TS-0500 FMA:62879 @@ -34548,7 +36384,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -34638,8 +36473,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -34678,8 +36513,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -34718,8 +36553,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -34949,7 +36782,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the integument (the outer layer of an organism). - CL:1000396 BTO:0001470 CALOHA:TS-0283 FMA:62411 @@ -35232,44 +37064,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -35285,44 +37117,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -35631,7 +37463,6 @@ The modern definition of neurosecretion has evolved to include the release of an A precursor cell destined to differentiate into cardiac muscle cell. - CL:0000714 FMA:84797 cardiac muscle progenitor cell cardiomyocyte progenitor cell @@ -35874,7 +37705,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -35962,6 +37792,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -36029,62 +37860,63 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + @@ -36105,86 +37937,87 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + An immature, nucleated erythrocyte occupying the stage of erythropoeisis that follows formation of erythroid progenitor cells. This cell is CD71-positive, has both a nucleus and a nucleolus, and lacks hematopoeitic lineage markers. FMA:83518 rubriblast pronormoblast + proerythroblast @@ -36531,61 +38364,61 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -36593,94 +38426,94 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + + + + + + The earliest cytologically identifiable precursor in the thrombocytic series. This cell is capable of endomitosis and lacks expression of hematopoieitic lineage markers (lin-negative). BTO:0001164 @@ -36746,23 +38579,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - @@ -36776,7 +38593,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm. + A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release. BTO:0000843 CALOHA:TS-0611 @@ -36784,6 +38601,7 @@ The modern definition of neurosecretion has evolved to include the release of an megacaryocyte megalocaryocyte megalokaryocyte + Megakaryocytes are reportedly CD181-positive and CD182-positive. megakaryocyte @@ -36797,9 +38615,10 @@ The modern definition of neurosecretion has evolved to include the release of an - A giant cell 50 to 100 micron in diameter, with a greatly lobulated nucleus, found in the bone marrow; mature blood platelets are released from its cytoplasm. + A large hematopoietic cell (50 to 100 micron) with a lobated nucleus. Once mature, this cell undergoes multiple rounds of endomitosis and cytoplasmic restructuring to allow platelet formation and release. ISBN:0721601464 MESH:D008533 + PMID:31043076 http://en.wikipedia.org/wiki/Megakaryocyte @@ -36824,6 +38643,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -36836,14 +38663,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - @@ -36866,32 +38685,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + A hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages. These cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1. @@ -36973,57 +38792,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -37031,92 +38850,93 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + An immature erythrocyte that changes the protein composition of its plasma membrane by exosome formation and extrusion. The types of protein removed differ between species though removal of the transferrin receptor is apparent in mammals and birds. BTO:0001173 CALOHA:TS-0864 MESH:D012156 + reticulocyte @@ -37275,12 +39095,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + @@ -37319,14 +39139,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + A promyelocyte committed to the neutrophil lineage. This cell type is GATA-1-positive, C/EBPa-positive, AML-1-positive, MPO-positive, has low expression of PU.1 transcription factor and lacks lactotransferrin expression. @@ -37513,7 +39333,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the cornea. - CL:1000431 BTO:0004298 CALOHA:TS-0173 FMA:70551 @@ -37594,6 +39413,7 @@ The modern definition of neurosecretion has evolved to include the release of an BTO:0000876 CALOHA:TS-0638 FMA:62864 + Morphology: Mononuclear cell, diameter, 14 to 20 _M, N/C ratio 2:1-1:1. Nucleus may appear in variety of shapes: round, kidney, lobulated, or convoluted. Fine azurophilic granules present; markers: CD11b (shared with other myeloid cells), human: CD14, mouse: F4/80-mid,GR1-low; location: Blood, but can be recruited into tissues; role or process: immune & tissue remodelling; lineage: hematopoietic, myeloid. monocyte @@ -37894,6 +39714,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -38488,6 +40309,39 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. + cone retinal bipolar cell + + + + + A bipolar neuron found in the retina and having connections with cone photoreceptor cells and neurons in the inner plexiform layer. + PMID:14689473 + + + + @@ -38502,7 +40356,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -38539,7 +40392,6 @@ The modern definition of neurosecretion has evolved to include the release of an A immature or mature cell in the lineage leading to and including erythrocytes. - CL:0002156 CALOHA:TS-0290 FMA:62845 FMA:83516 @@ -38570,57 +40422,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + @@ -38634,94 +40486,95 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A nucleated precursor of an erythrocyte that lacks hematopoietic lineage markers. BTO:0001571 CALOHA:TS-0289 FMA:83504 MESH:D004900 normoblast + erythroblast @@ -38824,6 +40677,7 @@ The modern definition of neurosecretion has evolved to include the release of an neutrophil leukocyte neutrophilic leucocyte neutrophilic leukocyte + neutrophil @@ -38992,12 +40846,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + @@ -39006,14 +40860,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + A dendritic cell of the myeloid lineage. @@ -39163,7 +41017,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -39171,6 +41025,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -39191,14 +41046,14 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + The most primitive precursor in the granulocytic series, having fine, evenly distributed chromatin, several nucleoli, a high nuclear-to-cytoplasmic ration (5:1-7:1), and a nongranular basophilic cytoplasm. They reside in the bone marrow. @@ -39248,24 +41103,24 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + @@ -39299,38 +41154,38 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + A precursor in the granulocytic series, being a cell intermediate in development between a myeloblast and myelocyte, that has distinct nucleoli, a nuclear-to-cytoplasmic ratio of 5:1 to 3:1, and containing a few primary cytoplasmic granules. Markers for this cell are fucosyltransferase FUT4-positive, CD33-positive, integrin alpha-M-negative, low affinity immunoglobulin gamma Fc region receptor III-negative, and CD24-negative. @@ -39361,166 +41216,166 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + - + - - - - - - - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + + + + + + A hematopoietic multipotent progenitor cell is multipotent, but not capable of long-term self-renewal. These cells are characterized as lacking lineage cell surface markers and being CD34-positive in both mice and humans. @@ -39528,6 +41383,7 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0448 MPP hemopoietic progenitor cell + Markers differ between mouse and human. hematopoietic multipotent progenitor cell @@ -39659,6 +41515,7 @@ The modern definition of neurosecretion has evolved to include the release of an FMA:86713 mononuclear leukocyte peripheral blood mononuclear cell + mononuclear cell @@ -39676,6 +41533,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A neuron that releases serotonin as a neurotransmitter. + FBbt:00005133 + MESH:D059326 + WBbt:0006837 + 5-HT neuron + 5-hydroxytryptamine neuron + serotinergic neuron + serotonergic neuron + + + + + A neuron that releases serotonin as a neurotransmitter. + SANBI:mhl + + + + @@ -39816,6 +41713,7 @@ The modern definition of neurosecretion has evolved to include the release of an An immature myeloid leukocyte of heterogeneous phenotype found particularly in cancer and sepsis patients that is capable of suppressing activity of T cells in ex vivo assays. This cell type is CD45-positive, CD11b-positive. + Markers: Mouse: CD11b+GR1+CD31+; Human: CD34+ CD33+CD15-CD13+. (According to some reports in humans these cells are iNOS+ARG1+IL13+IFNg+); location: In cancerous tissue; in the blood and lymphoid organs in sepsis. myeloid suppressor cell @@ -39842,7 +41740,6 @@ The modern definition of neurosecretion has evolved to include the release of an - A cell of a hematopoietic lineage. BTO:0000574 @@ -39894,6 +41791,7 @@ The modern definition of neurosecretion has evolved to include the release of an cDC dendritic reticular cell type 1 DC + Originally described in the dendritic cell ontology (DC_CL:0000003)(PMID:19243617) These cells are also CD20-negative, MHCII-positive. conventional dendritic cell @@ -39942,49 +41840,49 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + + + + + + + + + + + + + @@ -39992,50 +41890,50 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -40257,40 +42155,40 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + @@ -40299,50 +42197,50 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + CD133-positive hematopoietic stem cell is a hematopoietic stem cell that is CD34-positive, CD90-positive, and CD133-positive. @@ -40389,29 +42287,29 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + + + + + + + + + @@ -40419,44 +42317,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + A common myeloid progenitor that is CD34-positive, CD38-positive, IL3ra-low, CD10-negative, CD7-negative, CD45RA-negative, and IL-5Ralpha-negative. @@ -40485,17 +42383,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + + + + + @@ -40504,26 +42402,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + CD7-negative lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-negative and CD45RA-negative. @@ -40555,6 +42453,10 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + @@ -40563,15 +42465,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - + + + + + + @@ -40590,12 +42494,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - CD7-positive lymphoid progenitor cell is a lymphoid progenitor cell that is CD34-positive, CD7-positive and is CD45RA-negative. CD7-positive lymphoid precursor These markers are associated with human cells. Originally described in the dendritic cell ontology (DC_CL:0000040)(PMID:19243617). @@ -40628,164 +42526,165 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + Common dendritic precursor is a hematopoietic progenitor cell that is CD117-low, CD135-positive, CD115-positive and lacks plasma membrane parts for hematopoietic lineage markers. @@ -40835,7 +42734,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -40872,21 +42770,21 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + @@ -40894,26 +42792,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A monocyte that expresses CD14 and is negative for the lineage markers CD3, CD19, and CD20. @@ -41094,130 +42992,130 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + - + - + - + - + - + - + - + - + - + + + + + - + - + - + - + - + - + - + - + - + - + - + - + @@ -41364,57 +43262,57 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + @@ -41422,82 +43320,82 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - + - + - + - + - + - + - + - + - + - + - + + + + + + + + + + + + + A progenitor cell committed to the erythroid lineage. This cell is ter119-positive but lacks expression of other hematopoietic lineage markers (lin-negative). BTO:0004911 BFU-E @@ -41526,93 +43424,93 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + - + + + + + + + + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + - - + + An erythroid progenitor cell is Kit-positive, Ly6A-negative, CD41-negative, CD127-negative, and CD123-negative. This cell type is also described as being lin-negative, Kit-positive, CD150-negative, CD41-negative, CD105-positive, and FcgR-negative. @@ -41712,20 +43610,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -41734,26 +43632,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + A megakaryocyte erythroid progenitor cell is CD34-positive, CD38-positive and is IL3-receptor alpha-negative and CD45RA-negative. @@ -41787,33 +43685,33 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - + - + - + - + - + + + + + + + + + @@ -41821,44 +43719,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + - - + + A megakaryocyte erythroid progenitor cell that is Kit-positive and is Sca1-negative, CD34-negative, CD90-negative, IL7r-alpha-negative and Fcgr II/III-low. @@ -41953,6 +43851,14 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + @@ -41965,52 +43871,44 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - + + - - + + - - + + - - + + - - + + - - + + A proerythoblast that is Kit-low, Lyg76-positive, and CD71-positive. @@ -42044,53 +43942,53 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + - - + + A basophilic erythroblast that is Lyg 76-high and is Kit-negative. @@ -42124,53 +44022,53 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + - - + + A polychromatophilic erythroblast that is Lyg 76-high and is Kit-negative. @@ -42204,24 +44102,24 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + @@ -42230,38 +44128,38 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + - - + + An orthochromatophilic erythroblast that is ter119-high, CD71-low, and Kit-negative. @@ -42402,7 +44300,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -42420,6 +44317,7 @@ The modern definition of neurosecretion has evolved to include the release of an A hematopoietic progenitor cell that is capable of developing into only one lineage of hematopoietic cells. 2010-01-06T03:43:20Z + hematopoietic lineage restricted progenitor cell @@ -42446,7 +44344,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -42463,6 +44360,7 @@ The modern definition of neurosecretion has evolved to include the release of an A hematopoietic oligopotent progenitor cell that has the ability to differentiate into limited cell types but lacks lineage cell markers and self renewal capabilities. 2010-01-06T03:43:27Z + This cell type is intended to be compatible with any vertebrate hematopoietic oligopotent progenitor cell. For mammalian hematopoietic oligopotent progenitor cells known to be lineage-negative, please use the term 'hematopoietic oligopotent progenitor cell' (CL_0001060). hematopoietic oligopotent progenitor cell @@ -42484,6 +44382,10 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + @@ -42492,30 +44394,26 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - + + - - + + - - + + A hematopoietic stem cell capable of rapid replenishment of myeloerythroid progenitors and limited self renewal capability. This cell is Kit-positive, Sca1-positive, CD34-positive, CD150-positive, and is Flt3-negative. @@ -42551,20 +44449,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -42572,20 +44470,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + A hematopoietic stem cell with long term self renewal capability. This cell is Kit-positive, Sca1-positive, CD150-positive, CD90-low, CD34-negative and Flt3-negative. @@ -42621,20 +44519,20 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + @@ -42642,32 +44540,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + - - + + - - + + - - + + - - + + A hematopoietic progenitor that has restricted self-renewal capability. Cell is Kit-positive, Ly6-positive, CD150-negative and Flt3-negative. @@ -42771,47 +44669,47 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - + - + - + + + + + - - + + - - + + - - + + - - + + A hematopoietic multipotent progenitor cell that is CD34-positive, CD38-negative, CD45RA-negative, and CD90-negative. @@ -43147,7 +45045,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43199,7 +45096,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43263,7 +45159,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -43272,7 +45168,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -43281,6 +45177,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-07-22T11:30:33Z FMA:62855 agranular leukocyte + nongranular leukocyte @@ -43312,7 +45209,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -43588,7 +45484,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the uterus. 2010-08-24T10:45:54Z - CL:1000294 FMA:256161 epithelial cell of uterus @@ -43688,7 +45583,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell found in the lining of the stomach. 2010-08-25T03:22:08Z - CL:1000399 FMA:62948 epithelial cell of stomach @@ -43731,7 +45625,6 @@ The modern definition of neurosecretion has evolved to include the release of an A mucous cell in the epithelium of the stomach. 2010-08-25T03:38:51Z - CL:1000404 FMA:63464 mucous cell of stomach @@ -43770,7 +45663,6 @@ The modern definition of neurosecretion has evolved to include the release of an A stomach epithelial cell that is olumnar in form with a few short apical microvilli; relatively undifferentiated mitotic cell from which other types of gland are derived; few in number, situated in the isthmus region of the gland and base of the gastric pit. 2010-08-25T03:57:08Z - CL:1000400 FMA:62953 stem cell of gastric gland @@ -43811,7 +45703,6 @@ The modern definition of neurosecretion has evolved to include the release of an A basally situated, mitotically active, columnar-shaped keratinocyte attached to the basement membrane. 2010-08-26T03:12:49Z - CL:1000439 FMA:70571 basal cell of epidermis @@ -43991,7 +45882,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the tracheobronchial tree. 2010-09-02T02:09:14Z - CL:1000407 FMA:66816 epithelial cell of tracheobronchial tree @@ -44325,7 +46215,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the esophagus. 2010-09-08T09:28:20Z - CL:1000402 FMA:63071 epithelial cell of esophagus @@ -44368,7 +46257,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the large intestine. 2010-09-08T09:28:22Z - CL:1000292 BTO:0004297 FMA:256157 epithelial cell of colon @@ -44413,7 +46301,6 @@ The modern definition of neurosecretion has evolved to include the release of an An epithelial cell of the small intestine. 2010-09-08T09:41:46Z - CL:1000293 FMA:256159 epithelial cell of small intestine @@ -44502,7 +46389,6 @@ The modern definition of neurosecretion has evolved to include the release of an An endothelial cell found in the mucosa associated with the facial skeleton. 2010-09-14T10:40:12Z - CL:1000446 FMA:70627 endothelial cell of viscerocranial mucosa @@ -44541,7 +46427,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-09-14T10:57:26Z - CL:1000403 FMA:63134 endothelial cell of sinusoid @@ -44707,7 +46592,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -44790,8 +46674,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -44830,8 +46712,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -44842,7 +46722,6 @@ The modern definition of neurosecretion has evolved to include the release of an A cell of the supporting or framework tissue of the body, arising chiefly from the embryonic mesoderm and including adipose tissue, cartilage, and bone. 2010-09-15T03:01:54Z - CL:1000406 CALOHA:TS-2096 FMA:63875 MESH:D003239 @@ -45035,7 +46914,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2010-09-21T04:33:05Z - CL:1000475 FMA:75621 endocardial endothelial cell endothelial cell of endocardium @@ -45061,6 +46939,7 @@ The modern definition of neurosecretion has evolved to include the release of an + A progenitor cell that is able to differentiate into the pancreas alpha, beta and delta endocrine cells. This cell type expresses neurogenin-3 and Isl-1. @@ -45239,7 +47118,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + A cell of an organism that does not pass on its genetic material to the organism's offspring (i.e. a non-germ line cell). 2010-09-24T09:44:42Z @@ -45292,7 +47171,6 @@ The modern definition of neurosecretion has evolved to include the release of an A transversely striated, synctial muscle cell, formed by the fusion of myoblasts. 2010-09-24T01:13:01Z - CL:0000369 FBbt:00005812 myotubule single cell sarcomere @@ -45542,11 +47420,11 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + @@ -45555,13 +47433,13 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + @@ -45725,6 +47603,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -45766,8 +47645,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -46100,7 +47977,6 @@ The modern definition of neurosecretion has evolved to include the release of an 2011-02-28T03:48:11Z - CL:1000393 FMA:62104 KUPO:0001099 endothelial cell of vein @@ -46461,17 +48337,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - @@ -46479,7 +48344,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function. + A glial cell that myelinates or ensheathes axons in the peripheral nervous system. 2011-03-02T01:19:27Z @@ -46487,13 +48352,21 @@ The modern definition of neurosecretion has evolved to include the release of an CALOHA:TS-0898 MESH:D012583 + A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle. Schwann cell - A glial cell that ensheathes axons of neuron in the peripheral nervous system and are necessary for their maintainance and function. + A glial cell that myelinates or ensheathes axons in the peripheral nervous system. GOC:tfm + PMID:16807057 + + + + + A myelinating Schwann cell wraps around a single axon. Myelination occurs in larger diameter axons, while a process called ensheathment occurs on smaller diameter axons in which a single cell wraps around multiple small, unmyelinated axons separating them with a thin layer of cytoplasm. The structure formed is called a Remak bundle. + PMID:16807057 @@ -47711,6 +49584,41 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. + somatic motor neuron + somatomotor neuron + + + + + A motor neuron that innervates a skeletal muscle. These motor neurons are all excitatory and cholinergic. + ZFIN:CVS + + + + @@ -47792,6 +49700,7 @@ The modern definition of neurosecretion has evolved to include the release of an + Skeletogenic cell that has the potential to develop into a chondroblast; and arises from neural crest, meseosdermal and notochordal and connective tissue cells. 2012-06-27T10:44:01Z @@ -47889,15 +49798,32 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + - A muscle cell that is part of some visceral muscle + + + + + + + A muscle cell that is part of some visceral muscle. FBbt:00005070 visceral muscle cell - A muscle cell that is part of some visceral muscle + A muscle cell that is part of some visceral muscle. GOC:dos @@ -48092,13 +50018,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - + + An endocrine cell that is part of the pancreas. @@ -48113,6 +50034,40 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. + noradrenergic neuron + + + + + A neuron that release noradrenaline (noriphinephrine) as a neurotransmitter. + GOC:dos + + + + @@ -48274,8 +50229,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -49255,8 +51209,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -49347,7 +51300,6 @@ The modern definition of neurosecretion has evolved to include the release of an A CNS neuron of the cerebral cortex. - CL:0002609 BTO:0004102 FMA:84104 cortical neuron @@ -49825,7 +51777,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -50134,6 +52085,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -50442,8 +52394,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - + stomach neuroendocrine cell @@ -50487,6 +52440,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -50516,6 +52470,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51415,6 +53370,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51486,6 +53442,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -51608,7 +53565,6 @@ The modern definition of neurosecretion has evolved to include the release of an A blood vessel endothelial cell that is part of an arterial endothelium. - CL:0002542 BTO:0004758 FMA:67761 KUPO:0001095 @@ -52139,7 +54095,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -53542,7 +55497,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -53579,8 +55533,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - + @@ -53698,7 +55651,6 @@ The modern definition of neurosecretion has evolved to include the release of an A neuron that is part of a peripheral nervous system. 2014-06-25T02:28:17Z - CL:0000111 FMA:84664 PNS neuron peripheral neuron @@ -54954,7 +56906,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -55032,6 +56983,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -55297,7 +57249,6 @@ The modern definition of neurosecretion has evolved to include the release of an A glial cell that myelinates axonal processes. - CL:0000328 myelinating glial cell @@ -55466,6 +57417,7 @@ The modern definition of neurosecretion has evolved to include the release of an A lymphocyte located in blood. 2022-11-04T14:40:00Z + blood lymphocyte @@ -55491,7 +57443,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -55668,6 +57619,160 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + A smooth muscle cell that is part of a bronchiole. + + + 2023-03-16T09:38:17Z + bronchiolar smooth muscle cell + + + + + A smooth muscle cell that is part of a bronchiole. + ISBN:9781260462982 + PMID:15347627 + + + + + + + + + A megakaryocyte that is resident in the lung connective tissue. + + + 2023-03-16T11:31:23Z + lung MKs + lung megakaryocyte + + + + + A megakaryocyte that is resident in the lung connective tissue. + PMID:33351116 + + + + + lung MKs + PMID:33351116 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + A mucus secreting cell that is part of a submucosal gland of the trachea. + + + 2023-03-16T13:03:13Z + tracheal submucosal gland mucous cell + mucus secreting cell of trachea gland + + + + + A mucus secreting cell that is part of a submucosal gland of the trachea. + PMID:18931053 + PMID:29656943 + + + + + tracheal submucosal gland mucous cell + PMID:18931053 + + + + + + + + + + + + + + + + + + + + + + + + + + + A mucus secreting cell of a submucosal gland of the bronchus. + + + 2023-03-16T15:12:52Z + bronchial gland mucous cell + mucus secreting cell of bronchus submucosal gland + + + + + A mucus secreting cell of a submucosal gland of the bronchus. + PMID:19965983 + + + + + bronchial gland mucous cell + PMID:5487122 + + + + @@ -55781,43 +57886,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid. - acyl-CoA or acyl binding - molecular_function - GO:0000035 - acyl binding - - - - - Binding to an acyl group, any group formally derived by removal of the hydroxyl group from the acid function of a carboxylic acid. - GOC:curators - ISBN:0198506732 - - - - @@ -55917,6 +57985,7 @@ The modern definition of neurosecretion has evolved to include the release of an The lipid bilayer surrounding any of the compartments of the Golgi apparatus. + Golgi apparatus membrane cellular_component GO:0000139 Golgi membrane @@ -56372,7 +58441,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -60165,44 +62234,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases. - molecular_function - GO:0002054 - - nucleobase binding - - - - - Binding to a nucleobase, any of a class of pyrmidines or purines, organic nitrogenous bases. - GOC:hjd - - - - @@ -71432,6 +73463,100 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline. + dph + 2009-12-03T10:34:30Z + norepinephrine secreting neuron differentiation + biological_process + GO:0003357 + noradrenergic neuron differentiation + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron, a neuron that secretes noradrenaline. + GOC:dph + + + + + norepinephrine secreting neuron differentiation + GOC:dph + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. + dph + 2009-12-03T10:38:37Z + norepinephrine secreting neuron development + biological_process + GO:0003358 + noradrenergic neuron development + + + + + The process whose specific outcome is the progression of a noradrenergic neuron over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. + GOC:dph + + + + + norepinephrine secreting neuron development + GOC:dph + + + + @@ -71469,6 +73594,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem. + dph + 2009-12-03T10:53:30Z + biological_process + GO:0003361 + noradrenergic neuron differentiation involved in brainstem development + + + + + The process in which a relatively unspecialized cell acquires specialized features of an noradrenergic neuron that is part of the brainstem. + GOC:dph + + + + @@ -72052,7 +74214,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process. + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. GO:0005554 molecular function molecular_function @@ -72069,158 +74231,12 @@ The modern definition of neurosecretion has evolved to include the release of an - A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process. + A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. GOC:pdt - - - - - - - - - - - - - - - - - - - - - - - Binding to a nucleic acid. - GO:0000496 - base pairing - molecular_function - GO:0003676 - - - - - nucleic acid binding - - - - - Binding to a nucleic acid. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - lamin/chromatin binding - microtubule/chromatin interaction - nuclear membrane vesicle binding to chromatin - molecular_function - GO:0003682 - - - - - - chromatin binding - - - - - Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:jl - ISBN:0198506732 - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an RNA molecule or a portion thereof. - GO:0000498 - GO:0044822 - Reactome:R-HSA-203922 - base pairing with RNA - molecular_function - poly(A) RNA binding - poly(A)-RNA binding - poly-A RNA binding - GO:0003723 - - - - - - - - - - - RNA binding - - - - - Binding to an RNA molecule or a portion thereof. - GOC:jl - GOC:mah - - - - - Reactome:R-HSA-203922 - Exportin-5 recognizes 3' overhang of pre-miRNA - - - - @@ -72256,181 +74272,75 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents or reduces the activity of an enzyme. - GO:0048551 - metalloenzyme inhibitor activity - molecular_function - GO:0004857 - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme inhibitor activity - - - - - Binds to and stops, prevents or reduces the activity of an enzyme. - GOC:ai - GOC:ebc - - - - - + - - - Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function. - receptor binding - Wikipedia:Ligand_(biochemistry) - receptor ligand + + + Catalysis of the hydrolysis of ester linkages within nucleic acids. molecular_function - receptor-associated protein activity - GO:0005102 - + GO:0004518 - - + - Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'. - signaling receptor binding + + Note that 'tRNA nucleotidyltransferase activity ; GO:0009022', also known as 'ribonuclease PH', and 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906' do not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. + nuclease activity - + - Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function. - GOC:bf - GOC:ceb - ISBN:0198506732 + Catalysis of the hydrolysis of ester linkages within nucleic acids. + ISBN:0198547684 - + - - - Binding to a cytokine receptor. - hematopoietin/interferon-class (D200-domain) cytokine receptor binding - hematopoietin/interferon-class (D200-domain) cytokine receptor ligand + + + + + + + + + + Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid. + GO:0004537 + Reactome:R-HSA-211247 + Reactome:R-HSA-5685994 + Reactome:R-HSA-6785986 + deoxyribonuclease activity + caspase-activated deoxyribonuclease activity molecular_function - GO:0005126 - cytokine receptor binding + GO:0004536 + DNA nuclease activity - + - Binding to a cytokine receptor. + Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid. GOC:mah - GOC:vw + ISBN:0198547684 - - - hematopoietin/interferon-class (D200-domain) cytokine receptor binding - GOC:add - GOC:mah + + + Reactome:R-HSA-211247 + Cleavage of DNA by DFF40 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a vascular endothelial growth factor receptor. - VEGF receptor binding - VEGFR binding - vascular endothelial growth factor - vascular endothelial growth factor receptor ligand - molecular_function - GO:0005172 - vascular endothelial growth factor receptor binding - - - - Binding to a vascular endothelial growth factor receptor. - GOC:ai + + + Reactome:R-HSA-5685994 + Long-range resection of DNA DSBs by EXO1 or DNA2 - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor. - SCFR binding - KIT binding - SCF - stem cell factor - stem cell factor receptor ligand - molecular_function - GO:0005173 - stem cell factor receptor binding - - - - Binding to a stem cell factor receptor (SCFR), a type III transmembrane kinase receptor. - GOC:jl - PMID:10698217 + + + Reactome:R-HSA-6785986 + DNA nucleases unhook the interstrand crosslink (ICL) @@ -72629,7 +74539,83 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-372843 - malate [mitochondrial matrix] + orthophosphate [cytosol] <=> malate [cytosol] + orthophosphate [mitochondrial matrix] + SLC25A10 mediates exchange of malate and phosphate + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid. + L-glutamate transporter activity + glutamate transmembrane transporter activity + RHEA:66336 + Reactome:R-HSA-210444 + Reactome:R-HSA-428052 + Reactome:R-HSA-5624256 + glutamate/aspartate porter activity + glutamate/aspartate:sodium symporter activity + molecular_function + GO:0005313 + L-glutamate transmembrane transporter activity + + + + + Enables the transfer of L-glutamate from one side of a membrane to the other. L-glutamate is the anion of 2-aminopentanedioic acid. + GOC:ai + GOC:mtg_transport + ISBN:0815340729 + + + + + RHEA:66336 + skos:broadMatch + + + + + Reactome:R-HSA-210444 + L-Glutamate loading of synaptic vesicle + + + + + Reactome:R-HSA-428052 + SLC17A6,7,8 exchange cytosolic L-Glu for synaptic vesicle H+ + + + + + Reactome:R-HSA-5624256 + Defective SLC17A8 does not exchange cytosolic L-Glu for synaptic vesicle H+ @@ -72649,7 +74635,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -72674,14 +74660,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0005319 lipid transporter activity - + - + GO_REF:0000090 @@ -72762,7 +74748,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + Enables the directed movement of a neurotransmitter into, out of or within a cell, or between cells. Neurotransmitters are any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. Reactome:R-HSA-374896 Reactome:R-HSA-374919 @@ -72771,14 +74757,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0005326 neurotransmitter transmembrane transporter activity - + - + GO_REF:0000090 @@ -72993,294 +74979,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule. - Wikipedia:Binding_(molecular) - ligand - molecular_function - GO:0005488 - - - - Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children. - binding - - - - - The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule. - GOC:ceb - GOC:mah - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene. - molecular_function - GO:0005496 - - steroid binding - - - - - Binding to a steroid, any of a large group of substances that have in common a ring system based on 1,2-cyclopentanoperhydrophenanthrene. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an iron (Fe) ion. - iron binding - molecular_function - GO:0005506 - iron ion binding - - - - - Binding to an iron (Fe) ion. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a protein. - GO:0001948 - GO:0045308 - protein amino acid binding - glycoprotein binding - molecular_function - GO:0005515 - - - - - - protein binding - - - - - Binding to a protein. - GOC:go_curators - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%). - molecular_function - GO:0005518 - collagen binding - - - - - Binding to collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%). - GOC:ai - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to D- or L-enantiomers of glucose. - molecular_function - GO:0005536 - glucose binding - - - - - Binding to D- or L-enantiomers of glucose. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues. - molecular_function - GO:0005539 - - glycosaminoglycan binding - - - - - Binding to a glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine. - hyaluronan binding - molecular_function - GO:0005540 - hyaluronic acid binding - - - - - Binding to hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine. - GOC:jl - - - - @@ -73383,32 +75081,32 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures. Wikipedia:Collagen cellular_component GO:0005581 collagen trimer - + - + - + PMID:12382326 - + PMID:12382326 @@ -75029,8 +76727,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75149,7 +76847,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -75195,7 +76892,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75549,26 +77246,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell. - cellular glucan metabolism - biological_process - GO:0006073 - cellular glucan metabolic process - - - - - The chemical reactions and pathways involving glucans, polysaccharides consisting only of glucose residues, occurring at the level of an individual cell. - ISBN:0198547684 - - - - @@ -75873,6 +77550,162 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. + GO:0055132 + DNA metabolism + cellular DNA metabolism + biological_process + GO:0006259 + + + + + + + + DNA metabolic process + + + + + Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides. + ISBN:0198506732 + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one. + DNA breakdown + DNA catabolism + DNA degradation + biological_process + GO:0006308 + DNA catabolic process + + + + + The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one. + GOC:go_curators + ISBN:0198506732 + + + + + + + + + + + + + + + + + + + + + + + + + + The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments. + https://github.com/geneontology/go-ontology/issues/24396 + GO:0008178 + DNA fragmentation + chromatinolysis + DNA catabolic process during apoptosis + DNA catabolism during apoptosis + DNA fragmentation involved in apoptotic nuclear change + endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:0006309 + DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases. In human, these include DNA fragmentation factor (DFF) or caspase-activated DNase (CAD) and endonuclease G (Endo G) (reviewed in PMID:15723341). Caution is needed when apoptotic DNA laddering assays show presence of fragmented DNA. A positive assay may simply reflect the end point of a whole apoptotic process. Unless clear experimental evidence is available to show that a gene product is directly involved in fragmenting DNA, please do not annotate to GO:0006309 'apoptotic DNA fragmentation' and consider annotating instead to a more upstream process such as, e.g., GO:0042981 'regulation of apoptotic process', GO:0006915 'apoptotic process', GO:0097190 'apoptotic signaling pathway'. Also, note that gene products involved in compartmentalization of apoptotic nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). + apoptotic DNA fragmentation + + + + + The cleavage of DNA during apoptosis, which usually occurs in two stages: cleavage into fragments of about 50 kbp followed by cleavage between nucleosomes to yield 200 bp fragments. + GOC:dph + GOC:mah + GOC:mtg_apoptosis + GOC:tb + ISBN:0721639976 + PMID:15723341 + PMID:23379520 + + + + + chromatinolysis + GOC:mtg_apoptosis + + + + + DNA fragmentation involved in apoptotic nuclear change + GOC:cjm + GOC:dph + GOC:tb + + + + @@ -75887,7 +77720,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -75963,9 +77796,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -76035,8 +77868,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -76139,7 +77972,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -76209,10 +78042,11 @@ The modern definition of neurosecretion has evolved to include the release of an + + - @@ -76361,7 +78195,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -77789,7 +79622,13 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + A homeostatic process involved in the maintenance of a steady state level of iron ions within a cell. iron homeostasis cellular iron ion homeostasis @@ -78097,6 +79936,100 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/go-ontology/issues/24907 + https://github.com/geneontology/go-ontology/issues/25268 + GO:0016193 + GO:0016196 + GO:0098701 + Wikipedia:Endocytosis + endocytic import into cell + vesicle endocytosis + plasma membrane invagination + biological_process + nonselective vesicle endocytosis + GO:0006897 + + endocytosis + + + + + A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle. + GOC:mah + ISBN:0198506732 + ISBN:0716731363 + Wikipedia:Endocytosis + + + + + + + + + + + + + + + + The evagination of a membrane, resulting in formation of a vesicle. + jl + 2013-12-19T15:26:17Z + GO:0006902 + GO:1902591 + membrane evagination + vesicle biosynthesis + vesicle formation + biological_process + nonselective vesicle assembly + single organism membrane budding + single-organism membrane budding + vesicle budding + GO:0006900 + vesicle budding from membrane + + + + + The evagination of a membrane, resulting in formation of a vesicle. + GOC:jid + GOC:tb + + + + + single organism membrane budding + GOC:TermGenie + + + + @@ -78173,7 +80106,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -78201,6 +80134,7 @@ The modern definition of neurosecretion has evolved to include the release of an A vesicle-mediated transport process that results in the engulfment of external particulate material by phagocytes and their delivery to the lysosome. The particles are initially contained within phagocytic vacuoles (phagosomes), which then fuse with primary lysosomes to effect digestion of the particles. + https://github.com/geneontology/go-ontology/issues/24907 Wikipedia:Phagocytosis biological_process @@ -79503,6 +81437,7 @@ The modern definition of neurosecretion has evolved to include the release of an A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the Golgi apparatus. + Golgi apparatus organization Golgi organisation biological_process Golgi organization and biogenesis @@ -82443,50 +84378,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a microtubule, a filament composed of tubulin monomers. - Reactome:R-HSA-9614343 - molecular_function - microtubule severing activity - microtubule/chromatin interaction - GO:0008017 - microtubule binding - - - - - Binding to a microtubule, a filament composed of tubulin monomers. - GOC:krc - - - - - Reactome:R-HSA-9614343 - Viral UL47:UL48 Proteins Bind HCMV Tegumented Virion to Host Microtuble and Dynein complexs - - - - @@ -82559,47 +84450,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binds to and increases the activity of an enzyme. - GO:0010577 - metalloenzyme activator activity - molecular_function - GO:0008047 - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme activator activity - - - - - Binds to and increases the activity of an enzyme. - GOC:dph - GOC:mah - GOC:tb - - - - @@ -82787,32 +84637,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton). - molecular_function - GO:0008092 - - - - - - - - - cytoskeletal protein binding - - - - - Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton). - GOC:mah - - - - @@ -82885,39 +84709,12 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a transcription factor, a protein required to initiate or regulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - TF binding - molecular_function - transcription regulator binding - GO:0008134 - - - - - - - Note that this term should not be used for direct annotation. Please consier one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding. - transcription factor binding - - - - - Binding to a transcription factor, a protein required to initiate or regulate transcription. - ISBN:0198506732 - - - - - A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + https://github.com/geneontology/go-ontology/issues/24968 jl 2012-09-19T15:05:24Z GO:0000004 @@ -82943,7 +84740,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. + A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. GOC:pdt @@ -83070,11 +84867,6 @@ The modern definition of neurosecretion has evolved to include the release of an accidental cell death necrosis GO:0008219 - - - - - This term should not be used for direct annotation. The only exception should be when experimental data (e.g., staining with trypan blue or propidium iodide) show that cell death has occurred, but fail to provide details on death modality (accidental versus programmed). When information is provided on the cell death mechanism, annotations should be made to the appropriate descendant of 'cell death' (such as, but not limited to, GO:0097300 'programmed necrotic cell death' or GO:0006915 'apoptotic process'). Also, if experimental data suggest that a gene product influences cell death indirectly, rather than being involved in the death process directly, consider annotating to a 'regulation' term. cell death @@ -83278,52 +85070,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a lipid. - molecular_function - GO:0008289 - - - - - - - - - - - - lipid binding - - - - - Binding to a lipid. - GOC:ai - - - - @@ -83426,7 +85172,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + Enables the transfer of a protein from one side of a membrane to the other. GO:0015266 GO:0015463 @@ -83455,14 +85201,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0008320 protein transmembrane transporter activity - + - + GO_REF:0000090 @@ -83481,7 +85227,7 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-1299475 - TIMM23 PAM translocates proteins from the mitochndrial intermebrane space to the mitochondrial matrix + TIMM23 PAM translocates proteins from the mitochondrial intermembrane space to the mitochondrial matrix @@ -84000,6 +85746,8 @@ The modern definition of neurosecretion has evolved to include the release of an Enables the transfer of organic anions from one side of a membrane to the other. Organic anions are atoms or small molecules with a negative charge which contain carbon in covalent linkage. Reactome:R-HSA-2142859 + Reactome:R-HSA-561041 + Reactome:R-HSA-9794830 molecular_function GO:0008514 organic anion transmembrane transporter activity @@ -84016,6 +85764,18 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-2142859 Growing HA is extruded from the cell by ABCC5 + + + + Reactome:R-HSA-561041 + OAT1-3 transport organic anions with antiport of dicarboxylic acids + + + + + Reactome:R-HSA-9794830 + SLC22A8 transports Cipro into renal cell + @@ -84443,6 +86203,9 @@ The modern definition of neurosecretion has evolved to include the release of an macromolecule degradation multicellular organismal macromolecule catabolic process biological_process + cellular macromolecule catabolic process + cellular macromolecule catabolism + cellular macromolecule degradation GO:0009057 macromolecule catabolic process @@ -84518,6 +86281,7 @@ The modern definition of neurosecretion has evolved to include the release of an The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. + http://amigo.geneontology.org/amigo/term/GO:0070589 GO:0043284 biopolymer biosynthetic process macromolecule anabolism @@ -84718,7 +86482,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -84757,8 +86520,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -84837,8 +86600,8 @@ The modern definition of neurosecretion has evolved to include the release of an - - + + @@ -86866,6 +88629,7 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0009987 + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular process @@ -87447,6 +89211,29 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + The infolding of a membrane. + jl + 2013-12-02T13:58:34Z + GO:1902534 + biological_process + single-organism membrane invagination + GO:0010324 + + membrane invagination + + + + + The infolding of a membrane. + GOC:tb + + + + @@ -88053,8 +89840,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -88092,7 +89879,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -88129,9 +89915,9 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -90002,119 +91788,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010675 - regulation of cellular carbohydrate metabolic process - - - - - Any process that modulates the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010676 - positive regulation of cellular carbohydrate metabolic process - - - - - Any process that increases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - biological_process - GO:0010677 - negative regulation of cellular carbohydrate metabolic process - - - - - Any process that decreases the rate, extent or frequency of the chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:dph - GOC:tb - - - - @@ -91947,7 +93620,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -91991,8 +93664,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -92245,79 +93918,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - biological_process - GO:0010941 - regulation of cell death - - - - - Any process that modulates the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:dph - GOC:tb - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - biological_process - GO:0010942 - positive regulation of cell death - - - - - Any process that increases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:dph - GOC:tb - - - - @@ -92409,9 +94009,7 @@ The modern definition of neurosecretion has evolved to include the release of an - - @@ -92790,6 +94388,7 @@ The modern definition of neurosecretion has evolved to include the release of an A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell. + https://github.com/geneontology/go-ontology/issues/24835 GO:0016244 regulated cell death Wikipedia:Programmed_cell_death @@ -92801,7 +94400,12 @@ The modern definition of neurosecretion has evolved to include the release of an RCD caspase-independent apoptosis GO:0012501 + + + + + Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. programmed cell death @@ -95816,7 +97420,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -95831,14 +97435,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015075 monoatomic ion transmembrane transporter activity - + - + GO_REF:0000090 @@ -95934,6 +97538,9 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-549322 Reactome:R-HSA-561054 Reactome:R-HSA-561072 + Reactome:R-HSA-9794270 + Reactome:R-HSA-9794523 + Reactome:R-HSA-9795207 molecular_function GO:0015101 organic cation transmembrane transporter activity @@ -95988,6 +97595,24 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-561072 OCT3 mediates renal uptake of organic cations + + + + Reactome:R-HSA-9794270 + SLCO1A2 transports Cipro(1+) into the cytosol + + + + + Reactome:R-HSA-9794523 + SLC22A1 transports Cipro into renal cell + + + + + Reactome:R-HSA-9795207 + SLC22A1 transports Cipro into hepatic cell + @@ -96096,7 +97721,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96113,14 +97738,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015114 phosphate ion transmembrane transporter activity - + - + GO_REF:0000090 @@ -96154,7 +97779,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96172,14 +97797,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015116 sulfate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96224,7 +97849,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96236,14 +97861,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015123 acetate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96290,6 +97915,7 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-194130 Reactome:R-HSA-5661184 Reactome:R-HSA-5661198 + Reactome:R-HSA-9733964 molecular_function GO:0015125 bile acid transmembrane transporter activity @@ -96330,6 +97956,12 @@ The modern definition of neurosecretion has evolved to include the release of an Reactome:R-HSA-5661198 Defective SLCO1B3 does not transport BIL from extracellular region (blood) to cytosol (hepatocyte) + + + + Reactome:R-HSA-9733964 + SLC51A:SLC51B transports bile salts from cytosol to extracellular region + @@ -96411,7 +98043,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96426,14 +98058,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015144 carbohydrate transmembrane transporter activity - + - + GO_REF:0000090 @@ -96505,7 +98137,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96519,14 +98151,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015149 hexose transmembrane transporter activity - + - + GO_REF:0000090 @@ -96611,7 +98243,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -96675,14 +98307,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015171 amino acid transmembrane transporter activity - + - + GO_REF:0000090 @@ -96972,6 +98604,40 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3. + acidic amino acid transporter activity + Reactome:R-HSA-372448 + molecular_function + GO:0015172 + acidic amino acid transmembrane transporter activity + + + + + Enables the transfer of acidic amino acids from one side of a membrane to the other. Acidic amino acids have side chains with a negative charge at pH 7.3. + GOC:ai + GOC:mtg_transport + ISBN:0815340729 + + + + + Reactome:R-HSA-372448 + SLC25A12,13 exchange cytosolic L-Glu for mitochondrial matrix L-Asp + + + + @@ -96987,7 +98653,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -97001,14 +98667,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0015179 L-amino acid transmembrane transporter activity - + - + GO_REF:0000090 @@ -97151,24 +98817,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to monomeric or multimeric forms of tubulin, including microtubules. - molecular_function - GO:0015631 - tubulin binding - - - - - Binding to monomeric or multimeric forms of tubulin, including microtubules. - GOC:clt - - - - @@ -97618,6 +99266,44 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of L-glutamate across a membrane. + GO:0089711 + L-glutamate transport + biological_process + mitochondrial aspartate/glutamate transport + GO:0015813 + L-glutamate transmembrane transport + + + + + The directed movement of L-glutamate across a membrane. + PMID:21307582 + + + + @@ -97846,6 +99532,50 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + DNA-protein complex transport + biological_process + GO:0015869 + protein-DNA complex transport + + + + + The directed movement of protein-DNA complexes into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:ai + + + + + DNA-protein complex transport + GOC:mah + + + + @@ -98864,7 +100594,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms. + The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. + https://github.com/geneontology/go-ontology/issues/24787 Wikipedia:Cell_migration biological_process GO:0016477 @@ -98873,7 +100604,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms. + The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. GOC:cjm GOC:dph GOC:ems @@ -98986,79 +100717,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to glutamate, the anion of 2-aminopentanedioic acid. - glutamic acid binding - molecular_function - GO:0016595 - glutamate binding - - - - - Binding to glutamate, the anion of 2-aminopentanedioic acid. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an amino acid, organic acids containing one or more amino substituents. - molecular_function - GO:0016597 - - - amino acid binding - - - - - Binding to an amino acid, organic acids containing one or more amino substituents. - GOC:ai - - - - @@ -99138,41 +100796,137 @@ The modern definition of neurosecretion has evolved to include the release of an - + - - - - - - - - - - - - - - - - - - - - - Binding to a peptide with hormonal activity in animals. - polypeptide hormone binding + + + Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. + EC:3.-.-.- + Reactome:R-HSA-1236938 + Reactome:R-HSA-2029475 + Reactome:R-HSA-5694583 + Reactome:R-HSA-5695964 + Reactome:R-HSA-6786190 + Reactome:R-HSA-6788295 + Reactome:R-HSA-8938314 + Reactome:R-HSA-8952137 molecular_function - GO:0017046 - peptide hormone binding + GO:0016787 + + + + + + + + + + + hydrolase activity - + - Binding to a peptide with hormonal activity in animals. - GOC:jl + Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. ISBN:0198506732 + + + + Reactome:R-HSA-1236938 + Partial proteolysis of antigen in phagolysosomes + + + + + Reactome:R-HSA-2029475 + Production of AA by iPLA2 upon FCGR activation + + + + + Reactome:R-HSA-5694583 + ABHD4 hydrolyses NAPE + + + + + Reactome:R-HSA-5695964 + ABHD14B hydrolyses PNPB + + + + + Reactome:R-HSA-6786190 + CMBL hydrolyses OM to OLMS + + + + + Reactome:R-HSA-6788295 + HDHD1:Mg2+ dephosphorylates PURIDP + + + + + Reactome:R-HSA-8938314 + ENPPs hydrolyse CoA-SH to PPANT, PAP + + + + + Reactome:R-HSA-8952137 + Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate + + + + + + + + + Catalysis of the hydrolysis of any ester bond. + EC:3.1.-.- + Reactome:R-HSA-162729 + Reactome:R-HSA-9023617 + Reactome:R-HSA-9023619 + Reactome:R-HSA-9749609 + esterase activity + molecular_function + GO:0016788 + + hydrolase activity, acting on ester bonds + + + + + Catalysis of the hydrolysis of any ester bond. + GOC:jl + + + + + Reactome:R-HSA-162729 + uPAR-acyl-GPI + H2O -> uPAR + long-chain fatty acid + + + + + Reactome:R-HSA-9023617 + Butyrylcholinesterase hydrolyzes acyl Ghrelin + + + + + Reactome:R-HSA-9023619 + Platelet-activating factor acetylhydrolase (PLA2G7) hydrolyzes acyl Ghrelin + + + + + Reactome:R-HSA-9749609 + BCHE hydrolyzes ASA- + @@ -99293,10 +101047,11 @@ The modern definition of neurosecretion has evolved to include the release of an + + - @@ -99497,113 +101252,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - molecular_function - GO:0019207 - kinase regulator activity - - - - - Modulates the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - molecular_function - GO:0019209 - kinase activator activity - - - - - Binds to and increases the activity of a kinase, an enzyme which catalyzes of the transfer of a phosphate group, usually from ATP, to a substrate molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents or reduces the activity of a kinase. - molecular_function - GO:0019210 - kinase inhibitor activity - - - - - Binds to and stops, prevents or reduces the activity of a kinase. - GOC:mah - - - - @@ -100201,6 +101849,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids. + D-amino acid breakdown + D-amino acid catabolism + D-amino acid degradation + biological_process + GO:0019478 + D-amino acid catabolic process + + + + + The chemical reactions and pathways resulting in the breakdown of D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + @@ -100466,45 +102154,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to oxygen (O2). - cytochrome P450 - molecular_function - cytochrome P450 activity - GO:0019825 - - - oxygen binding - - - - - Binding to oxygen (O2). - GOC:jl - - - - @@ -100850,6 +102499,46 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate. + biological_process + GO:0021523 + somatic motor neuron differentiation + + + + + The process in which neuroepithelial cells in the neural tube acquire specialized structural and/or functional features of somatic motor neurons. Somatic motor neurons innervate skeletal muscle targets and are responsible for transmission of motor impulses from the brain to the periphery. Differentiation includes the processes involved in commitment of a cell to a specific fate. + GOC:cls + GOC:dgh + GOC:dph + GOC:jid + GO_REF:0000021 + PMID:11262869 + + + + @@ -106458,11 +108147,11 @@ The modern definition of neurosecretion has evolved to include the release of an The aggregation, arrangement and bonding together of proteins and RNA molecules to form a ribonucleoprotein complex. RNA-protein complex assembly RNP complex assembly - protein-RNA complex assembly + ribonucleoprotein complex assembly biological_process GO:0022618 - ribonucleoprotein complex assembly + protein-RNA complex assembly @@ -106738,6 +108427,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the frequency, rate or extent of transmembrane transporter activity. biological_process GO:0022898 + regulation of transmembrane transporter activity @@ -106794,80 +108484,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a major histocompatibility complex. - 2010-02-16T09:30:50Z - molecular_function - GO:0023023 - MHC protein complex binding - - - - - Binding to a major histocompatibility complex. - GOC:mtg_signal - GOC:vw - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a class II major histocompatibility complex. - 2010-02-16T09:30:50Z - molecular_function - GO:0023026 - MHC class II protein complex binding - - - - - Binding to a class II major histocompatibility complex. - GOC:mtg_signal - GOC:vw - - - - @@ -106921,7 +108537,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered. jl 2010-02-16T09:30:50Z @@ -107823,6 +109439,42 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of endocytosis. + biological_process + GO:0030100 + regulation of endocytosis + + + + + Any process that modulates the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + @@ -107929,7 +109581,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + https://github.com/geneontology/go-ontology/issues/24390 Wikipedia:Cellular_differentiation biological_process GO:0030154 @@ -107944,7 +109597,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. + The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state. ISBN:0198506732 @@ -108678,62 +110331,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binds to and modulates the activity of an enzyme. - GO:0010576 - catalytic regulator activity - enzyme modulator - metalloenzyme regulator activity - molecular_function - GO:0030234 - - - - - - - - - This term should only be used in cases when the regulator directly interacts with the enzyme. - enzyme regulator activity - - - - - Binds to and modulates the activity of an enzyme. - GOC:dph - GOC:mah - GOC:tb - - - - - catalytic regulator activity - GOC:dph - - - - @@ -108778,88 +110375,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates. - GO:0005529 - sugar binding - molecular_function - selectin - GO:0030246 - - - - - - - - carbohydrate binding - - - - - Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically. - GO:0002506 - polysaccharide assembly with MHC class II protein complex - molecular_function - GO:0030247 - polysaccharide binding - - - - - Binding to a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically. - GOC:mah - - - - @@ -109847,6 +111362,7 @@ The modern definition of neurosecretion has evolved to include the release of an A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell. + https://github.com/geneontology/go-ontology/issues/24514 sulphate ion homeostasis cellular sulfate ion homeostasis biological_process @@ -109858,6 +111374,7 @@ The modern definition of neurosecretion has evolved to include the release of an A homeostatic process involved in the maintenance of a steady state level of sulfate ions within a cell. GOC:mah + PMID:24193406 @@ -109882,6 +111399,7 @@ The modern definition of neurosecretion has evolved to include the release of an cellular phosphate ion homeostasis biological_process GO:0030643 + intracellular phosphate ion homeostasis @@ -113012,79 +114530,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a sodium ion (Na+). - Na+ ion binding - molecular_function - GO:0031402 - sodium ion binding - - - - - Binding to a sodium ion (Na+). - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-). - molecular_function - GO:0031406 - - carboxylic acid binding - - - - - Binding to a carboxylic acid, an organic acid containing one or more carboxyl (COOH) groups or anions (COO-). - GOC:mah - ISBN:0198506732 - - - - @@ -113170,41 +114615,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen. - molecular_function - GO:0031420 - alkali metal ion binding - - - - - Binding to an alkali metal ion; alkali metals are those elements in group Ia of the periodic table, with the exception of hydrogen. - GOC:mah - - - - @@ -113889,41 +115299,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a bile acid, a steroid carboxylic acids occurring in bile. - molecular_function - GO:0032052 - bile acid binding - - - - - Binding to a bile acid, a steroid carboxylic acids occurring in bile. - GOC:rph - - - - @@ -114109,82 +115484,254 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + biological_process + nuclease regulator activity + GO:0032069 + + regulation of nuclease activity + + + + + Any process that modulates the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + biological_process + DNase regulator + deoxyribonuclease regulator + GO:0032070 + + regulation of deoxyribonuclease activity + + + + + Any process that modulates the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + down regulation of nuclease activity + down-regulation of nuclease activity + downregulation of nuclease activity + inhibition of nuclease activity + biological_process + nuclease inhibitor + GO:0032074 + + negative regulation of nuclease activity + + + + + Any process that stops or reduces the rate of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + up regulation of nuclease activity + up-regulation of nuclease activity + upregulation of nuclease activity + activation of nuclease activity + stimulation of nuclease activity + biological_process + nuclease activator + GO:0032075 + + positive regulation of nuclease activity + + + + + Any process that activates or increases the frequency, rate or extent of nuclease activity, the hydrolysis of ester linkages within nucleic acids. + GOC:mah + + + + + + + - + - - + + + - + - Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding. - down regulation of protein binding - down-regulation of protein binding - downregulation of protein binding - inhibition of protein binding + Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + down regulation of deoxyribonuclease activity + down-regulation of deoxyribonuclease activity + downregulation of deoxyribonuclease activity + inhibition of deoxyribonuclease activity biological_process - GO:0032091 - negative regulation of protein binding + DNase inhibitor + deoxyribonuclease inhibitor + GO:0032076 + + negative regulation of deoxyribonuclease activity - + - Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding. + Any process that stops or reduces the rate of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. GOC:mah - + - + - + - - + + + - + - Any process that activates or increases the frequency, rate or extent of protein binding. - up regulation of protein binding - up-regulation of protein binding - upregulation of protein binding - activation of protein binding - stimulation of protein binding + Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. + up regulation of deoxyribonuclease activity + up-regulation of deoxyribonuclease activity + upregulation of deoxyribonuclease activity + activation of deoxyribonuclease activity + stimulation of deoxyribonuclease activity biological_process - GO:0032092 - positive regulation of protein binding + DNase activator + deoxyribonuclease activator + GO:0032077 + + positive regulation of deoxyribonuclease activity - + - Any process that activates or increases the frequency, rate or extent of protein binding. + Any process that activates or increases the frequency, rate or extent of deoxyribonuclease activity, the hydrolysis of ester linkages within deoxyribonucleic acid. GOC:mah @@ -115771,6 +117318,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the activity of a transporter. biological_process GO:0032409 + regulation of transporter activity @@ -115812,6 +117360,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of transporter activity biological_process GO:0032410 + negative regulation of transporter activity @@ -115854,6 +117403,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of transporter activity biological_process GO:0032411 + positive regulation of transporter activity @@ -115891,6 +117441,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of ion transporter activity biological_process GO:0032412 + regulation of monoatomic ion transmembrane transporter activity @@ -115940,6 +117491,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of ion transporter activity biological_process GO:0032413 + negative regulation of ion transmembrane transporter activity @@ -115990,6 +117542,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of ion transporter activity biological_process GO:0032414 + positive regulation of ion transmembrane transporter activity @@ -116683,6 +118236,7 @@ The modern definition of neurosecretion has evolved to include the release of an dsRNA biosynthetic process biological_process GO:0032774 + Note that, in some cases, viral RNA replication and viral transcription from RNA actually refer to the same process, but may be called differently depending on the focus of a specific research study. RNA biosynthetic process @@ -117959,6 +119513,49 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The disaggregation of a protein-DNA complex into its constituent components. + DNA-protein complex disassembly + biological_process + GO:0032986 + protein-DNA complex disassembly + + + + + The disaggregation of a protein-DNA complex into its constituent components. + GOC:mah + + + + + DNA-protein complex disassembly + GOC:mah + + + + @@ -117982,12 +119579,13 @@ The modern definition of neurosecretion has evolved to include the release of an The disaggregation of a protein-RNA complex into its constituent components. + https://github.com/geneontology/go-ontology/issues/25143 RNA-protein complex disassembly RNP complex disassembly - protein-RNA complex disassembly + ribonucleoprotein complex disassembly biological_process GO:0032988 - ribonucleoprotein complex disassembly + protein-RNA complex disassembly @@ -118114,6 +119712,39 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + A macromolecular complex containing both protein and DNA molecules. + DNA-protein complex + cellular_component + GO:0032993 + + Note that this term is intended to classify complexes that have DNA as one of the members of the complex, that is, the complex does not exist if DNA is not present. Protein complexes that interact with DNA e.g. transcription factor complexes should not be classified here. + protein-DNA complex + + + + + A macromolecular complex containing both protein and DNA molecules. + GOC:mah + + + + + DNA-protein complex + GOC:mah + + + + @@ -118928,6 +120559,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid. + D-glutamate metabolism + biological_process + GO:0033054 + D-glutamate metabolic process + + + + + The chemical reactions and pathways involving D-glutamate, the D-enantiomer of the amino acid glutamate, i.e. (2R)-2-aminopentanedioic acid. + GOC:jsg + GOC:mah + + + + @@ -119055,7 +120723,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of iron ions from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis. mah 2009-05-01T04:19:14Z @@ -119079,42 +120758,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group. - molecular_function - GO:0033218 - - amide binding - - - - - Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group. - GOC:mah - - - - @@ -119393,157 +121036,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-). - molecular_function - GO:0033293 - monocarboxylic acid binding - - - - - Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-). - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of collagen binding. - biological_process - GO:0033341 - regulation of collagen binding - - - - - Any process that modulates the frequency, rate or extent of collagen binding. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding. - down regulation of collagen binding - down-regulation of collagen binding - downregulation of collagen binding - inhibition of collagen binding - biological_process - GO:0033342 - negative regulation of collagen binding - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of collagen binding. - GOC:mah - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of collagen binding. - up regulation of collagen binding - up-regulation of collagen binding - upregulation of collagen binding - activation of collagen binding - stimulation of collagen binding - biological_process - GO:0033343 - positive regulation of collagen binding - - - - - Any process that activates or increases the frequency, rate or extent of collagen binding. - GOC:mah - - - - @@ -120020,6 +121512,7 @@ The modern definition of neurosecretion has evolved to include the release of an kinase inhibitor biological_process GO:0033673 + negative regulation of kinase activity @@ -120062,6 +121555,7 @@ The modern definition of neurosecretion has evolved to include the release of an stimulation of kinase activity biological_process GO:0033674 + positive regulation of kinase activity @@ -120073,33 +121567,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell. - cellular glycan biosynthesis - cellular glycan biosynthetic process - cellular polysaccharide anabolism - cellular polysaccharide biosynthesis - cellular polysaccharide formation - cellular polysaccharide synthesis - biological_process - GO:0033692 - cellular polysaccharide biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, occurring at the level of an individual cell. - GOC:go_curators - - - - @@ -121486,26 +122953,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells. - biological_process - GO:0034637 - cellular carbohydrate biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, carried out by individual cells. - GOC:mah - - - - @@ -121527,62 +122974,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells. - GO:0034961 - cellular biopolymer biosynthetic process - cellular macromolecule anabolism - cellular macromolecule biosynthesis - cellular macromolecule formation - cellular macromolecule synthesis - biological_process - GO:0034645 - cellular macromolecule biosynthetic process - - - - - The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, carried out by individual cells. - GOC:mah - - - - - cellular biopolymer biosynthetic process - GOC:mtg_chebi_dec09 - - - - - cellular macromolecule anabolism - GOC:mah - - - - - cellular macromolecule biosynthesis - GOC:mah - - - - - cellular macromolecule formation - GOC:mah - - - - - cellular macromolecule synthesis - GOC:mah - - - - @@ -123382,122 +124773,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:28:36Z - biological_process - GO:0035561 - regulation of chromatin binding - - - - - Any process that modulates the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:29:06Z - biological_process - GO:0035562 - negative regulation of chromatin binding - - - - - Any process that stops or reduces the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - bf - 2010-05-19T10:29:41Z - biological_process - GO:0035563 - positive regulation of chromatin binding - - - - - Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. - GOC:bf - PMID:20404130 - - - - @@ -124514,7 +125789,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -125491,31 +126765,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule. - bf - 2012-01-17T04:20:34Z - molecular_function - GO:0036094 - - - Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides. - small molecule binding - - - - - Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule. - GOC:curators - GOC:pde - GOC:pm - - - - @@ -126018,6 +127267,7 @@ The modern definition of neurosecretion has evolved to include the release of an The joining of two lipid bilayers that surround the Golgi apparatus to form a single Golgi membrane. bf 2015-05-21T10:05:06Z + Golgi apparatus membrane fusion membrane fusion involved in Golgi reassembly post-mitotic fusion of Golgi membranes biological_process @@ -127589,61 +128839,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. - molecular_function - GO:0042165 - - neurotransmitter binding - - - - - Binding to a neurotransmitter, any chemical substance that is capable of transmitting (or inhibiting the transmission of) a nerve impulse from a neuron to another cell. - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions. - molecular_function - GO:0042166 - acetylcholine binding - - - - - Binding to acetylcholine, an acetic acid ester of the organic base choline that functions as a neurotransmitter, released at the synapses of parasympathetic nerves and at neuromuscular junctions. - GOC:ai - - - - @@ -128233,78 +129428,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds. - molecular_function - GO:0042277 - - - peptide binding - - - - - Binding to a peptide, an organic compound comprising two or more amino acids linked by peptide bonds. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a phosphate ion. - molecular_function - GO:0042301 - phosphate ion binding - - - - - Binding to a phosphate ion. - GOC:jl - - - - @@ -129099,7 +130222,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129122,7 +130245,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129135,7 +130258,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + A tissue-specific, membrane-bounded cytoplasmic organelle within which melanin pigments are synthesized and stored. Melanosomes are synthesized in melanocyte cells. @@ -129144,7 +130267,7 @@ The modern definition of neurosecretion has evolved to include the release of an GO:0042470 melanosome - + @@ -129152,7 +130275,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -129160,26 +130283,26 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + GOC:kmv - + GOC:kmv - + GOC:kmv @@ -129389,26 +130512,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor. - molecular_function - GO:0042562 - - - hormone binding - - - - - Binding to an hormone, a naturally occurring substance secreted by specialized cells that affect the metabolism or behavior of cells possessing functional receptors for the hormone. Hormones may be produced by the same, or different, cell as express the receptor. - GOC:jl - - - - @@ -129940,6 +131043,89 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + biological_process + GO:0042940 + D-amino acid transport + + + + + The directed movement of the D-enantiomer of an amino acid into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:jl + GOC:jsg + GOC:mah + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids. + D-amino acid transporter activity + molecular_function + GO:0042943 + D-amino acid transmembrane transporter activity + + + + + Enables the transfer of D-amino acids from one side of a membrane to the other. D-amino acids are the D-enantiomers of amino acids. + GOC:jl + GOC:jsg + GOC:mah + GOC:mtg_transport + ISBN:0815340729 + + + + @@ -130387,98 +131573,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a complex of RNA and protein. - RNP binding - protein-RNA complex binding - ribonucleoprotein binding - molecular_function - GO:0043021 - - ribonucleoprotein complex binding - - - - - Binding to a complex of RNA and protein. - GOC:bf - GOC:go_curators - GOC:vk - - - - - protein-RNA complex binding - GOC:bf - GOC:vk - - - - - ribonucleoprotein binding - GOC:bf - GOC:vk - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a ribosome. - GO:0030376 - ribosome receptor activity - molecular_function - GO:0043022 - ribosome binding - - - - - Binding to a ribosome. - GOC:go_curators - - - - @@ -130878,7 +131972,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -130915,8 +132009,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -130959,7 +132053,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -131062,6 +132156,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0043085 + positive regulation of catalytic activity @@ -131118,6 +132213,7 @@ The modern definition of neurosecretion has evolved to include the release of an negative regulation of metalloenzyme activity biological_process GO:0043086 + negative regulation of catalytic activity @@ -131291,116 +132387,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an ion, a charged atoms or groups of atoms. - molecular_function - atom binding - GO:0043167 - - - - - ion binding - - - - - Binding to an ion, a charged atoms or groups of atoms. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an anion, a charged atom or group of atoms with a net negative charge. - molecular_function - GO:0043168 - anion binding - - - - - Binding to an anion, a charged atom or group of atoms with a net negative charge. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a cation, a charged atom or group of atoms with a net positive charge. - molecular_function - GO:0043169 - cation binding - - - - - Binding to a cation, a charged atom or group of atoms with a net positive charge. - GOC:jl - - - - @@ -131423,6 +132409,7 @@ The modern definition of neurosecretion has evolved to include the release of an The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. + GO:0034960 GO:0043283 GO:0044259 biopolymer metabolic process @@ -131489,118 +132476,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group. - molecular_function - GO:0043176 - - amine binding - - - - - Binding to an amine, a weakly basic organic compound that contains an amino or a substituted amino group. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to an organic acid, any acidic compound containing carbon in covalent linkage. - molecular_function - GO:0043177 - organic acid binding - - - - - Binding to an organic acid, any acidic compound containing carbon in covalent linkage. - GOC:jl - ISBN:0198506732 - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a vascular endothelial growth factor receptor 2. - KDR binding - Flk-1 binding - VEGF receptor 2 binding - VEGFR 2 binding - kinase domain region binding - molecular_function - GO:0043184 - vascular endothelial growth factor receptor 2 binding - - - - - Binding to a vascular endothelial growth factor receptor 2. - GOC:st - - - - @@ -131665,42 +132540,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to sulfate, SO4(2-), a negatively charged small molecule. - molecular_function - GO:0043199 - sulfate binding - - - - - Binding to sulfate, SO4(2-), a negatively charged small molecule. - GOC:mlg - - - - @@ -132761,41 +133600,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of protein binding. - biological_process - GO:0043393 - regulation of protein binding - - - - - Any process that modulates the frequency, rate or extent of protein binding. - GOC:go_curators - - - - @@ -132991,44 +133795,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells. - biological_process - GO:0043471 - regulation of cellular carbohydrate catabolic process - - - - - Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of carbohydrates, carried out by individual cells. - GOC:jl - - - - @@ -133513,6 +134279,7 @@ The modern definition of neurosecretion has evolved to include the release of an Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule. biological_process GO:0043549 + regulation of kinase activity @@ -133524,69 +134291,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms. - - molecular_function - GO:0043559 - insulin binding - - - - - Binding to insulin, a polypeptide hormone produced by the islets of Langerhans of the pancreas in mammals, and by the homologous organs of other organisms. - ISBN:0198506732 - - - - @@ -134744,6 +135448,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2009-04-21T04:07:27Z biological_process GO:0044092 + negative regulation of molecular function @@ -134781,6 +135486,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2009-04-21T04:11:06Z biological_process GO:0044093 + positive regulation of molecular function @@ -134831,6 +135537,7 @@ The modern definition of neurosecretion has evolved to include the release of an intermediary metabolism GO:0044237 + This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term. cellular metabolic process @@ -134869,29 +135576,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells. - cellular polysaccharide breakdown - cellular polysaccharide catabolism - cellular polysaccharide degradation - biological_process - GO:0044247 - cellular polysaccharide catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of polysaccharides, polymers of many (typically more than 10) monosaccharide residues linked glycosidically, as carried out by individual cells. - GOC:jl - - - - @@ -134976,111 +135660,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells. - GO:0034960 - cellular biopolymer metabolic process - cellular macromolecule metabolism - biological_process - GO:0044260 - cellular macromolecule metabolic process - - - - - The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass, as carried out by individual cells. - GOC:mah - - - - - cellular biopolymer metabolic process - GOC:mtg_chebi_dec09 - - - - - - - - - - The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GO:0006092 - cellular carbohydrate metabolism - main pathways of carbohydrate metabolic process - main pathways of carbohydrate metabolism - biological_process - GO:0044262 - cellular carbohydrate metabolic process - - - - - The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:jl - - - - - - - - - - - The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells. - cellular glycan metabolic process - cellular glycan metabolism - cellular polysaccharide metabolism - biological_process - GO:0044264 - cellular polysaccharide metabolic process - - - - - The chemical reactions and pathways involving polysaccharides, polymers of more than 10 monosaccharide residues joined by glycosidic linkages, as carried out by individual cells. - GOC:jl - - - - - - - - - - - The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells. - GO:0034962 - cellular biopolymer catabolic process - cellular macromolecule breakdown - cellular macromolecule catabolism - cellular macromolecule degradation - biological_process - GO:0044265 - cellular macromolecule catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates, as carried out by individual cells. - GOC:jl - - - - - cellular biopolymer catabolic process - GOC:mtg_chebi_dec09 - - - - @@ -135211,29 +135790,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - cellular carbohydrate breakdown - cellular carbohydrate catabolism - cellular carbohydrate degradation - biological_process - GO:0044275 - cellular carbohydrate catabolic process - - - - - The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells. - GOC:jl - - - - @@ -135852,84 +136408,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A protein complex that plays a role in the process of DNA packaging. - jl - 2013-09-19T11:33:45Z - cellular_component - GO:0044815 - DNA packaging complex - - - - - A protein complex that plays a role in the process of DNA packaging. - GOC:jl - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a macromolecular complex. - jl - 2014-12-16T11:38:58Z - GO:0032403 - protein complex binding - molecular_function - macromolecular complex binding - GO:0044877 - - protein-containing complex binding - - - - - Binding to a macromolecular complex. - GOC:jl - - - - @@ -136101,7 +136579,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field. + The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate. + https://github.com/geneontology/go-ontology/issues/24390 biological_process GO:0045165 Note that this term was 'cell fate determination' but the term name was changed to better match its existing definition and the child term 'cell fate determination; GO:0001709' was also created. @@ -136110,7 +136589,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells. Positional information is established through protein signals that emanate from a localized source within a cell (the initial one-cell zygote) or within a developmental field. + The cellular developmental process by which a cell establishes the intrinsic character of a cell or tissue region irreversibly committing it to a particular fate. ISBN:0716731185 @@ -136167,48 +136646,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome. - translation factor activity - molecular_function - GO:0045182 - - - - - - - translation regulator activity - - - - - Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome. - GOC:ai - - - - @@ -136688,41 +137125,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to cadherin, a type I membrane protein involved in cell adhesion. - molecular_function - GO:0045296 - cadherin binding - - - - - Binding to cadherin, a type I membrane protein involved in cell adhesion. - GOC:bf - - - - @@ -139342,8 +139744,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -139387,8 +139789,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -140579,6 +140981,89 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis. + down regulation of endocytosis + down-regulation of endocytosis + downregulation of endocytosis + inhibition of endocytosis + biological_process + GO:0045806 + negative regulation of endocytosis + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of endocytosis. + up regulation of endocytosis + up-regulation of endocytosis + upregulation of endocytosis + activation of endocytosis + stimulation of endocytosis + biological_process + GO:0045807 + positive regulation of endocytosis + + + + + Any process that activates or increases the frequency, rate or extent of endocytosis. + GOC:go_curators + + + + @@ -142852,6 +143337,84 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids. + D-amino acid metabolism + biological_process + GO:0046416 + D-amino acid metabolic process + + + + + The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + + + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids. + D-amino acid anabolism + D-amino acid biosynthesis + D-amino acid formation + D-amino acid synthesis + biological_process + GO:0046437 + D-amino acid biosynthetic process + + + + + The chemical reactions and pathways resulting in the formation of D-amino acids, the D-enantiomers of amino acids. + GOC:ai + GOC:jsg + + + + @@ -143970,48 +144533,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin. - hydroxylapatite binding - molecular_function - GO:0046848 - hydroxyapatite binding - - - - - Binding to hydroxyapatite, the calcium phosphate mineral of formula Ca10(PO4)6(OH)2 found both in rocks of nonorganic origin and as a component of bone and dentin. - PMID:2438276 - - - - - hydroxylapatite binding - GOC:vk - - - - @@ -144148,47 +144669,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a metal ion. - metal binding - heavy metal binding - molecular_function - GO:0046872 - - - - - metal ion binding - - - - - Binding to a metal ion. - GOC:ai - - - - @@ -144498,46 +144978,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position. - porphyrin binding - molecular_function - GO:0046906 - - - tetrapyrrole binding - - - - - Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position. - GOC:curators - ISBN:0198506732 - - - - @@ -144586,41 +145026,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver. - molecular_function - GO:0046914 - transition metal ion binding - - - - - Binding to a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver. - ISBN:0198506732 - - - - @@ -144866,42 +145271,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides. - molecular_function - GO:0048029 - monosaccharide binding - - - - - Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides. - GOC:jid - - - - @@ -145408,6 +145777,61 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + The evagination of the Golgi membrane, resulting in formation of a vesicle. + Golgi-derived vesicle budding + dictyosome vesicle budding + biological_process + GO:0048194 + Golgi vesicle budding + + + + + The evagination of the Golgi membrane, resulting in formation of a vesicle. + GOC:jid + ISBN:0716731363 + PMID:10219233 + + + + @@ -145864,6 +146288,7 @@ The modern definition of neurosecretion has evolved to include the release of an The partitioning of Golgi apparatus between daughter cells at cell division. + Golgi apparatus inheritance Golgi division Golgi partitioning biological_process @@ -146475,7 +146900,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. + The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place. + https://github.com/geneontology/go-ontology/issues/24390 biological_process terminal differentiation GO:0048468 @@ -146485,7 +146911,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The process whose specific outcome is the progression of the cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. + The cellular developmental process in which a specific cell progresses from an immature to a mature state. Cell development start once cell commitment has taken place. GOC:go_curators @@ -146526,7 +146952,8 @@ The modern definition of neurosecretion has evolved to include the release of an - A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state. + The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state. + https://github.com/geneontology/go-ontology/issues/24390 biological_process functional differentiation GO:0048469 @@ -146536,7 +146963,7 @@ The modern definition of neurosecretion has evolved to include the release of an - A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state. + The cellular developmental process, independent of morphogenetic (shape) change, that is required for a specific cell to attain its fully functional state. GOC:go_curators @@ -151897,7 +152324,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -151959,8 +152386,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -151999,8 +152426,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - @@ -152571,6 +152998,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0050790 + regulation of catalytic activity @@ -153123,67 +153551,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a cell adhesion molecule. - CAM binding - molecular_function - adhesive extracellular matrix constituent - cell adhesion molecule activity - cell adhesion receptor activity - GO:0050839 - cell adhesion molecule binding - - - - - Binding to a cell adhesion molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a component of the extracellular matrix. - extracellular matrix constituent binding - molecular_function - adhesive extracellular matrix constituent - GO:0050840 - - - extracellular matrix binding - - - - - Binding to a component of the extracellular matrix. - GOC:ai - - - - @@ -154500,6 +154867,41 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + biological_process + GO:0051027 + DNA transport + + + + + The directed movement of RNA, deoxyribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. + GOC:ai + + + + @@ -154590,6 +154992,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + + + + Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other. + molecular_function + GO:0051035 + DNA transmembrane transporter activity + + + + + Enables the transfer of DNA, deoxyribonucleic acid, from one side of a membrane to the other. + GOC:ai + + + + @@ -154823,6 +155266,129 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA. + regulation of DNA metabolism + biological_process + GO:0051052 + + regulation of DNA metabolic process + + + + + Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA. + down regulation of DNA metabolic process + down-regulation of DNA metabolic process + downregulation of DNA metabolic process + negative regulation of DNA metabolism + inhibition of DNA metabolic process + biological_process + GO:0051053 + negative regulation of DNA metabolic process + + + + + Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA. + positive regulation of DNA metabolism + up regulation of DNA metabolic process + up-regulation of DNA metabolic process + upregulation of DNA metabolic process + activation of DNA metabolic process + stimulation of DNA metabolic process + biological_process + GO:0051054 + positive regulation of DNA metabolic process + + + + + Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA. + GOC:ai + + + + @@ -154875,41 +155441,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters. - molecular_function - GO:0051059 - NF-kappaB binding - - - - - Binding to NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters. - GOC:ai - - - - @@ -155065,122 +155596,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - biological_process - GO:0051098 - regulation of binding - - - - - Any process that modulates the frequency, rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - up regulation of binding - up-regulation of binding - upregulation of binding - activation of binding - stimulation of binding - biological_process - GO:0051099 - positive regulation of binding - - - - - Any process that activates or increases the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - down regulation of binding - down-regulation of binding - downregulation of binding - inhibition of binding - biological_process - GO:0051100 - negative regulation of binding - - - - - Any process that stops or reduces the rate or extent of binding, the selective interaction of a molecule with one or more specific sites on another molecule. - GOC:ai - - - - @@ -157120,6 +157535,12 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + @@ -157139,6 +157560,7 @@ The modern definition of neurosecretion has evolved to include the release of an Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions. + https://github.com/geneontology/go-ontology/issues/24599 GO:0007126 Wikipedia:Meiosis biological_process @@ -157158,6 +157580,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3. + hydrolase regulator + biological_process + GO:0051336 + + regulation of hydrolase activity + + + + + Any process that modulates the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3. + GOC:ai + + + + @@ -157184,6 +157643,7 @@ The modern definition of neurosecretion has evolved to include the release of an biological_process GO:0051338 + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. regulation of transferase activity @@ -157196,161 +157656,175 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + - + - + - + - Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. - transferase activator - up regulation of transferase activity - up-regulation of transferase activity - upregulation of transferase activity - activation of transferase activity - stimulation of transferase activity + Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds. + hydrolase activator + up regulation of hydrolase activity + up-regulation of hydrolase activity + upregulation of hydrolase activity + activation of hydrolase activity + stimulation of hydrolase activity biological_process - GO:0051347 - - This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. - positive regulation of transferase activity + GO:0051345 + + positive regulation of hydrolase activity - + - Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + Any process that activates or increases the frequency, rate or extent of hydrolase activity, the catalysis of the hydrolysis of various bonds. GOC:ai - + - + - + - + - + - Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. - down regulation of transferase activity - down-regulation of transferase activity - downregulation of transferase activity - transferase inhibitor - inhibition of transferase activity + Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds. + down regulation of hydrolase activity + down-regulation of hydrolase activity + downregulation of hydrolase activity + hydrolase inhibitor + inhibition of hydrolase activity biological_process - GO:0051348 - - This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. - negative regulation of transferase activity + GO:0051346 + + negative regulation of hydrolase activity - + - Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds. GOC:ai - + - + - + - - + + - - + + - - + + - Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties. - 5-hydroxytryptamine binding - molecular_function - GO:0051378 - serotonin binding + Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + transferase activator + up regulation of transferase activity + up-regulation of transferase activity + upregulation of transferase activity + activation of transferase activity + stimulation of transferase activity + biological_process + GO:0051347 + + + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. + positive regulation of transferase activity - + - Binding to serotonin (5-hydroxytryptamine), a monoamine neurotransmitter occurring in the peripheral and central nervous systems, also having hormonal properties. + Any process that activates or increases the frequency, rate or extent of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. GOC:ai - + - + - + - - + + - + + - - + + - Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine. - noradrenaline binding - molecular_function - GO:0051380 - norepinephrine binding + Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. + down regulation of transferase activity + down-regulation of transferase activity + downregulation of transferase activity + transferase inhibitor + inhibition of transferase activity + biological_process + GO:0051348 + + + This term is useful for grouping, but is too general for manual annotation. Please use a child term instead. + negative regulation of transferase activity - + - Binding to norepinephrine, (3,4-dihydroxyphenyl-2-aminoethanol), a hormone secreted by the adrenal medulla and a neurotransmitter in the sympathetic peripheral nervous system and in some tracts of the CNS. It is also the biosynthetic precursor of epinephrine. + Any process that stops or reduces the rate of transferase activity, the catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from a donor compound to an acceptor. GOC:ai @@ -158409,7 +158883,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of acetylcholine into a cell, typically presynaptic neurons or glial cells. Acetylcholine is a major neurotransmitter and neuromodulator both in the central and peripheral nervous systems. It also acts as a paracrine signal in various non-neural tissues. acetylcholine import biological_process @@ -159727,6 +160212,52 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle. + L-glutamate uptake + biological_process + GO:0051938 + L-glutamate import + + + + + The directed movement of L-glutamate, the L-enantiomer of the anion of 2-aminopentanedioic acid, into a cell or organelle. + GOC:ai + GOC:jsg + GOC:mah + + + + + L-glutamate uptake + GOC:dph + GOC:tb + + + + @@ -161597,45 +162128,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell. - iron homeostasis - biological_process - GO:0055072 - iron ion homeostasis - - - - - Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell. - GOC:ai - GOC:jid - GOC:mah - - - - @@ -162737,6 +163229,43 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter. + biological_process + serotonin release, neurotransmission + GO:0060096 + serotonin secretion, neurotransmission + + + + + The regulated release of serotonin by a cell, in which released serotonin acts as a neurotransmitter. + GOC:dph + + + + + serotonin release, neurotransmission + GOC:tb + + + + @@ -167221,46 +167750,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - dph - 2009-04-13T01:56:10Z - biological_process - GO:0060548 - negative regulation of cell death - - - - - Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death. - GOC:BHF - GOC:dph - GOC:tb - - - - @@ -167778,8 +168267,15 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + A chemical homeostatic process involved in the maintenance of a steady state level of iron within extracellular body fluids, such as blood, xylem or phloem, of a multicellular organism. This is distinct from maintenance of cellular homeostasis, which occurs within a cell. https://github.com/geneontology/go-ontology/issues/24554 dph @@ -172487,6 +172983,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -174962,11 +175459,62 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter. + dph + 2013-06-21T16:05:08Z + noradrenaline secretion, neurotransmission + biological_process + GO:0061533 + norepinephrine secretion, neurotransmission + + + + + The regulated release of norepinephrine by a cell, in which the norepinephrine acts as a neurotransmitter. + GOC:dph + + + + + noradrenaline secretion, neurotransmission + GOC:dph + + + + + + + + + + + + + + + + @@ -175895,36 +176443,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - dph - 2014-05-15T09:12:24Z - GO:0001085 - GO:0001102 - GO:0001103 - RNA polymerase II sequence-specific DNA binding transcription factor binding - RNA polymerase II sequence-specific DNA-binding transcription factor binding - molecular_function - RNA polymerase II activating transcription factor binding - RNA polymerase II repressing transcription factor binding - RNA polymerase II transcription factor binding - GO:0061629 - RNA polymerase II-specific DNA-binding transcription factor binding - - - - - Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription. - GOC:dph - GOC:vw - - - - @@ -176845,6 +177363,49 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex. + DNA-protein complex assembly + biological_process + GO:0065004 + protein-DNA complex assembly + + + + + The aggregation, arrangement and bonding together of proteins and DNA molecules to form a protein-DNA complex. + GOC:jl + + + + + DNA-protein complex assembly + GOC:mah + + + + @@ -176898,6 +177459,7 @@ The modern definition of neurosecretion has evolved to include the release of an + regulation of molecular function @@ -177013,43 +177575,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade. - molecular_function - GO:0070051 - fibrinogen binding - - - - - Binding to fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade. - GOC:BHF - GOC:mah - GOC:vk - - - - @@ -178798,43 +179323,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to ammonium ions (NH4+). - molecular_function - ammonium binding - GO:0070405 - ammonium ion binding - - - - - Binding to ammonium ions (NH4+). - CHEBI:28938 - GOC:ecd - - - - @@ -179442,27 +179930,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a growth factor receptor. - mah - 2009-08-07T11:23:02Z - molecular_function - GO:0070851 - growth factor receptor binding - - - - - Binding to a growth factor receptor. - GOC:mah - GOC:vw - - - - @@ -179747,7 +180214,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -179794,7 +180260,8 @@ The modern definition of neurosecretion has evolved to include the release of an - + + @@ -179841,6 +180308,7 @@ The modern definition of neurosecretion has evolved to include the release of an + @@ -181927,6 +182395,58 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex. + mah + 2010-09-08T10:03:26Z + DNA-protein complex subunit organization + protein-DNA complex subunit organisation + protein-DNA complex subunit organization + biological_process + GO:0071824 + protein-DNA complex organization + + + + + Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein-DNA complex. + GOC:mah + + + + + DNA-protein complex subunit organization + GOC:mah + + + + + protein-DNA complex subunit organisation + GOC:mah + + + + @@ -181949,14 +182469,16 @@ The modern definition of neurosecretion has evolved to include the release of an Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a ribonucleoprotein complex. + https://github.com/geneontology/go-ontology/issues/25143 mah 2010-09-08T10:10:35Z RNA-protein complex subunit organization protein-RNA complex subunit organization ribonucleoprotein complex subunit organisation + ribonucleoprotein complex subunit organization biological_process GO:0071826 - ribonucleoprotein complex subunit organization + protein-RNA complex organization @@ -182388,47 +182910,69 @@ The modern definition of neurosecretion has evolved to include the release of an - + - + - + - - + + - + + + - - + + - Binding to bicarbonate ions (CHO3-). + The biosynthetic process resulting in the formation of DNA. mah - 2010-09-14T01:47:43Z - CHO3- ion binding binding - hydrogencarbonate binding - molecular_function - GO:0071890 - bicarbonate binding + 2010-09-15T02:14:33Z + DNA anabolism + DNA biosynthesis + DNA formation + DNA synthesis + biological_process + GO:0071897 + DNA biosynthetic process - + - Binding to bicarbonate ions (CHO3-). - GOC:curators + The biosynthetic process resulting in the formation of DNA. + GOC:mah - + - hydrogencarbonate binding - CHEBI:17544 + DNA anabolism + GOC:mah + + + + + DNA biosynthesis + GOC:mah + + + + + DNA formation + GOC:mah + + + + + DNA synthesis + GOC:mah @@ -182437,7 +182981,7 @@ The modern definition of neurosecretion has evolved to include the release of an - The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures. + The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures. mah 2010-10-04T01:51:47Z cellular_component @@ -182448,8 +182992,8 @@ The modern definition of neurosecretion has evolved to include the release of an - The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures. - GOC:mah + The broad region around and including the plasma membrane of a cell, encompassing the cell cortex (inside the cell), the plasma membrane, and any external encapsulating structures. + GOC:pdt @@ -185269,6 +185813,7 @@ The modern definition of neurosecretion has evolved to include the release of an A cellular process that results in the breakdown of a Golgi apparatus that contributes to Golgi inheritance. tb 2009-12-08T09:15:11Z + Golgi apparatus disassembly biological_process GO:0090166 Golgi disassembly @@ -185298,6 +185843,7 @@ The modern definition of neurosecretion has evolved to include the release of an The reformation of the Golgi following its breakdown and partitioning contributing to Golgi inheritance. tb 2009-12-08T09:15:11Z + Golgi apparatus reassembly biological_process GO:0090168 Golgi reassembly @@ -186233,7 +186779,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of catecholamine into a cell. tb 2012-10-17T11:06:17Z @@ -186745,6 +187302,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid. + pr + 2011-05-24T04:30:38Z + L-glutamate anabolism + L-glutamate biosynthesis + L-glutamate formation + L-glutamate synthesis + biological_process + GO:0097054 + L-glutamate biosynthetic process + + + + + The chemical reactions and pathways resulting in the formation of L-glutamate, the L enantiomer anion of 2-aminopentanedioic acid. + GOC:yaf + + + + @@ -187013,44 +187611,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure. - pr - 2011-09-23T02:31:01Z - molecular_function - GO:0097159 - organic cyclic compound binding - - - - - Binding to an organic cyclic compound, any molecular entity that contains carbon arranged in a cyclic molecular structure. - GOC:sjw - PMID:7583672 - - - - @@ -187604,45 +188164,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a carbohydrate derivative. - pr - 2012-08-02T13:03:39Z - molecular_function - GO:0097367 - - - carbohydrate derivative binding - - - - - Binding to a carbohydrate derivative. - GOC:pr - - - - @@ -188273,45 +188794,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter. - iron channel inhibitor activity - molecular_function - GO:0097690 - An example of this is human hepcidin (UniProt symbol P81172), which regulates iron transport out of cells (see PMID:15514116). - iron ion transmembrane transporter inhibitor activity - - - - - Binds to and stops, prevents, or reduces the activity of an iron ion transmembrane transporter. - GOC:BHF - GOC:kom - PMID:15514116 - - - - @@ -188768,120 +189250,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell. - https://github.com/geneontology/go-ontology/issues/22959 - cell adhesion molecule - protein binding involved in cell adhesion - molecular_function - GO:0098631 - - - cell adhesion mediator activity - - - - - The binding by a cell-adhesion protein on a cell surface to an adhesion molecule on another cell surface or an external substrate, to mediate adhesion of the cell to the external substrate or to another cell. - GOC:vw - Wikipedia:Cell_adhesion - - - - - - - - - - - - - - - - - - - - - - - - - - The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell. - cell-cell adhesion molecule - protein binding involved in cell-cell adhesion - molecular_function - GO:0098632 - cell-cell adhesion mediator activity - - - - - The binding by a cell-adhesion protein on the cell surface to an extracellular matrix component, to mediate adhesion of the cell to another cell. - Wikipedia:Cell_adhesion - - - - - - - - - - - - - - - - - - - - - - - - - - Binding to a collagen fibril. - molecular_function - GO:0098633 - collagen fibril binding - - - - - Binding to a collagen fibril. - GOC:dos - PMID:21421911 - - - - @@ -188954,36 +189322,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - Any cadherin binding that occurs as part of the process of cell-cell adhesion. - molecular_function - GO:0098641 - cadherin binding involved in cell-cell adhesion - - - - - Any cadherin binding that occurs as part of the process of cell-cell adhesion. - GOC:dos - - - - @@ -189191,7 +189529,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -189210,7 +189548,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -189571,6 +189909,7 @@ The modern definition of neurosecretion has evolved to include the release of an https://github.com/geneontology/go-ontology/issues/24455 biological_process GO:0098771 + inorganic ion homeostasis @@ -189582,55 +189921,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition. - https://github.com/geneontology/go-ontology/issues/20854 - https://github.com/geneontology/go-ontology/issues/20862 - molecular function regulator - molecular_function - GO:0098772 - - - - - molecular function regulator activity - - - - - A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition. - GOC:dos - GOC:pt - - - - @@ -192545,16 +192835,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - @@ -192563,22 +192843,17 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - + + - + - + - + Cell-cell signaling to, from or within a synapse. - biological_process GO:0099536 @@ -192828,13 +193103,8 @@ The modern definition of neurosecretion has evolved to include the release of an + - - - - - - Cell-cell signaling between presynapse and postsynapse, across the synaptic cleft, that modulates the synaptic transmission properties of the synapse. biological_process GO:0099550 @@ -194731,6 +195001,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T18:53:55Z biological_process GO:0110112 + regulation of lipid transporter activity @@ -194773,6 +195044,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T19:14:13Z biological_process GO:0110113 + positive regulation of lipid transporter activity @@ -194815,6 +195087,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2018-07-06T19:21:44Z biological_process GO:0110114 + negative regulation of lipid transporter activity @@ -195108,6 +195381,7 @@ The modern definition of neurosecretion has evolved to include the release of an 2019-08-12T18:01:37Z cellular_component GO:0110165 + cellular anatomical entity @@ -195235,45 +195509,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin. - https://github.com/geneontology/go-ontology/issues/13143 - krc - 2017-03-17T14:54:21Z - molecular_function - GO:0120023 - somatostatin binding - - - - - Binding to somatostatin, a polypeptide hormone involved in regulating pancreatic alpha and pancreatic beta cells and controlling growth hormone secretion as well as many other functions. Somatostatin is produced by several cell types including pancreatic delta cells. There are several different mature forms of somatostatin. - GOC:cvs - PMID:20472043 - - - - @@ -196592,6 +196827,47 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Catalytic activity that acts to modify DNA. + https://github.com/geneontology/go-ontology/issues/14225 + pg + 2017-09-14T12:03:51Z + molecular_function + GO:0140097 + + + catalytic activity, acting on DNA + + + + + Catalytic activity that acts to modify DNA. + GOC:molecular_function_refactoring + GOC:pdt + + + + @@ -196818,6 +197094,90 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/synapse/issues/230 + pg + 2018-07-15T07:33:55Z + biological_process + GO:0140238 + + Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. + presynaptic endocytosis + + + + + A vesicle-mediated transport process in which the presynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + PMID:24719103 + + + + + + + + + + + + + + + + + + + + + + + + + + + + A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + https://github.com/geneontology/synapse/issues/230 + pg + 2018-07-15T07:38:27Z + biological_process + GO:0140239 + + Note that this term was created for the SynGO project, and will be obsoleted when the SynGO annotations are made in Noctua. + postsynaptic endocytosis + + + + + A vesicle-mediated transport process in which the postsynapse take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle. + PMID:12839988 + + + + @@ -197389,33 +197749,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. - https://github.com/geneontology/go-ontology/issues/19354 - pg - 2018-11-28T12:48:20Z - GO:0001107 - GO:0033613 - GO:0070491 - molecular_function - activating transcription factor binding - repressing transcription factor binding - transcription activator binding - GO:0140297 - DNA-binding transcription factor binding - - - - - Binding to a DNA-binding transcription factor, a protein that interacts with a specific DNA sequence (sometimes referred to as a motif) within the regulatory region of a gene to modulate transcription. - GOC:txnOH-2018 - - - - @@ -197584,7 +197917,18 @@ The modern definition of neurosecretion has evolved to include the release of an - + + + + + + + + + + + + The directed movement of a lipid from outside of a cell into a cell. This may occur via transport across the plasma membrane or via endocytosis. pg 2019-05-22T11:38:15Z @@ -197756,82 +198100,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - https://github.com/geneontology/go-ontology/issues/21782 - pg - 2021-07-07T07:24:16Z - molecular_function - GO:0140677 - molecular function activator activity - - - - - A molecular function regulator that activates or increases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - GOC:curators - - - - - - - - - - - - - - - - - - - - - - - - - - A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - https://github.com/geneontology/go-ontology/issues/21782 - pg - 2021-07-07T07:24:32Z - molecular_function - GO:0140678 - molecular function inhibitor activity - - - - - A molecular function regulator that inhibits or decreases the activity of its target via non-covalent binding that does not result in covalent modification to the target. - GOC:curators - - - - @@ -197988,43 +198256,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active. - cellular_component - GO:0150005 - enzyme activator complex - - - - - A protein complex capable of activating an enzyme. Activating subunits may dissociate from the catalytic unit before the enzyme is active. - GOC:bhm - PMID:16244137 - PMID:28710280 - - - - @@ -199609,192 +199840,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:40:53Z - regulation of receptor ligand - biological_process - GO:1900120 - regulation of receptor binding - - - - - Any process that modulates the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - regulation of receptor ligand - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:40:57Z - down regulation of receptor binding - down-regulation of receptor binding - downregulation of receptor binding - inhibition of receptor binding - inhibition of receptor ligand - biological_process - down regulation of receptor-associated protein activity - GO:1900121 - negative regulation of receptor binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - down regulation of receptor binding - GOC:TermGenie - - - - - down-regulation of receptor binding - GOC:TermGenie - - - - - downregulation of receptor binding - GOC:TermGenie - - - - - inhibition of receptor binding - GOC:TermGenie - - - - - inhibition of receptor ligand - GOC:TermGenie - - - - - down regulation of receptor-associated protein activity - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor. - bf - 2012-02-22T11:41:00Z - up regulation of receptor binding - upregulation of receptor binding - activation of receptor binding - biological_process - GO:1900122 - positive regulation of receptor binding - - - - - Any process that activates or increases the frequency, rate or extent of a protein or other molecule binding to a receptor. - GOC:TermGenie - GOC:signaling - - - - - up regulation of receptor binding - GOC:TermGenie - - - - - upregulation of receptor binding - GOC:TermGenie - - - - - activation of receptor binding - GOC:TermGenie - - - - @@ -200280,178 +200325,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:03Z - biological_process - GO:1900130 - regulation of lipid binding - - - - - Any process that modulates the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:07Z - down regulation of lipid binding - down-regulation of lipid binding - downregulation of lipid binding - inhibition of lipid binding - biological_process - GO:1900131 - negative regulation of lipid binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - down regulation of lipid binding - GOC:TermGenie - - - - - down-regulation of lipid binding - GOC:TermGenie - - - - - downregulation of lipid binding - GOC:TermGenie - - - - - inhibition of lipid binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of lipid binding. - pm - 2012-02-23T04:05:11Z - up regulation of lipid binding - up-regulation of lipid binding - upregulation of lipid binding - activation of lipid binding - biological_process - GO:1900132 - positive regulation of lipid binding - - - - - Any process that activates or increases the frequency, rate or extent of lipid binding. - GOC:TermGenie - GOC:pm - - - - - up regulation of lipid binding - GOC:TermGenie - - - - - up-regulation of lipid binding - GOC:TermGenie - - - - - upregulation of lipid binding - GOC:TermGenie - - - - - activation of lipid binding - GOC:TermGenie - - - - @@ -204149,7 +204022,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204213,7 +204086,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204350,7 +204223,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -204935,43 +204808,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to catecholamine. - bf - 2012-09-03T14:08:44Z - molecular_function - GO:1901338 - catecholamine binding - - - - - Binding to catecholamine. - GOC:TermGenie - - - - @@ -205287,43 +205123,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to heterocyclic compound. - bf - 2012-09-14T13:53:50Z - molecular_function - GO:1901363 - heterocyclic compound binding - - - - - Binding to heterocyclic compound. - GOC:TermGenie - - - - @@ -207387,7 +207186,7 @@ The modern definition of neurosecretion has evolved to include the release of an - + @@ -207402,14 +207201,14 @@ The modern definition of neurosecretion has evolved to include the release of an GO:1901505 carbohydrate derivative transmembrane transporter activity - + - + GO_REF:0000090 @@ -209318,45 +209117,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to a sulfur compound. - pr - 2012-11-26T20:45:23Z - sulfur molecular entity binding - molecular_function - GO:1901681 - sulfur compound binding - - - - - Binding to a sulfur compound. - GOC:TermGenie - GOC:pr - - - - @@ -211700,6 +211460,45 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus. + tb + 2013-04-16T21:21:14Z + biological_process + GO:1902065 + response to L-glutamate + + + + + Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-glutamate stimulus. + GOC:TermGenie + PMID:23574009 + + + + @@ -215238,6 +215037,505 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:32Z + regulation of DNA fragmentation + regulation of chromatinolysis + regulation of DNA catabolic process during apoptosis + regulation of DNA catabolism during apoptosis + regulation of DNA fragmentation involved in apoptotic nuclear change + regulation of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902510 + DNA fragmentation in response to apoptotic signals is achieved through the activity of apoptotic nucleases (see GO:0006309 'apoptotic DNA fragmentation'). Gene products involved in compartmentalization of such nucleases and in activation or repression of their enzymatic activity should be annotated to the regulation term GO:1902510 'regulation of apoptotic DNA fragmentation' or to one of its children (see PMID:15723341). + regulation of apoptotic DNA fragmentation + + + + + Any process that modulates the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + PMID:15723341 + + + + + regulation of DNA fragmentation + GOC:TermGenie + + + + + regulation of chromatinolysis + GOC:TermGenie + + + + + regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:41Z + down regulation of DNA catabolic process during apoptosis + down regulation of DNA catabolism during apoptosis + down regulation of DNA fragmentation involved in apoptotic nuclear change + down regulation of apoptotic DNA fragmentation + down regulation of endonucleolytic DNA catabolic process involved in apoptosis + down-regulation of DNA catabolic process during apoptosis + down-regulation of DNA catabolism during apoptosis + down-regulation of DNA fragmentation involved in apoptotic nuclear change + down-regulation of apoptotic DNA fragmentation + down-regulation of endonucleolytic DNA catabolic process involved in apoptosis + downregulation of DNA catabolic process during apoptosis + downregulation of DNA catabolism during apoptosis + downregulation of DNA fragmentation involved in apoptotic nuclear change + downregulation of apoptotic DNA fragmentation + downregulation of endonucleolytic DNA catabolic process involved in apoptosis + negative regulation of DNA catabolic process during apoptosis + negative regulation of DNA catabolism during apoptosis + negative regulation of DNA fragmentation involved in apoptotic nuclear change + negative regulation of endonucleolytic DNA catabolic process involved in apoptosis + inhibition of DNA catabolic process during apoptosis + inhibition of DNA catabolism during apoptosis + inhibition of DNA fragmentation involved in apoptotic nuclear change + inhibition of apoptotic DNA fragmentation + inhibition of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902511 + negative regulation of apoptotic DNA fragmentation + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + + + + + down regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + down regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + down regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + down regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + down regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + down-regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + down-regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + down-regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + down-regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + down-regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + downregulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + downregulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + downregulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + downregulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + downregulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + negative regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + negative regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + negative regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + negative regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + inhibition of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + inhibition of DNA catabolism during apoptosis + GOC:TermGenie + + + + + inhibition of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + inhibition of apoptotic DNA fragmentation + GOC:TermGenie + + + + + inhibition of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of apoptotic DNA fragmentation. + hjd + 2013-11-15T18:28:50Z + positive regulation of DNA catabolic process during apoptosis + positive regulation of DNA catabolism during apoptosis + positive regulation of DNA fragmentation involved in apoptotic nuclear change + positive regulation of endonucleolytic DNA catabolic process involved in apoptosis + up regulation of DNA catabolic process during apoptosis + up regulation of DNA catabolism during apoptosis + up regulation of DNA fragmentation involved in apoptotic nuclear change + up regulation of apoptotic DNA fragmentation + up regulation of endonucleolytic DNA catabolic process involved in apoptosis + up-regulation of DNA catabolic process during apoptosis + up-regulation of DNA catabolism during apoptosis + up-regulation of DNA fragmentation involved in apoptotic nuclear change + up-regulation of apoptotic DNA fragmentation + up-regulation of endonucleolytic DNA catabolic process involved in apoptosis + upregulation of DNA catabolic process during apoptosis + upregulation of DNA catabolism during apoptosis + upregulation of DNA fragmentation involved in apoptotic nuclear change + upregulation of apoptotic DNA fragmentation + upregulation of endonucleolytic DNA catabolic process involved in apoptosis + activation of DNA catabolic process during apoptosis + activation of DNA catabolism during apoptosis + activation of DNA fragmentation involved in apoptotic nuclear change + activation of apoptotic DNA fragmentation + activation of endonucleolytic DNA catabolic process involved in apoptosis + biological_process + GO:1902512 + positive regulation of apoptotic DNA fragmentation + + + + + Any process that activates or increases the frequency, rate or extent of apoptotic DNA fragmentation. + GOC:TermGenie + GOC:hjd + PMID:15572351 + + + + + positive regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + positive regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + positive regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + positive regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + up regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + up regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + up regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + up regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + up regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + up-regulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + up-regulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + up-regulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + up-regulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + up-regulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + upregulation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + upregulation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + upregulation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + upregulation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + upregulation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + + activation of DNA catabolic process during apoptosis + GOC:TermGenie + + + + + activation of DNA catabolism during apoptosis + GOC:TermGenie + + + + + activation of DNA fragmentation involved in apoptotic nuclear change + GOC:TermGenie + + + + + activation of apoptotic DNA fragmentation + GOC:TermGenie + + + + + activation of endonucleolytic DNA catabolic process involved in apoptosis + GOC:TermGenie + + + + @@ -219934,7 +220232,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -219984,7 +220281,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -220091,7 +220387,6 @@ The modern definition of neurosecretion has evolved to include the release of an - @@ -225471,6 +225766,415 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:35Z + regulation of DNA breakdown + regulation of DNA catabolism + regulation of DNA degradation + biological_process + GO:1903624 + regulation of DNA catabolic process + + + + + Any process that modulates the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + regulation of DNA breakdown + GOC:TermGenie + + + + + regulation of DNA catabolism + GOC:TermGenie + + + + + regulation of DNA degradation + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:43Z + down regulation of DNA breakdown + down regulation of DNA catabolic process + down regulation of DNA catabolism + down regulation of DNA degradation + down-regulation of DNA breakdown + down-regulation of DNA catabolic process + down-regulation of DNA catabolism + down-regulation of DNA degradation + downregulation of DNA breakdown + downregulation of DNA catabolic process + downregulation of DNA catabolism + downregulation of DNA degradation + negative regulation of DNA breakdown + negative regulation of DNA catabolism + negative regulation of DNA degradation + inhibition of DNA breakdown + inhibition of DNA catabolic process + inhibition of DNA catabolism + inhibition of DNA degradation + biological_process + GO:1903625 + negative regulation of DNA catabolic process + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + down regulation of DNA breakdown + GOC:TermGenie + + + + + down regulation of DNA catabolic process + GOC:TermGenie + + + + + down regulation of DNA catabolism + GOC:TermGenie + + + + + down regulation of DNA degradation + GOC:TermGenie + + + + + down-regulation of DNA breakdown + GOC:TermGenie + + + + + down-regulation of DNA catabolic process + GOC:TermGenie + + + + + down-regulation of DNA catabolism + GOC:TermGenie + + + + + down-regulation of DNA degradation + GOC:TermGenie + + + + + downregulation of DNA breakdown + GOC:TermGenie + + + + + downregulation of DNA catabolic process + GOC:TermGenie + + + + + downregulation of DNA catabolism + GOC:TermGenie + + + + + downregulation of DNA degradation + GOC:TermGenie + + + + + negative regulation of DNA breakdown + GOC:TermGenie + + + + + negative regulation of DNA catabolism + GOC:TermGenie + + + + + negative regulation of DNA degradation + GOC:TermGenie + + + + + inhibition of DNA breakdown + GOC:TermGenie + + + + + inhibition of DNA catabolic process + GOC:TermGenie + + + + + inhibition of DNA catabolism + GOC:TermGenie + + + + + inhibition of DNA degradation + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of DNA catabolic process. + sl + 2014-11-19T22:36:51Z + positive regulation of DNA breakdown + positive regulation of DNA catabolism + positive regulation of DNA degradation + up regulation of DNA breakdown + up regulation of DNA catabolic process + up regulation of DNA catabolism + up regulation of DNA degradation + up-regulation of DNA breakdown + up-regulation of DNA catabolic process + up-regulation of DNA catabolism + up-regulation of DNA degradation + upregulation of DNA breakdown + upregulation of DNA catabolic process + upregulation of DNA catabolism + upregulation of DNA degradation + activation of DNA breakdown + activation of DNA catabolic process + activation of DNA catabolism + activation of DNA degradation + biological_process + GO:1903626 + positive regulation of DNA catabolic process + + + + + Any process that activates or increases the frequency, rate or extent of DNA catabolic process. + GOC:TermGenie + GO_REF:0000058 + PMID:2001740 + + + + + positive regulation of DNA breakdown + GOC:TermGenie + + + + + positive regulation of DNA catabolism + GOC:TermGenie + + + + + positive regulation of DNA degradation + GOC:TermGenie + + + + + up regulation of DNA breakdown + GOC:TermGenie + + + + + up regulation of DNA catabolic process + GOC:TermGenie + + + + + up regulation of DNA catabolism + GOC:TermGenie + + + + + up regulation of DNA degradation + GOC:TermGenie + + + + + up-regulation of DNA breakdown + GOC:TermGenie + + + + + up-regulation of DNA catabolic process + GOC:TermGenie + + + + + up-regulation of DNA catabolism + GOC:TermGenie + + + + + up-regulation of DNA degradation + GOC:TermGenie + + + + + upregulation of DNA breakdown + GOC:TermGenie + + + + + upregulation of DNA catabolic process + GOC:TermGenie + + + + + upregulation of DNA catabolism + GOC:TermGenie + + + + + upregulation of DNA degradation + GOC:TermGenie + + + + + activation of DNA breakdown + GOC:TermGenie + + + + + activation of DNA catabolic process + GOC:TermGenie + + + + + activation of DNA catabolism + GOC:TermGenie + + + + + activation of DNA degradation + GOC:TermGenie + + + + @@ -232732,6 +233436,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of iron-specific channel activity biological_process GO:1904254 + regulation of iron ion transmembrane transporter activity @@ -232802,6 +233507,7 @@ The modern definition of neurosecretion has evolved to include the release of an inhibition of iron-specific channel activity biological_process GO:1904255 + negative regulation of iron ion transmembrane transporter activity @@ -232945,6 +233651,7 @@ The modern definition of neurosecretion has evolved to include the release of an activation of iron-specific channel activity biological_process GO:1904256 + positive regulation of iron ion transmembrane transporter activity @@ -234766,6 +235473,53 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + The process in which a relatively unspecialized cell acquires the specialized features of a cone retinal bipolar cell. + sl + 2015-06-23T19:01:16Z + cone bipolar cell differentiation + retinal cone bipolar cell differentiation + biological_process + GO:1904390 + cone retinal bipolar cell differentiation + + + + + The process in which a relatively unspecialized cell acquires the specialized features of a cone retinal bipolar cell. + GOC:TermGenie + GO_REF:0000086 + PMID:24123365 + + + + + cone bipolar cell differentiation + PMID:14745032 + + + + @@ -235987,338 +236741,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:13Z - biological_process - regulation of microtubule severing activity - regulation of microtubule/chromatin interaction - GO:1904526 - regulation of microtubule binding - - - - - Any process that modulates the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - regulation of microtubule severing activity - GOC:TermGenie - - - - - regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:29Z - down regulation of microtubule binding - down-regulation of microtubule binding - downregulation of microtubule binding - inhibition of microtubule binding - biological_process - down regulation of microtubule severing activity - down regulation of microtubule/chromatin interaction - down-regulation of microtubule severing activity - down-regulation of microtubule/chromatin interaction - downregulation of microtubule severing activity - downregulation of microtubule/chromatin interaction - inhibition of microtubule severing activity - inhibition of microtubule/chromatin interaction - negative regulation of microtubule severing activity - negative regulation of microtubule/chromatin interaction - GO:1904527 - negative regulation of microtubule binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - down regulation of microtubule binding - GOC:TermGenie - - - - - down-regulation of microtubule binding - GOC:TermGenie - - - - - downregulation of microtubule binding - GOC:TermGenie - - - - - inhibition of microtubule binding - GOC:TermGenie - - - - - down regulation of microtubule severing activity - GOC:TermGenie - - - - - down regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - down-regulation of microtubule severing activity - GOC:TermGenie - - - - - down-regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - downregulation of microtubule severing activity - GOC:TermGenie - - - - - downregulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - inhibition of microtubule severing activity - GOC:TermGenie - - - - - inhibition of microtubule/chromatin interaction - GOC:TermGenie - - - - - negative regulation of microtubule severing activity - GOC:TermGenie - - - - - negative regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of microtubule binding. - als - 2015-07-30T10:32:36Z - up regulation of microtubule binding - up-regulation of microtubule binding - upregulation of microtubule binding - activation of microtubule binding - biological_process - activation of microtubule severing activity - activation of microtubule/chromatin interaction - positive regulation of microtubule severing activity - positive regulation of microtubule/chromatin interaction - up regulation of microtubule severing activity - up regulation of microtubule/chromatin interaction - up-regulation of microtubule severing activity - up-regulation of microtubule/chromatin interaction - upregulation of microtubule severing activity - upregulation of microtubule/chromatin interaction - GO:1904528 - positive regulation of microtubule binding - - - - - Any process that activates or increases the frequency, rate or extent of microtubule binding. - GOC:TermGenie - GOC:als - GO_REF:0000059 - PMID:24520051 - - - - - up regulation of microtubule binding - GOC:TermGenie - - - - - up-regulation of microtubule binding - GOC:TermGenie - - - - - upregulation of microtubule binding - GOC:TermGenie - - - - - activation of microtubule binding - GOC:TermGenie - - - - - activation of microtubule severing activity - GOC:TermGenie - - - - - activation of microtubule/chromatin interaction - GOC:TermGenie - - - - - positive regulation of microtubule severing activity - GOC:TermGenie - - - - - positive regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - up regulation of microtubule severing activity - GOC:TermGenie - - - - - up regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - up-regulation of microtubule severing activity - GOC:TermGenie - - - - - up-regulation of microtubule/chromatin interaction - GOC:TermGenie - - - - - upregulation of microtubule severing activity - GOC:TermGenie - - - - - upregulation of microtubule/chromatin interaction - GOC:TermGenie - - - - @@ -241681,190 +242103,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:04Z - biological_process - GO:1904793 - regulation of euchromatin binding - - - - - Any process that modulates the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:12Z - down regulation of euchromatin binding - down-regulation of euchromatin binding - downregulation of euchromatin binding - inhibition of euchromatin binding - biological_process - GO:1904794 - negative regulation of euchromatin binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - down regulation of euchromatin binding - GOC:TermGenie - - - - - down-regulation of euchromatin binding - GOC:TermGenie - - - - - downregulation of euchromatin binding - GOC:TermGenie - - - - - inhibition of euchromatin binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of euchromatin binding. - nc - 2015-11-09T11:43:19Z - up regulation of euchromatin binding - up-regulation of euchromatin binding - upregulation of euchromatin binding - activation of euchromatin binding - biological_process - GO:1904795 - positive regulation of euchromatin binding - - - - - Any process that activates or increases the frequency, rate or extent of euchromatin binding. - GOC:BHF - GOC:BHF_telomere - GOC:TermGenie - GOC:nc - GO_REF:0000059 - PMID:22723415 - - - - - up regulation of euchromatin binding - GOC:TermGenie - - - - - up-regulation of euchromatin binding - GOC:TermGenie - - - - - upregulation of euchromatin binding - GOC:TermGenie - - - - - activation of euchromatin binding - GOC:TermGenie - - - - @@ -245349,6 +245587,186 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:43:54Z + biological_process + GO:1905153 + regulation of membrane invagination + + + + + Any process that modulates the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + PMID:26589353 + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:44:04Z + down regulation of membrane invagination + down-regulation of membrane invagination + downregulation of membrane invagination + inhibition of membrane invagination + biological_process + GO:1905154 + negative regulation of membrane invagination + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + PMID:26589353 + + + + + down regulation of membrane invagination + GOC:TermGenie + + + + + down-regulation of membrane invagination + GOC:TermGenie + + + + + downregulation of membrane invagination + GOC:TermGenie + + + + + inhibition of membrane invagination + GOC:TermGenie + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of membrane invagination. + bf + 2016-04-18T15:44:12Z + up regulation of membrane invagination + up-regulation of membrane invagination + upregulation of membrane invagination + activation of membrane invagination + biological_process + GO:1905155 + positive regulation of membrane invagination + + + + + Any process that activates or increases the frequency, rate or extent of membrane invagination. + GOC:PARL + GOC:TermGenie + GOC:bf + GO_REF:0000058 + + + + + up regulation of membrane invagination + GOC:TermGenie + + + + + up-regulation of membrane invagination + GOC:TermGenie + + + + + upregulation of membrane invagination + GOC:TermGenie + + + + + activation of membrane invagination + GOC:TermGenie + + + + @@ -246525,185 +246943,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:20:56Z - biological_process - GO:1905214 - regulation of RNA binding - - - - - Any process that modulates the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:21:04Z - down regulation of RNA binding - down-regulation of RNA binding - downregulation of RNA binding - inhibition of RNA binding - biological_process - GO:1905215 - negative regulation of RNA binding - - - - - Any process that stops, prevents or reduces the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - - - - - down regulation of RNA binding - GOC:TermGenie - - - - - down-regulation of RNA binding - GOC:TermGenie - - - - - downregulation of RNA binding - GOC:TermGenie - - - - - inhibition of RNA binding - GOC:TermGenie - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that activates or increases the frequency, rate or extent of RNA binding. - bf - 2016-06-06T10:21:12Z - up regulation of RNA binding - up-regulation of RNA binding - upregulation of RNA binding - activation of RNA binding - biological_process - GO:1905216 - positive regulation of RNA binding - - - - - Any process that activates or increases the frequency, rate or extent of RNA binding. - GOC:PARL - GOC:TermGenie - GOC:bf - GO_REF:0000059 - PMID:25116364 - - - - - up regulation of RNA binding - GOC:TermGenie - - - - - up-regulation of RNA binding - GOC:TermGenie - - - - - upregulation of RNA binding - GOC:TermGenie - - - - - activation of RNA binding - GOC:TermGenie - - - - @@ -246773,6 +247012,42 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus. + sl + 2016-06-07T17:30:08Z + biological_process + cellular response to L-glutamate(1-) + GO:1905232 + cellular response to L-glutamate + + + + + Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-glutamate(1-) stimulus. + GOC:TermGenie + GO_REF:0000071 + PMID:25962137 + + + + @@ -258792,44 +259067,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin. - tb - 2013-09-11T19:18:38Z - molecular_function - GO:1990188 - euchromatin binding - - - - - Binding to euchromatin, a dispersed and relatively uncompacted form of chromatin. - GOC:vw - PMID:22431512 - - - - @@ -258868,44 +259105,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Binding to a steroid hormone. - pr - 2013-11-15T09:26:18Z - molecular_function - GO:1990239 - steroid hormone binding - - - - - Binding to a steroid hormone. - GOC:ln - - - - @@ -260197,153 +260396,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - - Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process. - tb - 2010-09-15T08:55:45Z - regulation of cellular biopolymer biosynthetic process - regulation of cellular macromolecule anabolism - regulation of cellular macromolecule biosynthesis - regulation of cellular macromolecule formation - regulation of cellular macromolecule synthesis - biological_process - GO:2000112 - regulation of cellular macromolecule biosynthetic process - - - - - Any process that modulates the frequency, rate or extent of cellular macromolecule biosynthetic process. - GOC:obol - - - - - regulation of cellular biopolymer biosynthetic process - GOC:obol - - - - - regulation of cellular macromolecule anabolism - GOC:obol - - - - - regulation of cellular macromolecule biosynthesis - GOC:obol - - - - - regulation of cellular macromolecule formation - GOC:obol - - - - - regulation of cellular macromolecule synthesis - GOC:obol - - - - - - - - - - - - - - - - - - - - - - - - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process. - tb - 2010-09-15T08:55:48Z - negative regulation of cellular biopolymer biosynthetic process - negative regulation of cellular macromolecule anabolism - negative regulation of cellular macromolecule biosynthesis - negative regulation of cellular macromolecule formation - negative regulation of cellular macromolecule synthesis - biological_process - GO:2000113 - negative regulation of cellular macromolecule biosynthetic process - - - - - Any process that stops, prevents, or reduces the frequency, rate or extent of cellular macromolecule biosynthetic process. - GOC:obol - - - - - negative regulation of cellular biopolymer biosynthetic process - GOC:obol - - - - - negative regulation of cellular macromolecule anabolism - GOC:obol - - - - - negative regulation of cellular macromolecule biosynthesis - GOC:obol - - - - - negative regulation of cellular macromolecule formation - GOC:obol - - - - - negative regulation of cellular macromolecule synthesis - GOC:obol - - - - @@ -262000,6 +262052,141 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + Any process that modulates the frequency, rate or extent of DNA biosynthetic process. + yaf + 2010-12-08T04:48:15Z + regulation of DNA anabolism + regulation of DNA biosynthesis + regulation of DNA formation + regulation of DNA synthesis + biological_process + GO:2000278 + regulation of DNA biosynthetic process + + + + + Any process that modulates the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + regulation of DNA anabolism + GOC:obol + + + + + regulation of DNA biosynthesis + GOC:obol + + + + + regulation of DNA formation + GOC:obol + + + + + regulation of DNA synthesis + GOC:obol + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process. + yaf + 2010-12-08T04:48:20Z + negative regulation of DNA anabolism + negative regulation of DNA biosynthesis + negative regulation of DNA formation + negative regulation of DNA synthesis + biological_process + GO:2000279 + negative regulation of DNA biosynthetic process + + + + + Any process that stops, prevents or reduces the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + negative regulation of DNA anabolism + GOC:obol + + + + + negative regulation of DNA biosynthesis + GOC:obol + + + + + negative regulation of DNA formation + GOC:obol + + + + + negative regulation of DNA synthesis + GOC:obol + + + + @@ -264117,6 +264304,74 @@ The modern definition of neurosecretion has evolved to include the release of an + + + + + + + + + + + + + + + + + + + + + + + + + Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process. + yaf + 2011-04-04T10:01:20Z + positive regulation of DNA anabolism + positive regulation of DNA biosynthesis + positive regulation of DNA formation + positive regulation of DNA synthesis + biological_process + GO:2000573 + positive regulation of DNA biosynthetic process + + + + + Any process that activates or increases the frequency, rate or extent of DNA biosynthetic process. + GOC:obol + + + + + positive regulation of DNA anabolism + GOC:obol + + + + + positive regulation of DNA biosynthesis + GOC:obol + + + + + positive regulation of DNA formation + GOC:obol + + + + + positive regulation of DNA synthesis + GOC:obol + + + + @@ -264221,6 +264476,7 @@ The modern definition of neurosecretion has evolved to include the release of an regulation of sodium transporter activity biological_process GO:2000649 + regulation of sodium ion transmembrane transporter activity @@ -264267,6 +264523,7 @@ The modern definition of neurosecretion has evolved to include the release of an negative regulation of sodium transporter activity biological_process GO:2000650 + negative regulation of sodium ion transmembrane transporter activity @@ -264313,6 +264570,7 @@ The modern definition of neurosecretion has evolved to include the release of an positive regulation of sodium transporter activity biological_process GO:2000651 + positive regulation of sodium ion transmembrane transporter activity @@ -266447,57 +266705,6 @@ The modern definition of neurosecretion has evolved to include the release of an - - - - - - - - - - - - - - - - - - - - - - Binding to glycogen. - jl - 2011-09-14T12:01:06Z - molecular_function - animal starch binding - liver starch binding - GO:2001069 - glycogen binding - - - - - Binding to glycogen. - GOC:mengo_curators - - - - - animal starch binding - GOC:obol - - - - - liver starch binding - GOC:obol - - - - @@ -332363,7 +332570,7 @@ Classes for population already exist in IDO ('organism population', I A material entity consisting of multiple components that are causally integrated. May be replaced by a BFO class, as discussed in http://www.jbiomedsem.com/content/4/1/43 - Chris Mungall + http://www.jbiomedsem.com/content/4/1/43 system @@ -332459,9 +332666,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -332505,34 +332712,34 @@ Classes for population already exist in IDO ('organism population', I islet of Langerhans http://upload.wikimedia.org/wikipedia/commons/9/99/Gray1105.png - + - + - + - + PMID:16417468 - + PMID:16417468 - + PMID:16417468 @@ -332801,11 +333008,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0206417 BIRNLEX:1111 - - - - - UMLS:C0206417 ncithesaurus:Peripheral_Nervous_System @@ -332840,7 +333042,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -332886,7 +333088,7 @@ Classes for population already exist in IDO ('organism population', I parasympathetic nervous system http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + @@ -332899,7 +333101,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA WP @@ -332935,11 +333137,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0030510 BIRNLEX:2517 - - - - - UMLS:C0030510 ncithesaurus:Parasympathetic_Nervous_System @@ -333037,7 +333234,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333083,7 +333280,7 @@ Classes for population already exist in IDO ('organism population', I sympathetic nervous system http://upload.wikimedia.org/wikipedia/commons/7/77/Gray838.png - + @@ -333096,7 +333293,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA ZFA-modified-from-isa @@ -333140,11 +333337,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0039044 BIRNLEX:2516 - - - - - UMLS:C0039044 ncithesaurus:Sympathetic_Nervous_System @@ -333300,7 +333492,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333313,9 +333505,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -333362,19 +333554,19 @@ Classes for population already exist in IDO ('organism population', I endocrine pancreas - + - + - + - + @@ -333387,7 +333579,7 @@ Classes for population already exist in IDO ('organism population', I - + AAO FMA XAO @@ -333395,19 +333587,19 @@ Classes for population already exist in IDO ('organism population', I - + GO - + GO - + GO @@ -333603,7 +333795,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333630,14 +333822,14 @@ Classes for population already exist in IDO ('organism population', I compound eye https://github.com/obophenotype/uberon/issues/457 - + - + PMID:21062451 @@ -333705,7 +333897,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -333746,14 +333938,14 @@ Classes for population already exist in IDO ('organism population', I camera-type eye - + - + definitional @@ -333799,11 +333991,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0015392 BIRNLEX:1169 - - - - - UMLS:C0015392 ncithesaurus:Eye @@ -334329,7 +334516,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a respiratory airway. EMAPA:35877 FMA:265157 @@ -334352,14 +334539,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000031 lamina propria of trachea - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -334539,11 +334726,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0018670 BIRNLEX:1230 - - - - - UMLS:C0018670 ncithesaurus:Head @@ -334669,8 +334851,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -334721,11 +334903,11 @@ Classes for population already exist in IDO ('organism population', I tendon http://upload.wikimedia.org/wikipedia/commons/3/3c/Achilles-tendon.jpg - + - + @@ -334738,13 +334920,13 @@ Classes for population already exist in IDO ('organism population', I - + OG - + AEO @@ -334813,8 +334995,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A biological tissue mass, most commonly a mass of nerve cell bodies. TODO - check vert vs invert. Other species: Any of a number of aggregations of neurons, glial cells and their processes, surrounded by a glial cell and connective tissue sheath (plural: ganglia). // Subdivision of neural tree (organ) which primarily consists of cell bodies of neurons located outside the neuraxis (brain and spinal cord); together with a nucleus and its associated nerve, it constitutes a neural tree (organ). Examples: spinal ganglion, trigeminal ganglion, superior cervical ganglion, celiac ganglion, inferior hypogastric (pelvic) ganglion. // a cluster of nerve cells and associated glial cells (nuclear location) // Portion of tissue that contains cell bodies of neurons and is located outside the central nervous system. A ganglion is a cluster of neurons. It is part of a nervous system. It may include glial cells. The neurons are arranged in a specific constellation: neuronal somata are concentrated at the surface, thus forming a cell cortex, and neurites are concentrated in the centre of the ganglion to form the neuropil. A ganglion is a distinct unit but several ganglia may be anterio-posteriorly joined by connectives or transversally by commissures @@ -334863,11 +335045,11 @@ Classes for population already exist in IDO ('organism population', I ganglion - + - + @@ -334880,13 +335062,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Bgee:AN @@ -335020,7 +335202,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -335493,7 +335675,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -335514,14 +335696,14 @@ Classes for population already exist in IDO ('organism population', I respiratory tract - + - + NCBIBook:NBK10107 @@ -335852,7 +336034,7 @@ Classes for population already exist in IDO ('organism population', I - + The surface (external) layer of ectoderm which begins to proliferate shortly after separation from the neuroectoderm. merge with non-neural. In vertebrates, the ectoderm has three parts: external ectoderm (also known as surface ectoderm), the neurectoderm (neural crest, and neural tube) @@ -335877,7 +336059,7 @@ Classes for population already exist in IDO ('organism population', I external ectoderm http://upload.wikimedia.org/wikipedia/commons/1/1d/Ectoderm.png - + @@ -335890,7 +336072,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -335995,7 +336177,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336038,14 +336220,14 @@ Classes for population already exist in IDO ('organism population', I morula http://upload.wikimedia.org/wikipedia/commons/c/c6/Blastulation.png - + - + EHDAA2 @@ -336079,7 +336261,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336197,8 +336379,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A mass of cells that develop into the body of the embryo and some extraembryonic tissues. A group of cells found in the mammalian blastocyst that give rise to the embryo. [Biology_Online][VHOG] A small sphere of cells known as the inner cell mass lies within the trophoblast (of all eutherian mammals).[well established][VHOG] @@ -336226,24 +336408,24 @@ Classes for population already exist in IDO ('organism population', I inner cell mass https://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg - + - + - + Wikipedia - + Wikipedia @@ -336310,7 +336492,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -336345,14 +336527,14 @@ Classes for population already exist in IDO ('organism population', I trophoblast https://upload.wikimedia.org/wikipedia/commons/7/72/Blastocyst_English.svg - + - + MP-def PMID:19829370 @@ -336418,7 +336600,7 @@ Classes for population already exist in IDO ('organism population', I - + A flattened, almost circular bilaminar plate of cells formed when the inner cell mass (aka embryoblast) forms two epithelial layers, each of a distinct lineage, separated by an extracellular basement membrane: the external (dorsal) layer is called the epiblast and the internal (ventral) layer is called the hypoblast (aka primitive endoderm); together, they compose the bilaminar embryonic disc. embryonic disc embryonic shield @@ -336438,14 +336620,14 @@ Classes for population already exist in IDO ('organism population', I bilaminar disc http://upload.wikimedia.org/wikipedia/commons/e/e3/Gray21.png - + - + Wikipedia @@ -336547,7 +336729,7 @@ Classes for population already exist in IDO ('organism population', I - + Nonparenchymatous organ that primarily consists of dense connective tissue organized into a sheet which interconnects two or more organs, separates two or more body spaces from one another, or surrounds an organ or body part. Examples: interosseous membrane of forearm, obturator membrane, tympanic membrane, fibrous pericardium, fascia lata, dura mater. [FMA]. 2009-07-30T05:19:13Z @@ -336558,14 +336740,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000094 membrane organ - + - + FMA-def @@ -336587,7 +336769,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of neural crest that develops from the dorsal neural tube. It overlaps the vagal neural crest and migrates to populate the pharyngeal arches 3, 4 and 6 (producing structures in the head) and to the heart, forming connective tissue that separates the great vessels of the heart. [Wikipedia]. A subpopulation of the cephalic neural crest that emerges from the otic level to the anterior limit of somite 4. It migrates to the heart and is essential for the septation of the outflow track[DOI:10.1242/dev.091751]. ZFA treats this as a subtype of NC. @@ -336604,14 +336786,14 @@ Classes for population already exist in IDO ('organism population', I cardiac neural crest - + - + Wikipedia @@ -337014,7 +337196,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337050,14 +337232,14 @@ Classes for population already exist in IDO ('organism population', I gastrula stage - + - + BILS @@ -337574,7 +337756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337602,7 +337784,7 @@ Classes for population already exist in IDO ('organism population', I lung bud http://upload.wikimedia.org/wikipedia/commons/7/71/Gray948.png - + @@ -337615,7 +337797,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -337721,7 +337903,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -337747,14 +337929,14 @@ Classes for population already exist in IDO ('organism population', I neural nucleus - + - + we limit this structure by definition to chordate and vertebrate nervous systems @@ -337964,7 +338146,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338003,14 +338185,14 @@ Classes for population already exist in IDO ('organism population', I anal canal https://upload.wikimedia.org/wikipedia/commons/0/01/Gray1078.png - + - + Wikipathways:WP2062 @@ -338030,11 +338212,6 @@ Classes for population already exist in IDO ('organism population', I canalis analis BTO:0001978 - - - - - canalis analis Wikipedia:Anal_canal @@ -338190,8 +338367,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -338224,24 +338401,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0000162 cloaca - + - + - + ZFA - + AAO @@ -338323,8 +338500,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -338343,24 +338520,24 @@ Classes for population already exist in IDO ('organism population', I embryonic cloaca - + - + - + EHDAA2 - + EHDAA2 @@ -338406,7 +338583,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338479,7 +338656,7 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/issues/661 http://upload.wikimedia.org/wikipedia/commons/0/06/Mouth_illustration-Otis_Archives.jpg - + @@ -338492,7 +338669,7 @@ Classes for population already exist in IDO ('organism population', I - + exceptions in some taxa @@ -338532,11 +338709,6 @@ Classes for population already exist in IDO ('organism population', I regio oralis BTO:0004698 - - - - - regio oralis FMA:49184 FMA:TA @@ -338874,7 +339046,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -338920,14 +339092,14 @@ Classes for population already exist in IDO ('organism population', I pair of lungs - + - + FMA-abduced @@ -339102,15 +339274,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + A fluid that is composed of blood plasma and erythrocytes. This class excludes blood analogues, such as the insect analog of blood. See UBERON:0000179 haemolymphatic fluid. @@ -339152,34 +339324,34 @@ Classes for population already exist in IDO ('organism population', I blood - + - + - + - + CL:tm - + https://github.com/obophenotype/uberon/issues/1330 - + Bgee:AN @@ -339793,7 +339965,7 @@ Classes for population already exist in IDO ('organism population', I - + The branched tubular glands found in the mucosa of the fundus and body of the stomach which contain parietal cells that secrete hydrochloric acid and zymogenic cells that produce pepsin. BTO:0000503 EMAPA:27181 @@ -339804,7 +339976,7 @@ Classes for population already exist in IDO ('organism population', I gastric gland - + @@ -339817,7 +339989,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 @@ -340393,11 +340565,6 @@ Classes for population already exist in IDO ('organism population', I tunica mucosa BTO:0000886 - - - - - tunica mucosa Wikipedia:Mucous_membrane @@ -340538,11 +340705,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of pharynx FMA:55031 - - - - - mucous membrane of pharynx OBOL:automatic @@ -341142,7 +341304,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -341176,14 +341338,14 @@ Classes for population already exist in IDO ('organism population', I tongue muscle http://upload.wikimedia.org/wikipedia/commons/c/c6/Gray1019.png - + - + FEED:rd ISBN:1607950324 @@ -341339,11 +341501,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of trachea FMA:7471 - - - - - mucous membrane of trachea OBOL:automatic @@ -341471,6 +341628,7 @@ Classes for population already exist in IDO ('organism population', I The subdivision of the musculoskeletal system that consists of all the muscles of the body[VSAO, modified]. consider whether this should be restricted to skeletal musculature. See https://github.com/obophenotype/uberon/issues/77 + Anatomical system that consists of the muscles of the body.[VSAO] we place the MA term musculature here, rather than under uberon:musculature, as this seems more appropriate given the structure of MA AAO:0000307 @@ -341496,6 +341654,7 @@ Classes for population already exist in IDO ('organism population', I muskelsystem UBERON:0000383 + musculature of body @@ -341755,11 +341914,6 @@ Classes for population already exist in IDO ('organism population', I colon epithelium FMA:17302 - - - - - colon epithelium OBOL:automatic @@ -342060,11 +342214,6 @@ Classes for population already exist in IDO ('organism population', I mucous membrane of bronchus FMA:62652 - - - - - mucous membrane of bronchus OBOL:automatic @@ -342461,7 +342610,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -342503,14 +342652,14 @@ Classes for population already exist in IDO ('organism population', I organism substance - + - + this relationship may be too strong and may be weakened in future @@ -343230,25 +343379,12 @@ Classes for population already exist in IDO ('organism population', I - Anatomical group that has its parts adjacent to one another. - Will be obsoleted in CARO v2 [https://github.com/obophenotype/caro/issues/3] + Anatomical group whose component anatomical structures lie in close proximity to each other. - AAO:0010009 - AEO:0000041 - BILA:0000041 - CARO:0000041 - EHDAA2:0003041 FBbt:00007277 - FMA:49443 - HAO:0000041 - TADS:0000605 - TAO:0001478 - TGMA:0001842 VHOG:0001737 - XAO:0003160 - ZFA:0001478 uberon UBERON:0000477 @@ -343258,8 +343394,8 @@ Classes for population already exist in IDO ('organism population', I - Anatomical group that has its parts adjacent to one another. - http://orcid.org/0000-0001-9114-8737 + Anatomical group whose component anatomical structures lie in close proximity to each other. + FBbt:00007277 @@ -344153,7 +344289,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -344190,14 +344326,14 @@ Classes for population already exist in IDO ('organism population', I abdomen - + - + MA @@ -344433,7 +344569,7 @@ Classes for population already exist in IDO ('organism population', I - + Primary germ layer that is the outer of the embryo's three germ layers and gives rise to epidermis and neural tissue. Primary germ layer that is the outer of the embryonic germ layers and gives rise to epidermis and neural tissue.[AAO] The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG] @@ -344471,14 +344607,14 @@ Classes for population already exist in IDO ('organism population', I ectoderm http://upload.wikimedia.org/wikipedia/commons/1/19/Gray32.png - + - + Bgee:AN @@ -344531,7 +344667,7 @@ Classes for population already exist in IDO ('organism population', I - + Primary germ layer that lies remote from the surface of the embryo and gives rise to internal tissues such as gut. The Bilateria are triploblastic (with true endoderm, mesoderm, and ectoderm) (...).[well established][VHOG] endodermal @@ -344568,14 +344704,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/c/c0/Endoderm2.png http://upload.wikimedia.org/wikipedia/commons/d/df/Gray10.png - + - + Bgee:AN @@ -344620,7 +344756,7 @@ Classes for population already exist in IDO ('organism population', I - + The middle germ layer of the embryo, between the endoderm and ectoderm. Primary germ layer that is the middle of the embryonic germ layers.[AAO] @@ -344665,7 +344801,7 @@ Classes for population already exist in IDO ('organism population', I mesoderm http://upload.wikimedia.org/wikipedia/commons/e/e8/Mesoderm.png - + @@ -344678,7 +344814,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -344877,7 +345013,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -344923,7 +345059,7 @@ Classes for population already exist in IDO ('organism population', I proctodeum https://github.com/obophenotype/uberon/issues/685 - + @@ -344936,7 +345072,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -345003,8 +345139,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -345058,11 +345194,11 @@ Classes for population already exist in IDO ('organism population', I stomach https://upload.wikimedia.org/wikipedia/commons/e/e0/Stomach_diagram.svg - + - + @@ -345081,14 +345217,14 @@ Classes for population already exist in IDO ('organism population', I - + absent in lampreys and hagfishes ISBN:0073040584 - + ISBN:0486692132 @@ -345176,7 +345312,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345223,7 +345359,7 @@ Classes for population already exist in IDO ('organism population', I aorta https://upload.wikimedia.org/wikipedia/commons/9/91/Aorta_scheme.jpg - + @@ -345236,7 +345372,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -345316,7 +345452,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345390,14 +345526,14 @@ Classes for population already exist in IDO ('organism population', I Taxon notes:" the ascidian tube-like heart lacks chambers....The ascidian heart is formed after metamorphosis as a simple tube-like structure with a single-layered myoepithelium that is continuous with a single-layered pericar- dial wall. It lacks chambers and endocardium.... The innovation of the chambered heart was a key event in vertebrate evolution, because the chambered heart generates one-way blood flow with high pressure, a critical requirement for the efficient blood supply of large-body vertebrates... all extant vertebrates have hearts with two or more chambers (Moorman and Christoffels 2003)" DOI:10.1101/gad.1485706 heart - + - + MA @@ -345605,7 +345741,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -345630,7 +345766,7 @@ Classes for population already exist in IDO ('organism population', I - + The brain is the center of the nervous system in all vertebrate, and most invertebrate, animals. Some primitive animals such as jellyfish and starfish have a decentralized nervous system without a brain, while sponges lack any nervous system at all. In vertebrates, the brain is located in the head, protected by the skull and close to the primary sensory apparatus of vision, hearing, balance, taste, and smell[WP]. requires review for applicability to invertebrate structures, e.g. synganglion @@ -345691,11 +345827,11 @@ Classes for population already exist in IDO ('organism population', I brain - + - + @@ -345708,13 +345844,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + Bgee:AN @@ -345763,11 +345899,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0006104 BIRNLEX:796 - - - - - UMLS:C0006104 ncithesaurus:Brain @@ -345814,9 +345945,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -345888,15 +346019,15 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/7/7b/Cerebral_Cortex_location.jpg http://upload.wikimedia.org/wikipedia/commons/9/9a/Brainmaps-macaque-hippocampus.jpg - + - + - + @@ -345909,21 +346040,21 @@ Classes for population already exist in IDO ('organism population', I - + GO ISBN:0471888893 - + FMA MA - + Wikipedia @@ -345953,11 +346084,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0007776 BIRNLEX:1494 - - - - - UMLS:C0007776 ncithesaurus:Cortex @@ -346165,9 +346291,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -346192,7 +346318,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346248,44 +346374,44 @@ Classes for population already exist in IDO ('organism population', I cornea http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + - + MA - + MA - + FMA-isa - + definitional @@ -346346,7 +346472,7 @@ Classes for population already exist in IDO ('organism population', I - Transparent part of camera-type eye that helps to refract light to be focused on the retina. + A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina. The eye of the adult lamprey is remarkably similar to our own, and it possesses numerous features (including the expression of opsin genes) that are very similar to those of the eyes of jawed vertebrates. The lamprey's camera-like eye has a lens, an iris and extra-ocular muscles (five of them, unlike the eyes of jawed vertebrates, which have six), although it lacks intra-ocular muscles. Its retina also has a structure very similar to that of the retinas of other vertebrates, with three nuclear layers comprised of the cell bodies of photoreceptors and bipolar, horizontal, amacrine and ganglion cells. The southern hemisphere lamprey, Geotria australis, possesses five morphological classes of retinal photoreceptor and five classes of opsin, each of which is closely related to the opsins of jawed vertebrates. Given these similarities, we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya.[well established][VHOG] @@ -346384,13 +346510,13 @@ Classes for population already exist in IDO ('organism population', I - The lens is avascular and nourished by diffusion from the aqueous and vitreous + The lens is avascular and nourished by diffusion from the aqueous and vitreous humors. lens of camera-type eye - Transparent part of camera-type eye that helps to refract light to be focused on the retina. + A transparent and refractive lens located posterior to the iris. The lens of camera-type eye refracts light to be focused on the retina. Wikipedia:Lens_(anatomy) http://orcid.org/0000-0002-6601-2165 @@ -346439,6 +346565,7 @@ Classes for population already exist in IDO ('organism population', I crystalline lens BTO:0000723 + PMID:36055924 @@ -346473,10 +346600,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + The retina is the innermost layer or coating at the back of the eyeball, which is sensitive to light and in which the optic nerve terminates. @@ -346527,44 +346654,44 @@ Classes for population already exist in IDO ('organism population', I retina http://upload.wikimedia.org/wikipedia/commons/e/ed/Human_eye_cross-sectional_view_grayscale.png - + - + - + - + - + FMA - + FMA - + FMA - + EHDAA2 @@ -346598,11 +346725,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0035298 BIRNLEX:1153 - - - - - UMLS:C0035298 ncithesaurus:Retina @@ -346643,8 +346765,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -346680,24 +346802,24 @@ Classes for population already exist in IDO ('organism population', I eye - + - + - + PMID:21062451 - + PMID:21062451 @@ -346862,7 +346984,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346878,7 +347000,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -346945,14 +347067,14 @@ Classes for population already exist in IDO ('organism population', I pleura http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png - + - + https://github.com/obophenotype/uberon/issues/86 @@ -347023,7 +347145,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. + Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. Anatomical cluster that consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[VSAO] Anatomical cluster which consists of two or more adjacent bones or cartilages, which may be interconnected by various types of tissue.[TAO] articulation @@ -347064,7 +347186,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. + Anatomical structure that consists of two or more adjacent skeletal structures, which may be interconnected by various types of tissue[VSAO]. GO_REF:0000034 VSAO:0000101 Wikipedia:Joint @@ -347127,7 +347249,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -347196,14 +347318,14 @@ Classes for population already exist in IDO ('organism population', I pons http://upload.wikimedia.org/wikipedia/commons/3/36/Gray768.png - + - + neuronames @@ -347237,11 +347359,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0032639 BIRNLEX:733 - - - - - UMLS:C0032639 ncithesaurus:Pons_Varolii @@ -349087,7 +349204,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -349147,14 +349264,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/b/b2/TE-Nervous_system_diagram.svg http://upload.wikimedia.org/wikipedia/commons/b/ba/Nervous_system_diagram.png - + - + Bgee:AN @@ -349242,7 +349359,7 @@ Classes for population already exist in IDO ('organism population', I - + The central nervous system is the core nervous system that serves an integrating and coordinating function. In vertebrates it consists of the neural tube derivatives: the brain and spinal cord. In invertebrates it includes central ganglia plus nerve cord. Part of the nervous system which includes the brain and spinal cord.[AAO] @@ -349289,7 +349406,7 @@ Classes for population already exist in IDO ('organism population', I central nervous system - + @@ -349303,7 +349420,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -349359,11 +349476,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0927232 BIRNLEX:1099 - - - - - UMLS:C0927232 ncithesaurus:Central_Nervous_System @@ -349600,7 +349712,7 @@ Classes for population already exist in IDO ('organism population', I - + A nerve that transmits from sensory receptors on the surface of the body to the central nervous system. AEO:0000201 EHDAA2:0003200 @@ -349615,14 +349727,14 @@ Classes for population already exist in IDO ('organism population', I sensory nerve - + - + AEO @@ -349868,8 +349980,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A sac-like expansion of the ventral wall of the intestine, narrowed into a yolk stalk near the body[Hyman's]. Membranous sac attached to an embryo, providing early nourishment in the form of yolk in bony fishes, sharks, reptiles, birds, and primitive mammals. It functions as the developmental circulatory system of the human embryo, before internal circulation begins. In the mouse, the yolk sac is the first site of blood formation, generating primitive macrophages and erythrocytes[WP]. consider splitting class One of the extraembryonic fetal membranes that balloons out from the fetal midgut. [TFD][VHOG] @@ -349900,11 +350012,11 @@ Classes for population already exist in IDO ('organism population', I yolk sac http://upload.wikimedia.org/wikipedia/commons/1/17/Gray22.png - + - + @@ -349923,13 +350035,13 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 - + ISBN:0073040584 @@ -350082,7 +350194,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of the respiratory and digestive tracts; its distal limit is the superior part of the esophagus and it connects the nasal and oral cavities with the esophagus and larynx; it contains the valleculae and the pyriform recesses; its upper limits are the nasal cavity and cranial base.[FEED]. A funnel-shaped fibromuscular tube that conducts food to the ESOPHAGUS, and air to the LARYNYX and LUNGS. It is located posterior to the NASAL CAVITY; ORAL CAVITY; and LARYNX, and extends from the SKULL BASE to the inferior border of the CRICOID CARTILAGE anteriorly and to the inferior border of the C6 vertebra posteriorly. It is divided into the NASOPHARYNX; OROPHARYNX; and HYPOPHARYNX (laryngopharynx)[MESH:A03.867]. Anatomical cavity bounded by the derivatives of the branchial arches.[AAO] @@ -350124,14 +350236,14 @@ Classes for population already exist in IDO ('organism population', I Consider generalizing to deuterostome pharynx chordate pharynx - + - + EHDAA2 @@ -350424,7 +350536,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -350461,14 +350573,14 @@ Classes for population already exist in IDO ('organism population', I hindgut http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray472.png - + - + Wikipedia @@ -350704,15 +350816,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + @@ -350764,15 +350876,15 @@ Classes for population already exist in IDO ('organism population', I rectum http://upload.wikimedia.org/wikipedia/commons/7/75/Anorectum.gif - + - + - + @@ -350786,19 +350898,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + EHDAA2 - + ISBN:0073040584 @@ -350890,7 +351002,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -350937,7 +351049,7 @@ Classes for population already exist in IDO ('organism population', I ventral pancreatic duct http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1100.png - + @@ -350950,7 +351062,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -351035,7 +351147,7 @@ Classes for population already exist in IDO ('organism population', I - + A zone of skin that is part of a back [Automatically generated definition]. TODO - distinguish between entire skin of region and arbitrary zone of skin on region EMAPA:36392 @@ -351052,7 +351164,7 @@ Classes for population already exist in IDO ('organism population', I skin of back - + @@ -351065,7 +351177,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -351099,9 +351211,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + A terminal branch of the left or right common carotid artery which supplies oxygenated blood to to the throat, neck glands, tongue, face, mouth, ear, scalp and dura mater of the meninges[MP]. not homologous to the external carotid of zebrafish (Goodrich, 1958) - http://zfish.nichd.nih.gov/zfatlas/Intro%20Page/comparative.html; check XAO @@ -351134,15 +351246,15 @@ Classes for population already exist in IDO ('organism population', I https://sourceforge.net/tracker/?func=detail&aid=3486863&group_id=76834&atid=1127722 http://upload.wikimedia.org/wikipedia/commons/1/13/External_carotid_a.gif - + - + - + @@ -351155,19 +351267,19 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + EHDAA2 - + FMA @@ -351394,11 +351506,6 @@ Classes for population already exist in IDO ('organism population', I vena cava inferior BTO:0002682 - - - - - vena cava inferior Wikipedia:Inferior_vena_cava @@ -351483,14 +351590,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -351532,11 +351639,11 @@ Classes for population already exist in IDO ('organism population', I pericardial cavity - + - + @@ -351549,13 +351656,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + Wikipedia @@ -351634,7 +351741,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -351666,14 +351773,14 @@ Classes for population already exist in IDO ('organism population', I endocardium of ventricle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -351811,7 +351918,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -351839,14 +351946,14 @@ Classes for population already exist in IDO ('organism population', I myocardium of ventricle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -352301,8 +352408,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A thin musculomebranous barrier that separates the abdominal and thoracic cavities. Often used for breathing control. The diaphragm is a skeletal muscle that is responsible for contraction and expansion of the lungs[GO]. @@ -352342,24 +352449,24 @@ Classes for population already exist in IDO ('organism population', I diaphragm - + - + - + PMID:23586979 - + definitional @@ -352652,8 +352759,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -352713,14 +352820,14 @@ Classes for population already exist in IDO ('organism population', I cardiac muscle tissue - + - + ZFA @@ -353143,7 +353250,7 @@ Classes for population already exist in IDO ('organism population', I - + Simple squamous epithelium of mesodermal origin which lines serous membranes. Examples: mesothelium of pleura, mesothelium of peritoneum[FMA]. Wikipedia: The mesothelium is a membrane that forms the lining of several body cavities: the pleura (thoracal cavity), peritoneum (abdominal cavity including the mesentery) and pericardium (heart sac). Mesothelial tissue also surrounds the male internal reproductive organs (the tunica vaginalis testis) and covers the internal reproductive organs of women (the tunica serosa uteri). AEO:0000111 BTO:0002422 @@ -353168,14 +353275,14 @@ Classes for population already exist in IDO ('organism population', I mesothelium http://upload.wikimedia.org/wikipedia/commons/2/25/Mesothelium_peritoneal_wash_high_mag.jpg - + - + FMA @@ -353290,7 +353397,7 @@ Classes for population already exist in IDO ('organism population', I - + In anatomy, the superior mesenteric vein (SMV) is a blood vessel that drains blood from the small intestine. At its termination behind the neck of the pancreas, the SMV combines with the splenic vein to form the hepatic portal vein. The SMV lies to the right of the similarly named artery, the superior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]. BTO:0002783 @@ -353313,14 +353420,14 @@ Classes for population already exist in IDO ('organism population', I superior mesenteric vein http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png - + - + Wikipedia:Vitelline_vein @@ -353379,7 +353486,7 @@ Classes for population already exist in IDO ('organism population', I - + Vein that carries blood away from the liver[ZFA]. todo - add developmental relationships for other taxa @@ -353410,14 +353517,14 @@ Classes for population already exist in IDO ('organism population', I hepatic vein http://upload.wikimedia.org/wikipedia/commons/6/61/Gray1121.png - + - + FMA-abduced-lr @@ -353642,7 +353749,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -353678,7 +353785,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png - + @@ -353691,7 +353798,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -353739,7 +353846,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -353794,7 +353901,7 @@ Classes for population already exist in IDO ('organism population', I colon - + @@ -353808,7 +353915,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -353873,7 +353980,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the large intestine that is closest to the rectum and anus. It forms a loop that averages about 40 cm. in length, and normally lies within the pelvis, but on account of its freedom of movement it is liable to be displaced into the abdominal cavity. BTO:0000645 @@ -353903,7 +354010,7 @@ Classes for population already exist in IDO ('organism population', I sigmoid colon http://upload.wikimedia.org/wikipedia/commons/3/3b/Dickdarm-Schema.svg - + @@ -353916,7 +354023,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -353999,11 +354106,6 @@ Classes for population already exist in IDO ('organism population', I corpus gastricum BTO:0000505 - - - - - corpus gastricum Wikipedia:Body_of_stomach @@ -354026,7 +354128,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354080,7 +354182,7 @@ Classes for population already exist in IDO ('organism population', I pyloric antrum http://upload.wikimedia.org/wikipedia/commons/3/31/Gray1046.svg - + @@ -354093,7 +354195,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -354126,11 +354228,6 @@ Classes for population already exist in IDO ('organism population', I antrum pyloricum BTO:0001732 - - - - - antrum pyloricum Wikipedia:Pyloric_antrum @@ -354601,7 +354698,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354618,7 +354715,7 @@ Classes for population already exist in IDO ('organism population', I portal lobule - + @@ -354631,7 +354728,7 @@ Classes for population already exist in IDO ('organism population', I - + MA MP @@ -354654,7 +354751,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -354680,14 +354777,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001172 hepatic acinus - + - + cjm @@ -354915,10 +355012,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + @@ -354947,19 +355044,19 @@ Classes for population already exist in IDO ('organism population', I common hepatic duct http://upload.wikimedia.org/wikipedia/commons/4/48/Illu_liver_gallbladder.jpg - + - + - + - + @@ -354972,25 +355069,25 @@ Classes for population already exist in IDO ('organism population', I - + MA - + Wikipedia - + Wikipedia - + definitional @@ -355253,7 +355350,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -355295,14 +355392,14 @@ Classes for population already exist in IDO ('organism population', I peritoneal cavity - + - + Wikipedia @@ -355344,11 +355441,6 @@ Classes for population already exist in IDO ('organism population', I cavitas peritonealis BTO:0001782 - - - - - cavitas peritonealis Wikipedia:Peritoneal_cavity @@ -355797,11 +355889,6 @@ Classes for population already exist in IDO ('organism population', I tunica mucosa gastris BTO:0001308 - - - - - tunica mucosa gastris Wikipedia:Gastric_mucosa @@ -356936,8 +357023,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A compound tubular submucosal gland found in that portion of the duodenum which is above the hepatopancreatic sphincter (Sphincter of Oddi). The main function of these glands is to produce a mucus-rich alkaline secretion (containing bicarbonate)[WP]. currently defined as equivalent to any submucosal gland in the duodenum. Said to be absent outside mammlian (Andrew 1959) but Ziswiler and Farner (1972) noted similar glands at the gastroduodenal junction of some birds @@ -356963,11 +357050,11 @@ Classes for population already exist in IDO ('organism population', I duodenal gland - + - + @@ -356980,13 +357067,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA, modified - + unclear for Aves ISBN:9780521617147 @@ -357042,7 +357129,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -357088,7 +357175,7 @@ Classes for population already exist in IDO ('organism population', I intestinal villus http://upload.wikimedia.org/wikipedia/commons/3/38/Small_intestine_low_mag.jpg - + @@ -357101,7 +357188,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -357214,7 +357301,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood vessel that drains blood from the large intestine that usually terminates when reaching the splenic vein, which goes on to form the portal vein with the superior mesenteric vein (SMV). Anatomical variations include the IMV draining into the confluence of the SMV and splenic vein and the IMV draining in the SMV. The IMV lies to the right of the similarly name artery, the inferior mesenteric artery, which originates from the abdominal aorta. [WP,unvetted]. BTO:0002782 @@ -357237,14 +357324,14 @@ Classes for population already exist in IDO ('organism population', I inferior mesenteric vein http://upload.wikimedia.org/wikipedia/commons/3/33/Gray591.png - + - + FMA/obol @@ -357927,7 +358014,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -357959,7 +358046,7 @@ Classes for population already exist in IDO ('organism population', I interlobular bile duct - + @@ -357973,7 +358060,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA MP @@ -358114,7 +358201,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -358145,14 +358232,14 @@ Classes for population already exist in IDO ('organism population', I pancreatic acinus - + - + FMA @@ -358193,9 +358280,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + An endoderm derived structure that produces precursors of digestive enzymes and blood glucose regulating hormones[GO]. Organ which secretes a fluid containing enzymes that aid in the digestion of food.[AAO] @@ -358239,34 +358326,34 @@ Classes for population already exist in IDO ('organism population', I pancreas https://upload.wikimedia.org/wikipedia/commons/7/7e/Blausen_0699_PancreasAnatomy2.png - + - + - + - + PMID:16417468 - + Wikipedia - + Wikipedia @@ -358867,7 +358954,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -358897,14 +358984,14 @@ Classes for population already exist in IDO ('organism population', I liver parenchyma - + - + XAO @@ -358972,7 +359059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -359022,14 +359109,14 @@ Classes for population already exist in IDO ('organism population', I hepatic sinusoid - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -359094,8 +359181,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -359138,11 +359225,11 @@ Classes for population already exist in IDO ('organism population', I intralobular bile duct - + - + @@ -359155,13 +359242,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA @@ -359234,7 +359321,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -359284,14 +359371,14 @@ Classes for population already exist in IDO ('organism population', I endometrium https://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg - + - + FMA @@ -359378,7 +359465,7 @@ Classes for population already exist in IDO ('organism population', I - + Outer serosa layer of the uterus. TODO - check for parallel structure with peritoneum EMAPA:37792 @@ -359402,14 +359489,14 @@ Classes for population already exist in IDO ('organism population', I serosa of uterus https://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cervix.jpg - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -359581,7 +359668,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscle (organ) which is a part of the pelvis. Examples: levator ani,. @@ -359599,7 +359686,7 @@ Classes for population already exist in IDO ('organism population', I muscle of pelvis - + @@ -359611,7 +359698,7 @@ Classes for population already exist in IDO ('organism population', I - + FMAdef @@ -359663,7 +359750,7 @@ Classes for population already exist in IDO ('organism population', I - + The anus and surrounding regions. Encompasses both internal and external regions, where present. Although all vertebrates have a digestive tract and accessory glands, various parts of this system are not necessarily homologous, analogous, or even present in all species. Therefore, broad comparisons can be best made under the listings of headgut, foregut, midgut, pancreas and biliary system, hindgut.[uncertain][VHOG] EFO:0000847 @@ -359689,14 +359776,14 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/issues/507 http://upload.wikimedia.org/wikipedia/commons/f/fb/Gray408.png - + - + cjm @@ -360554,7 +360641,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -360568,7 +360655,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that is composed of bone tissue. @@ -360618,14 +360705,14 @@ Classes for population already exist in IDO ('organism population', I bone element - + - + VSAO-modified @@ -360823,7 +360910,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -360865,14 +360952,14 @@ Classes for population already exist in IDO ('organism population', I ascending aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + EHDAA2 @@ -360927,7 +361014,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pelvic girdle [Automatically generated definition]. Note that in MA, this is a subclass of pelvis muscle; in FMA this is a hindlimb muscle, but recall in FMA hindlimb includes the girdle. UBERON:0003271 @@ -360949,14 +361036,14 @@ Classes for population already exist in IDO ('organism population', I muscle of pelvic girdle - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -361026,7 +361113,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361072,14 +361159,14 @@ Classes for population already exist in IDO ('organism population', I arch of aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + left arch 4 in human embryology.ch @@ -361144,7 +361231,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361178,7 +361265,7 @@ Classes for population already exist in IDO ('organism population', I descending aorta http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + @@ -361191,7 +361278,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -361213,12 +361300,6 @@ Classes for population already exist in IDO ('organism population', I pars descendens aortae FMA:3784 - - - - aorta descendens - Wikipedia:Descending_aorta - @@ -361336,7 +361417,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361385,14 +361466,14 @@ Classes for population already exist in IDO ('organism population', I abdominal aorta http://upload.wikimedia.org/wikipedia/commons/a/af/Gray531.png - + - + FMA @@ -361437,11 +361518,6 @@ Classes for population already exist in IDO ('organism population', I aorta abdominalis BTO:0002976 - - - - - aorta abdominalis Wikipedia:Abdominal_aorta @@ -361450,11 +361526,6 @@ Classes for population already exist in IDO ('organism population', I pars abdominalis aortae BTO:0002976 - - - - - pars abdominalis aortae Wikipedia:Abdominal_aorta @@ -361570,7 +361641,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -361608,7 +361679,7 @@ Classes for population already exist in IDO ('organism population', I common carotid artery plus branches http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + @@ -361621,7 +361692,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -361757,8 +361828,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A terminal branch of the left or right common carotid artery which supplies oxygenated blood to the brain and eyes[MP]. Each of two arteries starting at the bifurcation of the common carotid arteries through which blood circulates to many structures and organs in the head. [TFD][VHOG] @@ -361797,11 +361868,11 @@ Classes for population already exist in IDO ('organism population', I internal carotid artery http://upload.wikimedia.org/wikipedia/commons/9/9c/Gray513.png - + - + @@ -361814,13 +361885,13 @@ Classes for population already exist in IDO ('organism population', I - + cjm - + FMA @@ -361905,8 +361976,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of two laterally paired arteries that supplies the pectoral appendages, usually branching from the dorsal aorta. Developmental relationships should be added (intersegmental artery and right dorsal aorta in EHDAA2, occipitovertebral artery in XAO) @@ -361944,24 +362015,24 @@ Classes for population already exist in IDO ('organism population', I subclavian artery http://upload.wikimedia.org/wikipedia/commons/e/e6/Gray506.svg - + - + - + EHDAA2 - + EHDAA2 @@ -362186,7 +362257,7 @@ Classes for population already exist in IDO ('organism population', I - + A tube extending from the mouth to the anus. @@ -362226,14 +362297,14 @@ Classes for population already exist in IDO ('organism population', I digestive tract - + - + NCBIBook:NBK10107 @@ -362362,7 +362433,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362376,6 +362447,7 @@ Classes for population already exist in IDO ('organism population', I The muscles associated with the larynx. + BTO:0001626 EMAPA:35473 FMA:46562 @@ -362393,17 +362465,18 @@ Classes for population already exist in IDO ('organism population', I musculi laryngeales uberon UBERON:0001568 + muscle of larynx - + - + prolog @@ -362438,15 +362511,16 @@ Classes for population already exist in IDO ('organism population', I - + - + Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. + Either of a pair of lingual muscles with origin in the mandible, with insertion to the lingual fascia below the mucous membrane and epiglottis, with nerve supply from the hypoglossal nerve, and whose action depresses and protrudes the tongue. [TFD][VHOG] Makes up bulk of tongue in frogs and salamanders; makes up entire tongue in caecilians.[AAO] see Intrinsic Tongue.[FEED] @@ -362469,15 +362543,16 @@ Classes for population already exist in IDO ('organism population', I musculus genioglossus uberon UBERON:0001571 + genioglossus muscle http://upload.wikimedia.org/wikipedia/commons/7/7e/Genioglossus.png - + - + @@ -362490,13 +362565,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia @@ -362601,7 +362676,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362609,6 +362684,7 @@ Classes for population already exist in IDO ('organism population', I A muscle that attaches to the hyopid bone and to the tongue and is innervated by cranial nerve XII. + Makes up part of the tongue in frogs and salamanders.[AAO] The hyoglossus is a muscle that attaches to the hyoid and tongue and is innervated by Cranial Nerve XII.[FEED] relationship loss: subclass hyobranchial muscles (AAO:0000224)[AAO] @@ -362625,11 +362701,12 @@ Classes for population already exist in IDO ('organism population', I m. hyoglossus uberon UBERON:0001572 + hyoglossus muscle http://upload.wikimedia.org/wikipedia/commons/7/7e/Hyoglossus.png - + @@ -362642,7 +362719,7 @@ Classes for population already exist in IDO ('organism population', I - + lingual process in horse dbpedia @@ -362699,7 +362776,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362715,7 +362792,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362729,6 +362806,7 @@ Classes for population already exist in IDO ('organism population', I A muscle organ that attaches the tongue to some other structure. + The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG] main functions are altering the tongue's position allowing for protrusion, retraction, and side-to-side movement All intrinsic and extrinsic muscles of the tongue are supplied by the hypoglossal nerve (CN XII), except for one of the extrinsic muscles, palatoglossus, which is innervated by the Vagus nerve CN X of the pharyngeal plexus. @@ -362743,9 +362821,10 @@ Classes for population already exist in IDO ('organism population', I extrinsic tongue muscle uberon UBERON:0001575 + extrinsic muscle of tongue - + @@ -362758,7 +362837,7 @@ Classes for population already exist in IDO ('organism population', I - + check palatoglossus Wikipedia @@ -362805,7 +362884,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -362824,9 +362903,10 @@ Classes for population already exist in IDO ('organism population', I - - + + The intrinsic tongue muscles are an integral part of the tongue and completely contained within the tongue that are innervated by Cranial Nerve XII. + The intrinsic tongue muscles are an integral part of the tongue that are innervated by Cranial Nerve XII.[FEED] The lamprey head contains another group of muscles, the epi- and hypo-branchial muscles (EBM and HBM), derivatives of anterior trunk myotomes. (...) The origin and the migration pattern of HBM precursors are very similar to that of the gnathostome MPP, especially to that of the tongue muscle precursors. Other evidence of homology of lamprey HBM to the gnathostome tongue muscle is that HBM is innervated by the nerve termed the hypoglossal nerve based on its morphological position associated with the head/trunk interface. (...) The HBM-specific expression of the LampPax3/7 gene is consistent with the homology of this muscle to the gnathostome tongue muscle, or to the hypobranchial series as a whole (including the infrahyoid and possibly the diaphragm in mammals).[well established][VHOG] The main function of the intrinsic muscles is to provide shape. They are not involved with changing the position of the tongue and are not attached to bone @@ -362841,13 +362921,14 @@ Classes for population already exist in IDO ('organism population', I intrinsic tongue muscle uberon UBERON:0001576 + intrinsic muscle of tongue - + - + @@ -362860,14 +362941,14 @@ Classes for population already exist in IDO ('organism population', I - + FEED Wikipedia - + EHDAA2 @@ -363084,11 +363165,6 @@ Classes for population already exist in IDO ('organism population', I vena cava superior BTO:0002683 - - - - - vena cava superior Wikipedia:Superior_vena_cava @@ -363245,8 +363321,9 @@ Classes for population already exist in IDO ('organism population', I - + The ciliary muscle is a ring of smooth muscle in the middle layer of the eye that controls the eye's accommodation for viewing objects at varying distances and regulates the flow of aqueous humour through Schlemm's canal. [WP,unvetted]. + BTO:0000654 EMAPA:35240 FMA:49151 @@ -363261,12 +363338,13 @@ Classes for population already exist in IDO ('organism population', I ciliaris musculus ciliaris UBERON:0001605 + ciliary muscle http://upload.wikimedia.org/wikipedia/commons/2/28/Gray872.png - + @@ -363285,7 +363363,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -363411,10 +363489,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A sphincter muscle that is part of the iris. In humans, it functions to constrict the pupil in bright light or during accommodation. Its dimensions are about 0.75 mm wide by 0.15 mm thick. It is controlled by parasympathetic fibers that originate from the Edinger-Westphal nucleus, travel along the oculomotor nerve (CN III), synapse in the ciliary ganglion, and then enter the eye via the short ciliary nerves. Initially, all the myocytes are of the smooth muscle type, but much later in life, so that ultimately most cells are of the striated muscle type. [WP,unvetted] WP says: It is found in vertebrates and some cephalopods; this class refers to the vertebrate structure @@ -363449,19 +363527,19 @@ Classes for population already exist in IDO ('organism population', I sphincter pupillae http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray878.png - + - + - + - + @@ -363474,27 +363552,27 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0781772214 - + encircles iris dbpedia - + encircles iris dbpedia - + dbpedia @@ -363602,11 +363680,12 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A smooth muscle of the eye, running radially in the iris that functions as a dilator. [WP,unvetted]. + It is innervated by the sympathetic system, which acts by releasing noradrenaline, which acts on alpha1-receptors. Thus, when presented with a threatening stimuli that activates the fight-or-flight response, this innervation dilates the iris, thus temporarily letting more light reach the retina BTO:0001371 EMAPA:35286 @@ -363636,23 +363715,24 @@ Classes for population already exist in IDO ('organism population', I radial muscle radiating fibers UBERON:0001608 + dilatator pupillae http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray878.png - + - + - + - + @@ -363665,27 +363745,27 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0781772214 - + outer margins of iris dbpedia - + inner margins of iris dbpedia - + dbpedia @@ -363812,7 +363892,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -363840,14 +363920,14 @@ Classes for population already exist in IDO ('organism population', I lingual artery https://upload.wikimedia.org/wikipedia/commons/3/3c/Lingual_artery.PNG - + - + FMA-abduced-lr @@ -364043,7 +364123,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -364060,8 +364140,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of a pair of right-sided and left-sided blood vessels in the circle of Willis. It connects the three cerebral arteries of the same side. Anteriorly, it is one portion of the terminal trifurcation of the internal carotid artery. The anterior cerebral artery and the middle cerebral artery are the other two branches of the trifurcation. Posteriorly, it communicates with the posterior cerebral artery. An artery that connects caudal division of the internal carotid artery and the basal communicating artery to the basilar artery. Isogai et al. 2001.[TAO] @@ -364091,24 +364171,24 @@ Classes for population already exist in IDO ('organism population', I posterior communicating artery http://upload.wikimedia.org/wikipedia/commons/2/2e/Circle_of_Willis_en.svg - + - + - + FMA-abduced-lr - + FMA ZFA @@ -364581,10 +364661,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + The first major branch of the abdominal aorta. EHDAA2:0004519 @@ -364616,44 +364696,44 @@ Classes for population already exist in IDO ('organism population', I celiac artery http://upload.wikimedia.org/wikipedia/commons/6/65/Gray532.png - + - + - + - + - + ISBN:0073040584 - + ISBN:0073040584 - + ISBN:0073040584 - + ISBN:0073040584 @@ -364712,12 +364792,6 @@ Classes for population already exist in IDO ('organism population', I coeliac trunk Wikipedia:Celiac_artery - - - - truncus coeliacus - Wikipedia:Celiac_artery - @@ -364780,7 +364854,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -364842,14 +364916,14 @@ Classes for population already exist in IDO ('organism population', I trigeminal nerve https://upload.wikimedia.org/wikipedia/commons/9/99/Gray778_Trigeminal.png - + - + Wikipedia @@ -364897,11 +364971,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0040996 BIRNLEX:869 - - - - - UMLS:C0040996 ncithesaurus:Trigeminal_Nerve @@ -364974,7 +365043,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -365030,14 +365099,14 @@ Classes for population already exist in IDO ('organism population', I glossopharyngeal nerve http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png - + - + motor Wikipedia @@ -365080,11 +365149,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0017679 BIRNLEX:899 - - - - - UMLS:C0017679 ncithesaurus:Glossopharyngeal_Nerve @@ -365290,11 +365354,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0020614 BIRNLEX:820 - - - - - UMLS:C0020614 ncithesaurus:Hypoglossal_Nerve @@ -365523,7 +365582,7 @@ Classes for population already exist in IDO ('organism population', I - + The anterior facial vein (facial vein) commences at the side of the root of the nose, and is a direct continuation of the angular vein where it also receives a small nasal branch. It lies behind the facial artery and follows a less tortuous course. It receives blood from the external palatine vein before it either joins the anterior branch of the retromandibular vein to form the common facial vein, or drains directly into the internal jugular vein. [WP,unvetted]. Vein which collects blood from muscles of the head and drains into the external jugular vein.[AAO] @@ -365547,14 +365606,14 @@ Classes for population already exist in IDO ('organism population', I facial vein http://upload.wikimedia.org/wikipedia/commons/8/8c/Gray557.png - + - + FMA @@ -365713,7 +365772,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -365771,7 +365830,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal ganglion http://upload.wikimedia.org/wikipedia/commons/6/69/Gray776.png - + @@ -365784,7 +365843,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -365891,11 +365950,6 @@ Classes for population already exist in IDO ('organism population', I ganglion trigeminale BTO:0001231 - - - - - ganglion trigeminale Wikipedia:Trigeminal_ganglion @@ -365913,11 +365967,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + @@ -365925,6 +365979,7 @@ Classes for population already exist in IDO ('organism population', I The bone at the lower, posterior part of the skull. + formed from the sclerotome of the occipital somites. It is not present in living or fossil agnathans or cartilaginous fishes, but appears to have arisen in parallel in many bony fishes. Incorporation of the occipital ver- tebrae into the skull was associated with the annexation of the upper part of the spinal cord into the brain, together with the first 2 spinal nerves as cranial nerves XI and XII fusion of basi-, exo- and supra-occipitals (and maybe tabular) EMAPA:25112 @@ -365941,28 +365996,29 @@ Classes for population already exist in IDO ('organism population', I occipital squama os occipitale UBERON:0001676 + occipital bone http://upload.wikimedia.org/wikipedia/commons/2/27/Gray194.png - + - + - + - + - + @@ -365975,32 +366031,32 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + basi paired exo and supra occipital bones MA-modified - + interparietal (postparietal) - + WP - + PMID:11523816 @@ -366048,10 +366104,11 @@ Classes for population already exist in IDO ('organism population', I - - - + + + The large, irregular bone located at the base and side of the skull; consists of three parts at birth: squamous, tympanic, and petrous. + In many mammals, as in humans, the petrosal, ectotympanic and squamosal bones synostose to form the temporal bone + styloid process fusion of squamosal + angular (tympanic annulus) [derm.] + petrosal (prootic + opisthotic) The temporal bone consists of four parts: * Squama temporalis * Mastoid portion * Petrous portion (Petrosal ridge) * Tympanic part[WP]. @@ -366070,20 +366127,21 @@ Classes for population already exist in IDO ('organism population', I uberon os temporale UBERON:0001678 + temporal bone http://upload.wikimedia.org/wikipedia/commons/6/66/Illu_cranial_bones2.jpg - + - + - + @@ -366096,20 +366154,20 @@ Classes for population already exist in IDO ('organism population', I - + petrosal - + squamosal plus angular temporal series - + styloid process @@ -366163,9 +366221,10 @@ Classes for population already exist in IDO ('organism population', I - - + + A horseshoe shaped bone situated in the anterior midline of the neck between the chin and the thyroid cartilage. The hyoid bone provides attachment to the muscles of the floor of the mouth and the tongue above, the larynx below, and the epiglottis and pharynx behind. [WP,modified]. + Paired processes that extend posterolaterally from the posterior margin of the hyoid plate. These processes are the ossified posteromedial processes and invest the laryngeal apparatus.[AAO] relationship loss: part_of hyoid plate (AAO:0000664)[AAO] The hyoid bone is derived from the lower half of the second gill arch in fish, which separates the first gill slit from the spiracle. In many animals, it also incorporates elements of other gill arches, and has a correspondingly greater number of cornua. Amphibians and reptiles may have many cornua, while mammals (including humans) have two pairs, and birds only one. In birds, and some reptiles, the body of the hyoid is greatly extended forward, creating a solid bony support for the tongue. The howler monkey Alouatta has a pneumatized hyoid bone, one of the few cases of postcranial pneumatization of bones outside Saurischia. @@ -366187,16 +366246,17 @@ Classes for population already exist in IDO ('organism population', I lingual bone os hyoideum UBERON:0001685 + hyoid bone http://upload.wikimedia.org/wikipedia/commons/1/1f/Gray186.png - + - + @@ -366209,13 +366269,13 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia - + Wikipedia @@ -366278,12 +366338,6 @@ Classes for population already exist in IDO ('organism population', I lingual bone Wikipedia:Hyoid_bone - - - - os hyoideum - Wikipedia:Hyoid_bone - @@ -366309,8 +366363,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -366339,11 +366393,11 @@ Classes for population already exist in IDO ('organism population', I glossopharyngeal ganglion - + - + @@ -366356,7 +366410,7 @@ Classes for population already exist in IDO ('organism population', I - + dorsal EHDAA2 ISBN:0471888893 @@ -366365,7 +366419,7 @@ Classes for population already exist in IDO ('organism population', I - + ventrolateral EHDAA2 ISBN:0471888893 @@ -366437,6 +366491,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeletal system that surrounds and protects the brain. Includes the skull base, sensory capsules and the central part of the skull roof. + Anatomical cluster that consists of the cartilages and bones that surround the brain.[TAO] neurocranial It includes the following bones: Ethmoid bone, Frontal bone, Occipital bone, Parietal bone, Sphenoid bone, Temporal bone. The term cranium can be ambiguous, in that it can refer to the neurocranium, or the neurocranium and the Facial skeleton @@ -366458,6 +366513,7 @@ Classes for population already exist in IDO ('organism population', I brain pan braincase UBERON:0001703 + @@ -366536,7 +366592,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -366602,14 +366658,14 @@ Classes for population already exist in IDO ('organism population', I jaw skeleton - + - + cjm @@ -366688,7 +366744,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -366723,14 +366779,14 @@ Classes for population already exist in IDO ('organism population', I lower jaw region http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png - + - + Wikipedia:Mandibular_prominence @@ -366894,8 +366950,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -366908,16 +366964,16 @@ Classes for population already exist in IDO ('organism population', I - - - + + + - + A muscular organ in the floor of the mouth. in MA the tongue is part of the oral region, which in uberon is treated as the oral opening. consider revising oral opening - oral region equivalence. A mobile mass of muscular tissue that is covered with mucous membrane, occupies much of the cavity of the mouth, forms part of its floor, bears the organ of taste, and assists in chewing and swallowing. [TFD][VHOG] @@ -366961,27 +367017,27 @@ Classes for population already exist in IDO ('organism population', I tongue http://upload.wikimedia.org/wikipedia/commons/a/a6/Tongue.agr.jpg - + - + - + - + - + - + @@ -366994,7 +367050,7 @@ Classes for population already exist in IDO ('organism population', I - + BTO EHDAA2 FMA @@ -367003,31 +367059,31 @@ Classes for population already exist in IDO ('organism population', I - + MA - + anterior 2/3 - + Wikipedia - + Wikipedia - + definitional @@ -367141,7 +367197,7 @@ Classes for population already exist in IDO ('organism population', I - + BIRNLEX:4102 EMAPA:32777 FMA:54819 @@ -367157,14 +367213,14 @@ Classes for population already exist in IDO ('organism population', I papilla of tongue - + - + FMA-modified @@ -367172,11 +367228,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0226964 BIRNLEX:4102 - - - - - UMLS:C0226964 ncithesaurus:Papilla_of_the_Tongue @@ -367193,9 +367244,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -367246,34 +367297,34 @@ Classes for population already exist in IDO ('organism population', I taste bud http://upload.wikimedia.org/wikipedia/commons/5/5a/Gray1018.png - + - + - + - + NIF - + FMA - + http://dev.biologists.org/content/128/22/4573.full @@ -367322,11 +367373,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0039337 BIRNLEX:4101 - - - - - UMLS:C0039337 ncithesaurus:Taste_Bud @@ -367335,13 +367381,6 @@ Classes for population already exist in IDO ('organism population', I tastebud Wikipedia:Taste_bud - - - - caliculus gustatorius - Wikipedia:Taste_bud - - @@ -367393,7 +367432,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367418,14 +367457,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001731 cavity of pharynx - + - + XAO @@ -367459,7 +367498,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367499,14 +367538,14 @@ Classes for population already exist in IDO ('organism population', I larynx http://upload.wikimedia.org/wikipedia/commons/8/8a/Larynx_external_en.svg - + - + EHDAA2 @@ -367734,7 +367773,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -367799,14 +367838,14 @@ Classes for population already exist in IDO ('organism population', I vagus nerve http://upload.wikimedia.org/wikipedia/commons/5/5e/Gray791.png - + - + motor Wikipedia @@ -367855,11 +367894,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0042276 BIRNLEX:801 - - - - - UMLS:C0042276 ncithesaurus:Vagus_Nerve @@ -367899,11 +367933,6 @@ Classes for population already exist in IDO ('organism population', I nervus vagus BTO:0003472 - - - - - nervus vagus Wikipedia:Vagus_nerve @@ -368175,7 +368204,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368218,14 +368247,14 @@ Classes for population already exist in IDO ('organism population', I iris - + - + XAO @@ -368297,7 +368326,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368349,14 +368378,14 @@ Classes for population already exist in IDO ('organism population', I corneal epithelium http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + ISBN:0781772214 @@ -368452,16 +368481,16 @@ Classes for population already exist in IDO ('organism population', I - - + + - - + + @@ -368469,6 +368498,7 @@ Classes for population already exist in IDO ('organism population', I Opaque fibrous outer layer of the eyeball[ZFA,Kardong,WP]. + The sclera, also known as the white part of the eye, is the opaque (usually white, though certain animals, such as horses and lizards, can have black sclera), fibrous, protective, outer layer of the eye containing collagen and elastic fiber. It is derived from the neural crest. In children, it is thinner and shows some of the underlying pigment, appearing slightly blue. In the elderly, however, fatty deposits on the sclera can make it appear slightly yellow. The sclera forms the posterior five sixths of the connective tissue coat of the globe. It is continuous with the dura mater and the cornea, and maintains the shape of the globe, offering resistance to internal and external forces, and provides an attachment for the extraocular muscle insertions. The sclera is perforated by plenty of nerves and vessels passing through the posterior scleral foramen, the hole that is formed by the optic nerve. At the optic disk the outer two-thirds of the sclera continues with the dura mater (outer coat of the brain) via the dural sheath of the optic nerve. The inner third joins with some choroidal tissue to form a plate (lamina cribrosa) across the optic nerve with perforations through which the optic fibers (fasciculi). The thickness of the sclera varies from 1mm at the posterior pole to 0.3 mm just behind the rectus muscle insertions. The sclera's blood vessels are mainly on the surface, and together with the conjunctiva (which lies on top) This is a thin layer covering the sclera. Along with the vessels of the conjunctiva, those of the sclera renders the inflamed eye bright red. [WP,unvetted][Wikipedia:Sclera]. The tough, usually white, outer coat of the eyeball, covering all the posterior surface and continuous anteriorly with the cornea. [TFD][VHOG] scleral @@ -368494,6 +368524,7 @@ Classes for population already exist in IDO ('organism population', I uberon scleral capsule UBERON:0001773 + @@ -368501,44 +368532,44 @@ Classes for population already exist in IDO ('organism population', I sclera http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + - + - + FMA - + ZFA - + ISBN:0781772214 - + cjm ISBN:0781772214 Wikipedia @@ -368591,7 +368622,7 @@ Classes for population already exist in IDO ('organism population', I - + A skeletal muscle organ that is part of the trunk region. Note that this class excludes smooth muscle elements in the trunk region, such as the internal anal sphincter. This appears to be consistent with other ontologies such as FMA and ZFA which appear to only include skeletal muscles here. In fact the MA class 'trunk muscle' is classified as a 'set of skeletal muscles'. Many ontologies do not appear to have a coherent distinction between an individual muscle and the musculature (i.e. the set of muscles in a region), so we group all together here. @@ -368616,14 +368647,14 @@ Classes for population already exist in IDO ('organism population', I skeletal muscle of trunk - + - + prolog @@ -368694,7 +368725,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -368733,14 +368764,14 @@ Classes for population already exist in IDO ('organism population', I ciliary body http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + ISBN:0781772214 @@ -368774,12 +368805,6 @@ Classes for population already exist in IDO ('organism population', I VHOG:0000102 - - - - corpus ciliare - Wikipedia:Ciliary_body - @@ -368794,14 +368819,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -368864,24 +368889,24 @@ Classes for population already exist in IDO ('organism population', I optic choroid http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + MA - + Wikipedia @@ -368981,7 +369006,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369030,14 +369055,14 @@ Classes for population already exist in IDO ('organism population', I substantia propria of cornea http://upload.wikimedia.org/wikipedia/commons/6/66/Gray871.png - + - + cjm ISBN:0781772214 Wikipedia @@ -369105,7 +369130,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369114,9 +369139,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + A double layer covering the ciliary body that produces aqueous humor. BTO:0001770 @@ -369136,15 +369161,15 @@ Classes for population already exist in IDO ('organism population', I ciliary epithelium - + - + - + @@ -369157,19 +369182,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + MP - + Wikipedia @@ -369573,11 +369598,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0010268 BIRNLEX:1623 - - - - - UMLS:C0010268 ncithesaurus:Cranial_Nerve @@ -369601,7 +369621,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -369637,14 +369657,14 @@ Classes for population already exist in IDO ('organism population', I aqueous humor of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + FMA def states A and P located_in in EHDAA2 VHOG @@ -369765,8 +369785,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -369799,24 +369819,24 @@ Classes for population already exist in IDO ('organism population', I anterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/b/ba/Cataract_in_human_eye.png - + - + - + FMA - + cjm @@ -369867,8 +369887,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -369898,24 +369918,24 @@ Classes for population already exist in IDO ('organism population', I posterior segment of eyeball http://upload.wikimedia.org/wikipedia/commons/1/1e/Schematic_diagram_of_the_human_eye_en.svg - + - + - + FMA - + cjm @@ -370097,7 +370117,7 @@ Classes for population already exist in IDO ('organism population', I - + The elastic, clear, membrane-like structure, that is outer most layer of the lens. The transparent membrane which surrounds the lens of the eye. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG] (...) we reach the inescapable conclusion that the last common ancestor of jawless and jawed vertebrates already possessed an eye that was comparable to that of extant lampreys and gnathostomes. Accordingly, a vertebrate camera-like eye must have been present by the time that lampreys and gnathostomes diverged, around 500 Mya (reference 1); Although the eye varies greatly in adaptative details among vertebrates, its basic structure is the same in all. The human eye is representative of the design typical for a tetrapod. (...) A watery aqueous humor fills the spaces in the eye in front of the lens (...) (reference 2).[well established][VHOG] @@ -370123,14 +370143,14 @@ Classes for population already exist in IDO ('organism population', I capsule of lens http://upload.wikimedia.org/wikipedia/commons/5/55/Gray883.png - + - + EHDAA2 @@ -370297,7 +370317,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -370336,14 +370356,14 @@ Classes for population already exist in IDO ('organism population', I sympathetic ganglion http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + - + DOI:10.1101/gr.157586.113 ISBN:0073040584 @@ -370389,11 +370409,6 @@ Classes for population already exist in IDO ('organism population', I ganglion sympathicum BTO:0001333 - - - - - ganglion sympathicum Wikipedia:Sympathetic_ganglion @@ -370471,11 +370486,6 @@ Classes for population already exist in IDO ('organism population', I ganglion parasympathicum BTO:0001256 - - - - - ganglion parasympathicum Wikipedia:Parasympathetic_ganglion @@ -370589,8 +370599,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -370627,11 +370637,11 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/9/90/Lips.JPG http://upload.wikimedia.org/wikipedia/commons/9/99/Mouth.jpg - + - + @@ -370644,7 +370654,7 @@ Classes for population already exist in IDO ('organism population', I - + BTO FMA-implicit VHOG @@ -370653,7 +370663,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -370794,7 +370804,7 @@ Classes for population already exist in IDO ('organism population', I - + One of two bilateral, largely symmetrical organ subdivisions within the telencephalon which contain the cerebral cortex and cerebral white matter.[FMA]. Part of the telencephalon consisting of either of the two smooth, elongated halves of the cerebrum.[AAO] The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor.[well established][VHOG] @@ -370832,14 +370842,14 @@ Classes for population already exist in IDO ('organism population', I cerebral hemisphere http://upload.wikimedia.org/wikipedia/commons/9/92/Hemispheres.png - + - + FMA-abduced-lr @@ -371023,11 +371033,6 @@ Classes for population already exist in IDO ('organism population', I nervus phrenicus BTO:0001063 - - - - - nervus phrenicus Wikipedia:Phrenic_nerve @@ -371057,7 +371062,7 @@ Classes for population already exist in IDO ('organism population', I - + The most anterior region of the brain including both the telencephalon and diencephalon. @@ -371104,14 +371109,14 @@ Classes for population already exist in IDO ('organism population', I forebrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -371170,11 +371175,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0085140 BIRNLEX:1509 - - - - - UMLS:C0085140 ncithesaurus:Fore-Brain @@ -371192,14 +371192,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles)[GO]. developmental relationships need revised @@ -371252,24 +371252,24 @@ Classes for population already exist in IDO ('organism population', I midbrain http://upload.wikimedia.org/wikipedia/commons/f/f9/Human_brain_inferior_view_description.JPG - + - + - + definitional - + Bgee:AN @@ -371342,11 +371342,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0025462 BIRNLEX:1667 - - - - - UMLS:C0025462 ncithesaurus:Mesencephalon @@ -371490,7 +371485,7 @@ Classes for population already exist in IDO ('organism population', I - + Part of the forebrain consisting of paired olfactory bulbs and cerebral hemispheres. Organ component of neuraxis that has as its parts the cerebral cortex, cerebral white matter, basal ganglia, septum and fornix, as well as subcortical gray and white matter structures[FMA:62000]. @@ -371550,14 +371545,14 @@ Classes for population already exist in IDO ('organism population', I telencephalon - + - + Bgee:AN @@ -371701,14 +371696,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The division of the forebrain that develops from the foremost primary cerebral vesicle. @@ -371771,24 +371766,24 @@ Classes for population already exist in IDO ('organism population', I diencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + - + definitional - + definitional @@ -371866,11 +371861,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0012144 BIRNLEX:1503 - - - - - UMLS:C0012144 ncithesaurus:Diencephalon @@ -371924,7 +371914,7 @@ Classes for population already exist in IDO ('organism population', I - + Rostral segment of the hindbrain that has as its parts the pons (where present) and the cerebellum[WP,modified]. Anterior part of the hindbrain ventral to the cerebellum[BIRNLEX:965]. @@ -371959,14 +371949,14 @@ Classes for population already exist in IDO ('organism population', I metencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -372168,11 +372158,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0025148 BIRNLEX:957 - - - - - UMLS:C0025148 ncithesaurus:Medulla_Oblongata @@ -372347,7 +372332,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a small intestine [Automatically generated definition]. Intestinal epithelium which lines the lumen of the mid intestine.[TAO] BTO:0001258 @@ -372372,14 +372357,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of small intestine - + - + FMA @@ -372542,6 +372527,7 @@ Classes for population already exist in IDO ('organism population', I An endothelium that is part of an arteriole [Automatically generated definition]. + EMAPA:36286 FMA:62115 MA:0000705 @@ -372550,6 +372536,7 @@ Classes for population already exist in IDO ('organism population', I arteriole endothelium uberon UBERON:0001916 + endothelium of arteriole @@ -372777,7 +372764,7 @@ Classes for population already exist in IDO ('organism population', I - + Ventral part of the midbrain, separated from the hindbrain by the isthmus[ISBN:0471888893]. Subdivision of the midbrain lying anterior to the tectum and posterior to the substantia nigra and cerebral peduncle[FMA] The part of the midbrain extending from the substantia nigra to the cerebral aqueduct in a horizontal section of the midbrain. It forms the floor of the midbrain that surrounds the cerebral aqueduct[WP]. Together, our results reveal a shared basic organization in the tegmental domains of the diencephalon and midbrain of developing lamprey, indicating early appearance of the domain in vertebrate phylogeny.[well established][VHOG] @@ -372817,14 +372804,14 @@ Classes for population already exist in IDO ('organism population', I midbrain tegmentum http://upload.wikimedia.org/wikipedia/commons/b/b6/Gray712.png - + - + ZFA @@ -372951,7 +372938,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -372997,14 +372984,14 @@ Classes for population already exist in IDO ('organism population', I neocortex http://upload.wikimedia.org/wikipedia/commons/7/77/Neocortex.jpg - + - + Wikipedia @@ -373119,8 +373106,9 @@ Classes for population already exist in IDO ('organism population', I - + The hyaline cartilaginous structures that support the bronchi, present as irregular rings in the larger bronchi (and not as regular as in the trachea), and as small plates and islands in the smaller bronchi; as the branching continues through the bronchial tree, the amount of hyaline cartilage in the walls decreases until it is absent in the smallest bronchioles[MP]. + EMAPA:35192 FMA:62649 MA:0001835 @@ -373137,17 +373125,18 @@ Classes for population already exist in IDO ('organism population', I cartilagines bronchiales uberon UBERON:0001956 + cartilage of bronchus - + - + MP @@ -373322,7 +373311,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that lines a terminal bronchiole. A pseudostratified epithelium, containing basal cells, stem cells of the airway, submucosal glands and cartilage rings, is limited to the trachea and large lobar airways in the mouse (Morrisey and Hogan, 2010). This more complex epithelium extends to terminal bronchioles in the human[DOI:10.1242/dev.115469] @@ -373344,14 +373333,14 @@ Classes for population already exist in IDO ('organism population', I terminal bronchiole epithelium - + - + FMA @@ -373525,7 +373514,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -373584,14 +373573,14 @@ Classes for population already exist in IDO ('organism population', I bile - + - + 0.3% in humans @@ -373809,7 +373798,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a esophagus [Automatically generated definition]. EMAPA:26987 FMA:63050 @@ -373838,14 +373827,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0001974 lamina propria of esophagus - + - + FMA @@ -374077,7 +374066,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -374118,14 +374107,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of esophagus - + - + FMA @@ -374438,8 +374427,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -374452,7 +374441,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -374467,6 +374456,7 @@ Classes for population already exist in IDO ('organism population', I A vessel through which blood circulates in the body. consider adopting the EMAPA superclass 'vascular element', which includes microvasculature (e.g. capillaries), vascular plexus + Any of the vessels through which blood circulates in the body. [XAO:0001011_][VHOG] Any of the vessels through which blood circulates in the body.[AAO] The appearance of Chordata and subsequently the vertebrates is accompanied by a rapid structural diversification of this primitive linear heart: looping, unidirectional circulation, an enclosed vasculature, and the conduction system.[well established][VHOG] @@ -374503,40 +374493,41 @@ Classes for population already exist in IDO ('organism population', I vas sanguineum UBERON:0001981 + blood vessel http://upload.wikimedia.org/wikipedia/commons/2/29/Circulatory_System_en.svg - + - + - + - + AEO - + EHDAA2 - + GO:0072360 @@ -374903,10 +374894,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + Organ of metabolic interchange between fetus and mother, partly of embryonic origin and partly of maternal origin[GO]. The fetal portion of the placenta is known as the villous chorion. The maternal portion is known as the decidua basalis. The two portions are held together by anchoring villi that are anchored to the decidua basalis by the cytotrophoblastic shell. Phylogenetic analyses of the concatenated data set using maximum parsimony, maximum likelihood and distance based (neighbour joining) methods all converged on a nearly identical, well supported topology defining four principal eutherian lineages. The results affirm monophyly of traditional placental orders (except Artiodactyla and Insectivora), and also support some previously proposed, as well as new, superordinal clades.[well established][VHOG] @@ -374942,44 +374933,44 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/6/66/Placenta.jpg http://upload.wikimedia.org/wikipedia/commons/f/f1/Placenta.svg - + - + - + - + - + https://github.com/obophenotype/uberon/issues/1376 - + ISBN:0073040584 - + Wikipedia - + ISBN:0073040584 @@ -375165,7 +375156,7 @@ Classes for population already exist in IDO ('organism population', I - + Cartilage tissue primarily composed of type II collagen (thin fibrils) and a glassy appearance. Cartilage (tissue) which consists of chondrocytes and collagen, the intercellular matrix of which is an amorphous gel with a perichondrium[FMA:64783]. Cartilage tissue primarily composed of type II collagen (thin fibrils) and a glassy appearance.[VSAO] @@ -375188,7 +375179,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/2/2a/Gray292.png http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg - + @@ -375201,7 +375192,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO-text-def @@ -375287,9 +375278,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood.. @@ -375329,35 +375320,35 @@ Classes for population already exist in IDO ('organism population', I pulmonary artery https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png - + - + - + - + Wikipedia - + EHDAA2 XAO - + EHDAA2 @@ -375778,11 +375769,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0000905 BIRNLEX:812 - - - - - UMLS:C0000905 ncithesaurus:Accessory_Nerve @@ -376106,7 +376092,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376119,7 +376105,7 @@ Classes for population already exist in IDO ('organism population', I - + The most posterior of the three principal regions of the brain. In mammals and birds the hindbrain is divided into a rostral metencephalon and a caudal myelencephalon. In zebrafish, with the exception of the cerebellum, the ventral remainder of the metencephalon can be separated only arbitrarily from the more caudal myelencephalic portion of the medulla oblongata (From: Neuroanatomy of the Zebrafish Brain)[ZFA]. Organ component of neuraxis that has as its parts the pons, cerebellum and medulla oblongata[FMA]. @@ -376170,25 +376156,25 @@ Classes for population already exist in IDO ('organism population', I hindbrain http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + - + modified-source-relation ABA - + Bgee:AN @@ -376267,11 +376253,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0035507 BIRNLEX:942 - - - - - UMLS:C0035507 ncithesaurus:Hind-Brain @@ -376410,7 +376391,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376444,14 +376425,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of bronchus - + - + FMA @@ -376685,7 +376666,7 @@ Classes for population already exist in IDO ('organism population', I - + The pontine raphe nucleus is one of the raphe nuclei. It is located in the pontine tegmentum. [WP,unvetted]. @@ -376716,14 +376697,14 @@ Classes for population already exist in IDO ('organism population', I pontine raphe nucleus - + - + Wikipedia @@ -376806,7 +376787,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -376875,14 +376856,14 @@ Classes for population already exist in IDO ('organism population', I lung https://github.com/obophenotype/uberon/issues/701 - + - + some species only have a single lung @@ -377152,7 +377133,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377178,14 +377159,14 @@ Classes for population already exist in IDO ('organism population', I epithelium of bronchiole - + - + FMA @@ -377281,9 +377262,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + The truncus arteriosus and bulbus cordis are divided by the aorticopulmonary septum. The truncus arteriosus gives rise to the ascending aorta and the pulmonary trunk. The bulbus cordis gives rise to the smooth parts (outflow tract) of the left and right ventricles. assume spelling error for ncit EHDAA2:0004143 @@ -377301,15 +377282,15 @@ Classes for population already exist in IDO ('organism population', I truncus arteriosus - + - + - + @@ -377328,19 +377309,19 @@ Classes for population already exist in IDO ('organism population', I - + MA - + EHDAA2 - + EHDAA2 @@ -377371,7 +377352,7 @@ Classes for population already exist in IDO ('organism population', I - + The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves[GO]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves[ZFA]. Swellings of tissue present between the endocardial and myocardial cell layers that will give rise to the interstitial cells of the cardiac valves.[TAO] relationship loss: develops_from endocardial ring (TAO:0005072)[TAO] @@ -377403,14 +377384,14 @@ Classes for population already exist in IDO ('organism population', I endocardial cushion http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png - + - + ZFA @@ -377486,8 +377467,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The sinus venosus is a large cardiac chamber at the inflow tract that receives venous blood from systemic circulation. precedes the atrium on the venous side of the chordate heart. Heart region collecting blood from the paired common cardinal veins and delivering to the atrium. One of four components of the heart. The sinus venosus also acts as a pacemaker and is the first to contract. Kimmel et al, 1995.[TAO] Part of the circulatory system which receives blood from the systemic veins and contracts to pump the blood into the atrium of the heart.[AAO] @@ -377522,24 +377503,24 @@ Classes for population already exist in IDO ('organism population', I sinus venosus http://upload.wikimedia.org/wikipedia/commons/c/c7/Gray465.png - + - + - + VHOG - + Bgee:AN @@ -377641,7 +377622,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377672,7 +377653,7 @@ Classes for population already exist in IDO ('organism population', I - + The dermis is a layer of skin between the epidermis (with which it makes up the skin) and subcutaneous tissues, and is composed of two layers, the papillary and reticular dermis[WP]. Consider adding a layer-of-skin grouping class for all skin layers @@ -377712,24 +377693,24 @@ Classes for population already exist in IDO ('organism population', I dermis http://upload.wikimedia.org/wikipedia/commons/2/23/EpidermisPainted.svg - + - + - + FMA - + definitional @@ -377769,11 +377750,6 @@ Classes for population already exist in IDO ('organism population', I corium BTO:0000294 - - - - - corium Wikipedia:Dermis @@ -377792,7 +377768,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -377811,7 +377787,7 @@ Classes for population already exist in IDO ('organism population', I - + Lowermost layer of the integumentary system in vertebrates. Types of cells that are found in the hypodermis are fibroblasts, adipose cells, and macrophages. It is derived from the mesoderm, but unlike the dermis, it is not derived from the dermatome region of the mesoderm. The hypodermis is used mainly for fat storage[WP]. A layer separating the inner face of the dermis from the subjacent muscle cells. It is covered on both sides by a basement membrane. It contains pigment cells. Le Guellec et al, 2004.[TAO] @@ -377846,24 +377822,24 @@ Classes for population already exist in IDO ('organism population', I hypodermis http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg - + - + - + ZFA - + FMA-modified @@ -378284,8 +378260,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A cardiac ventricle that is in the right side of the heart. The muscular chamber on the right and in front of the left ventricle. It generally receives venous blood from the right atrium and conveys it into the pulmonary artery. [(1988)_Dorian_AF, Amsterdam, Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B._Anatomy, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier's_Encyclopaedic_Dictionary_of_Medicine][VHOG] @@ -378316,24 +378292,24 @@ Classes for population already exist in IDO ('organism population', I heart right ventricle http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg - + - + - + PMID:17276708 - + cjm @@ -378514,7 +378490,7 @@ Classes for population already exist in IDO ('organism population', I - + Cardiac chamber through which blood leaves the heart. A chamber of the heart that receives blood from one or more atria and pumps it by muscular contraction into the arteries.[AAO] One of four heart chambers.[TAO] @@ -378553,14 +378529,14 @@ Classes for population already exist in IDO ('organism population', I cardiac ventricle - + - + Bgee:AN @@ -378635,7 +378611,7 @@ Classes for population already exist in IDO ('organism population', I - + A cardiac ventricle that is in the left side of the heart. Thick-walled muscular chamber constituting the left border and apex of the heart. It receives oxygenated blood from the left atrium through the mitral orifice and send it off into the aorta. [Dorian_AF, Elsevier's_encyclopaedic_dictionary_of_medicine, Part_B:_Anatomy_(1988)_Amsterdam_etc.:_Elsevier][VHOG] @@ -378667,14 +378643,14 @@ Classes for population already exist in IDO ('organism population', I heart left ventricle http://upload.wikimedia.org/wikipedia/commons/2/20/Diagram_of_the_human_heart_%28cropped%29.svg - + - + GO @@ -378958,6 +378934,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeleton which which consists of all the skeletal elements in in the pectoral and pelvic appendage complexes[cjm]. + Skeletal subdivision consisting of all the skeletal elements in the pectoral and pelvic appendage complexes.[VSAO] Skeletal system that consists of the paired fins (pectoral or pelvic fins).[TAO] The pectoral and pelvic girdles, which articulate with the axial skeleton, together with their associated limbs, the forelimbs and hind limbs, form the appendicular skeleton.[AAO] @@ -378983,6 +378960,7 @@ Classes for population already exist in IDO ('organism population', I skeleton appendiculare UBERON:0002091 + @@ -379471,7 +379449,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -379513,14 +379491,14 @@ Classes for population already exist in IDO ('organism population', I skin of body http://upload.wikimedia.org/wikipedia/commons/6/6d/Skin.svg - + - + Wikipathways:WP2062 @@ -379869,7 +379847,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -379918,14 +379896,14 @@ Classes for population already exist in IDO ('organism population', I spleen https://upload.wikimedia.org/wikipedia/commons/d/d6/Illu_spleen.jpg - + - + multiple sources - true spleen appear in jawed vertebrates @@ -379983,22 +379961,22 @@ Classes for population already exist in IDO ('organism population', I - + - + - - + + @@ -380076,19 +380054,19 @@ Classes for population already exist in IDO ('organism population', I liver https://upload.wikimedia.org/wikipedia/commons/6/64/Leber_Schaf.jpg - + - + - + - + @@ -380103,25 +380081,25 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA-weakened - + EHDAA2 - + http://www.stembook.org/node/512 @@ -380296,11 +380274,6 @@ Classes for population already exist in IDO ('organism population', I intestinum tenue BTO:0000651 - - - - - intestinum tenue Wikipedia:Small_intestine @@ -380326,7 +380299,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -380379,7 +380352,7 @@ Classes for population already exist in IDO ('organism population', I https://upload.wikimedia.org/wikipedia/commons/b/b1/GallbladderAnatomy-en.svg https://upload.wikimedia.org/wikipedia/commons/f/f4/Abdomal_organs.svg - + @@ -380392,7 +380365,7 @@ Classes for population already exist in IDO ('organism population', I - + definitional @@ -381003,7 +380976,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -381042,14 +381015,14 @@ Classes for population already exist in IDO ('organism population', I superior olivary complex http://upload.wikimedia.org/wikipedia/commons/4/46/Gray713.png - + - + NIFSTD @@ -381140,7 +381113,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -381198,14 +381171,14 @@ Classes for population already exist in IDO ('organism population', I locus ceruleus http://upload.wikimedia.org/wikipedia/commons/7/77/Gray709.png - + - + check ZFA NIFSTD @@ -381246,11 +381219,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0023951 BIRNLEX:905 - - - - - UMLS:C0023951 ncithesaurus:Locus_Coeruleus @@ -381339,7 +381307,7 @@ Classes for population already exist in IDO ('organism population', I - + Nucleus containing parasympathetic neurons giving rise to the parasympathetic division of the facial nerve, innervating the salivary glands (Brodal, Neurological Anatomy, 3rd ed., 1981, pg 703). @@ -381375,14 +381343,14 @@ Classes for population already exist in IDO ('organism population', I superior salivatory nucleus http://upload.wikimedia.org/wikipedia/commons/6/6b/Gray788.png - + - + definitional @@ -381512,7 +381480,7 @@ Classes for population already exist in IDO ('organism population', I - + The endocardium is an anatomical structure comprised of an endothelium and an extracellular matrix that forms the innermost layer of tissue of the heart, and lines the heart chambers[GO]. Layer that lines the lumen of the heart.[TAO] Part of the heart comprised of thin serous membrane, composed of endothelial tissue, that lines the interior of the heart.[AAO] @@ -381554,14 +381522,14 @@ Classes for population already exist in IDO ('organism population', I endocardium http://upload.wikimedia.org/wikipedia/commons/6/6c/Gray493.png - + - + Bgee:AN @@ -381975,8 +381943,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The conducting airway of the lungs found terminal to the bronchi; these structures contain neither cartilage nor mucous-secreting glands; the epithelium of the bronchioles becomes thinner with each branching. bronchiolar lacks submucosa and cartilage plates; they have 3 layers: mucosa, muscular layer and outer layer @@ -382006,24 +381974,24 @@ Classes for population already exist in IDO ('organism population', I bronchiole https://upload.wikimedia.org/wikipedia/commons/d/db/Alveoli_diagram.png - + - + - + ncit - + FMA @@ -382287,7 +382255,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -382345,7 +382313,7 @@ Classes for population already exist in IDO ('organism population', I integument - + @@ -382358,7 +382326,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -382699,7 +382667,7 @@ Classes for population already exist in IDO ('organism population', I - + Vasculature that is part of the eye region. not part of the eye in ZFA. Note this changed to a blood vessel in ZFA @@ -382720,14 +382688,14 @@ Classes for population already exist in IDO ('organism population', I vasculature of eye - + - + ISBN:0781772214 @@ -382786,7 +382754,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -382826,14 +382794,14 @@ Classes for population already exist in IDO ('organism population', I musculoskeletal system - + - + check ctenophore @@ -382876,7 +382844,7 @@ Classes for population already exist in IDO ('organism population', I - + Nonsynovial joint in which the articulating bones or cartilages are connected by ligaments. Examples: sagittal suture, inferior tibiofibular syndesmosis, gomphosis.[FMA]. A joint where fibrous tissue such as ligament connects two calcified tissues.[TAO] AEO:0000178 @@ -382896,7 +382864,7 @@ Classes for population already exist in IDO ('organism population', I fibrous joint - + @@ -382909,7 +382877,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -383307,18 +383275,19 @@ Classes for population already exist in IDO ('organism population', I - + - - + + Part of the central nervous system located in the vertebral canal continuous with and caudal to the brain; demarcated from brain by plane of foramen magnum. It is composed of an inner core of gray matter in which nerve cells predominate, and an outer layer of white matter in which myelinated nerve fibers predominate, and surrounds the central canal. (CUMBO). TODO - add superclass to unify with VNC? + Part of the central nervous system which descends from the hindbrain within the vertebral column.[AAO] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...) (reference 1); The neural tube is destined to differentiate into the brain and spinal cord (the central nervous system) (reference 2).[well established][VHOG] AAO:0010151 @@ -383362,6 +383331,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002240 + @@ -383370,34 +383340,34 @@ Classes for population already exist in IDO ('organism population', I spinal cord http://upload.wikimedia.org/wikipedia/commons/5/58/Spinal_cord_direv.svg - + - + - + - + ZFA - + definitional - + definitional @@ -383438,11 +383408,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0037925 BIRNLEX:1709 - - - - - UMLS:C0037925 ncithesaurus:Spinal_Cord @@ -383488,11 +383453,6 @@ Classes for population already exist in IDO ('organism population', I medulla spinalis BTO:0001279 - - - - - medulla spinalis Wikipedia:Spinal_cord @@ -383599,7 +383559,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -383650,14 +383610,14 @@ Classes for population already exist in IDO ('organism population', I ventral horn of spinal cord - + - + FMA-abduced-lr @@ -383840,11 +383800,6 @@ Classes for population already exist in IDO ('organism population', I brainstem reticular formation MA:0003185 - - - - - brainstem reticular formation NeuroNames:1223 @@ -383961,7 +383916,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -383991,14 +383946,14 @@ Classes for population already exist in IDO ('organism population', I dorsal mesentery http://upload.wikimedia.org/wikipedia/commons/8/85/Gray985.png - + - + EHDAA2 @@ -384162,11 +384117,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0006121 BIRNLEX:1565 - - - - - UMLS:C0006121 ncithesaurus:Brain_Stem @@ -384770,7 +384720,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -384811,14 +384761,14 @@ Classes for population already exist in IDO ('organism population', I coelemic cavity lumen - + - + definitional @@ -384918,8 +384868,9 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a back [Automatically generated definition]. + EMAPA:35161 FMA:85216 MA:0000496 @@ -384928,16 +384879,17 @@ Classes for population already exist in IDO ('organism population', I muscle organ of back uberon UBERON:0002324 + muscle of back - + - + prolog @@ -384985,9 +384937,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -385042,15 +384994,15 @@ Classes for population already exist in IDO ('organism population', I notochord http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + @@ -385069,19 +385021,19 @@ Classes for population already exist in IDO ('organism population', I - + http://tolweb.org/Chordata/2499 - + ZFA - + EHDAA2 @@ -385166,8 +385118,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Somites are spheres of epithelial cells that form sequentially along the anterior-posterior axis of the embryo through mesenchymal to epithelial transition of the presomitic mesoderm. currently classified as an epithelial vesicle, consistent with EHDAA2 and https://github.com/obophenotype/uberon/wiki/The-neural-crest. Consider making 'somitic mesoderm' a separate term and correlate with regionalization processes. Consider moving ZFA term to 'trunk somite' as it is part of the trunk @@ -385213,11 +385165,11 @@ Classes for population already exist in IDO ('organism population', I somite http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + @@ -385230,13 +385182,13 @@ Classes for population already exist in IDO ('organism population', I - + GOTAX:0000352 - + ZFA @@ -385566,7 +385518,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a bronchus [Automatically generated definition]. EMAPA:35194 FMA:86619 @@ -385595,14 +385547,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002338 lamina propria of bronchus - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -385728,12 +385680,12 @@ Classes for population already exist in IDO ('organism population', I - - - - - - + + + + + + A specialized region of ectoderm found between the neural ectoderm (neural plate) and non-neural ectoderm and composed of highly migratory pluripotent cells that delaminate in early embryonic development from the dorsal neural tube and give rise to an astounding variety of differentiated cell types[MP]. consider including subclasses for pre- and post- migratory (e.g. sheets/paths/streams). @@ -385773,66 +385725,66 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray644.png https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + - + - + - + XAO https://github.com/obophenotype/uberon/wiki/The-neural-crest - + Hall and others restrict NC to vertebrates but we opt for a less restrictive constraint to avoid inconsistencies when areas such as P1 area of pallium in hagfishes inherit cell lineage from telecephalon-contributing NC cells ISBN:0073040584 - + BTO - + PMID:11523831 - + pre migratory https://github.com/obophenotype/uberon/wiki/The-neural-crest - + PMID:11523831 @@ -386045,7 +385997,7 @@ Classes for population already exist in IDO ('organism population', I - + Embryonic ectoderm that gives rise to nervous tissue. (...) the ability of ectoderm to produce neuronal cells is a general metazoan feature.[well established][VHOG] neurectodermal @@ -386081,14 +386033,14 @@ Classes for population already exist in IDO ('organism population', I neurectoderm - + - + ZFA @@ -386133,15 +386085,15 @@ Classes for population already exist in IDO ('organism population', I - - + + - + A region of the serous membrane that forms the innermost layer of the pericardium and the outer surface of the heart. TODO - check links with UBERON:0002425 visceral serous pericardium. develops from proepicardium. WP:Epicardium -- When considered as a part of the pericardium, it is the inner layer, or visceral pericardium, continuous with the serous layer. @@ -386171,34 +386123,34 @@ Classes for population already exist in IDO ('organism population', I epicardium - + - + - + - + multiple - + FMA-inferred - + FMA @@ -386375,11 +386327,6 @@ Classes for population already exist in IDO ('organism population', I heart muscle FMA:9462 - - - - - heart muscle ZFA:0001319 @@ -386390,11 +386337,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + @@ -386431,23 +386378,23 @@ Classes for population already exist in IDO ('organism population', I conducting system of heart - + - + - + - + - + @@ -386460,31 +386407,31 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA - + FMA - + FMA - + FMA @@ -386551,7 +386498,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -386615,7 +386562,7 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/d/d2/Sinoatrial_node_low_mag.jpg http://upload.wikimedia.org/wikipedia/commons/d/de/Sinoatrial_node_2_low_mag.jpg - + @@ -386628,7 +386575,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -386905,8 +386852,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -386936,11 +386883,11 @@ Classes for population already exist in IDO ('organism population', I cardiac Purkinje fiber http://upload.wikimedia.org/wikipedia/commons/9/96/Gray498.png - + - + @@ -386953,7 +386900,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -386961,7 +386908,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -387102,7 +387049,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387115,7 +387062,7 @@ Classes for population already exist in IDO ('organism population', I - + Serous membrane which is divided into parietal and visceral serous pericardium. EMAPA:19030 FMA:9582 @@ -387129,24 +387076,24 @@ Classes for population already exist in IDO ('organism population', I serous pericardium - + - + - + FMA - + FMA @@ -387187,7 +387134,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387225,14 +387172,14 @@ Classes for population already exist in IDO ('organism population', I peritoneum http://upload.wikimedia.org/wikipedia/commons/5/5f/Gray1040.png - + - + MP @@ -387285,14 +387232,14 @@ Classes for population already exist in IDO ('organism population', I - + - + Membrane organ which is attached to the pericardial sac proper and the central tendon of diaphragm and is continuous with the pretracheal fascia.[FMA]. most superficial part of pericardium; continuous with the outer adventitial layer of the neighboring great blood vessels. [Wikipedia:Pericardium] EMAPA:19029 @@ -387308,11 +387255,11 @@ Classes for population already exist in IDO ('organism population', I fibrous pericardium - + - + @@ -387325,13 +387272,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + WP @@ -387361,7 +387308,7 @@ Classes for population already exist in IDO ('organism population', I - + Membrane organ that surrounds the brain and the spinal cord. Membrane covering the brain and spinal cord. It is represented by a single layer in fishes, two in amphibians, reptiles and birds and three in mammals (named dura mater, arachnoid and pia mater). [TFD][VHOG] In fishes, the meninges consist of a single membrane, the primitive meninx, wrapped around the brain and spinal cord. With the adoption of terrestrial life, the meninges doubled. In amphibians, reptiles, and birds, the meninges include a thick outer dura mater derived from mesoderm and a thin inner secondary meninx. (...) In mammals, the dura mater persists, but division of the secondary meninx yields both the arachnoid and the pia mater from ectomesoderm.[well established][VHOG] @@ -387399,7 +387346,7 @@ Classes for population already exist in IDO ('organism population', I meninx https://upload.wikimedia.org/wikipedia/commons/4/48/Illu_meninges.jpg - + @@ -387412,7 +387359,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -387469,8 +387416,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Thick, fibrous meningeal covering surrounding the brain and spinal cord. It is the outermost of the three meningeal coverings. It consists of two layers: the periosteal dura linking the inner surface of the skull and the meningeal dura that lies above the arachnoid dural membrane. The meningeal layer draws away from the periosteal layer and certain locations to form the dural reflections. the outermost of the three layers of the meninges surrounding the brain and spinal cord. The other two meningeal layers are the pia mater and the arachnoid mater. The dura surrounds the brain and the spinal cord and is responsible for keeping in the cerebrospinal fluid[Wikipedia:Dura_mater]. @@ -387501,24 +387448,24 @@ Classes for population already exist in IDO ('organism population', I dura mater http://upload.wikimedia.org/wikipedia/commons/8/8e/Meninges-en.svg - + - + - + PMID:16496288 - + definitional @@ -387752,7 +387699,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -387810,14 +387757,14 @@ Classes for population already exist in IDO ('organism population', I bone marrow http://upload.wikimedia.org/wikipedia/commons/7/74/Gray72-en.svg - + - + FMA MA @@ -387889,8 +387836,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -387898,6 +387845,7 @@ Classes for population already exist in IDO ('organism population', I Any skeletal muscle that is part of the head region. + UBERON:0003899 AAO:0000107 BTO:0000021 @@ -387922,29 +387870,30 @@ Classes for population already exist in IDO ('organism population', I head muscles UBERON:0002376 + defined generically so could in theory encompass FBbt:00003260 'skeletal muscle of head', or the muscle of a starfish Aristotle's lantern, but we restrict this to craniates. Skeletal muscles of the head originate from the non-segmented head mesoderm (Noden, 1983; Wachtler et al., 1984) cranial muscle - + - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships - + EHDAA2-abduced @@ -388019,8 +387968,9 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle that is part of the cervical (neck) region. + EMAPA:36050 FMA:9617 GAID:149 @@ -388035,18 +387985,19 @@ Classes for population already exist in IDO ('organism population', I neck muscle organ uberon UBERON:0002377 + muscle of neck - + - + prolog @@ -388104,7 +388055,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388112,6 +388063,7 @@ Classes for population already exist in IDO ('organism population', I Muscle (organ) which is a part of the abdomen. Examples: external oblique, rectus abdominis. + BTO:0001261 EMAPA:35103 FMA:9620 @@ -388130,18 +388082,19 @@ Classes for population already exist in IDO ('organism population', I uberon abdominal wall musculature UBERON:0002378 + muscle of abdomen - + - + prolog @@ -388397,14 +388350,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -388451,24 +388404,24 @@ Classes for population already exist in IDO ('organism population', I hematopoietic system - + - + - + FMA - + definitional @@ -388524,7 +388477,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388534,8 +388487,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -388582,25 +388535,25 @@ Classes for population already exist in IDO ('organism population', I bile duct http://upload.wikimedia.org/wikipedia/commons/5/5d/Digestive_system_showing_bile_duct.png - + - + - + EMAPA MA - + XAO @@ -388778,7 +388731,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388823,14 +388776,14 @@ Classes for population already exist in IDO ('organism population', I visceral pleura - + - + FMA @@ -388904,7 +388857,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -388950,14 +388903,14 @@ Classes for population already exist in IDO ('organism population', I pleural cavity http://upload.wikimedia.org/wikipedia/commons/a/ab/Gray965.png - + - + Wikipedia @@ -389128,7 +389081,7 @@ Classes for population already exist in IDO ('organism population', I - + A double-walled sac containing the heart and the roots of the great vessels. FMA:9868 RETIRED_EHDAA2:0001443 @@ -389142,14 +389095,14 @@ Classes for population already exist in IDO ('organism population', I pericardial sac http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png - + - + FMA @@ -389167,7 +389120,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -389224,14 +389177,14 @@ Classes for population already exist in IDO ('organism population', I pericardium http://upload.wikimedia.org/wikipedia/commons/7/7e/Gray489.png - + - + MA @@ -389416,7 +389369,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -389471,7 +389424,7 @@ Classes for population already exist in IDO ('organism population', I autonomic nervous system http://upload.wikimedia.org/wikipedia/commons/f/f7/Gray839.png - + @@ -389484,7 +389437,7 @@ Classes for population already exist in IDO ('organism population', I - + EMAPA MA NIFSTD @@ -389535,11 +389488,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0004388 BIRNLEX:1123 - - - - - UMLS:C0004388 ncithesaurus:Autonomic_Nervous_System @@ -390150,7 +390098,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of the mouth and lines the oral cavity, typically stratified squamous, and may be para-, ortho- or non- keratinized. Primary barrier between oral environment and deeper tissues. consider including separate class for developmental structure (adult human is stratified; in EHDAA2 is unilaminar) The epithelium that lines the oral cavity. The oral epithelium epithelial cells with many short microvilli as well as mucous cells, rodlet cells and taste buds[ZFIN:ZDB-PUB-060921-12, ZFIN:ZDB-PUB-091204-24]. @@ -390177,14 +390125,14 @@ Classes for population already exist in IDO ('organism population', I oral epithelium - + - + AAO-modified @@ -390247,8 +390195,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -390276,24 +390224,24 @@ Classes for population already exist in IDO ('organism population', I visceral serous pericardium - + - + - + cjm - + FMA @@ -390396,11 +390344,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0152295 BIRNLEX:711 - - - - - UMLS:C0152295 ncithesaurus:Cerebral_White_Matter @@ -390561,7 +390504,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -390609,7 +390552,7 @@ Classes for population already exist in IDO ('organism population', I decidua http://upload.wikimedia.org/wikipedia/commons/f/fa/Gray33.png - + @@ -390622,7 +390565,7 @@ Classes for population already exist in IDO ('organism population', I - + maternal MA @@ -390674,11 +390617,6 @@ Classes for population already exist in IDO ('organism population', I maternal placenta EMAPA:35269 - - - - - maternal placenta GOC:dph @@ -390713,7 +390651,7 @@ Classes for population already exist in IDO ('organism population', I - + The mucous secreting gland associated with the mucuous membrane lining the uterus. simple or branched tubular @@ -390741,7 +390679,7 @@ Classes for population already exist in IDO ('organism population', I endometrial gland http://upload.wikimedia.org/wikipedia/commons/2/28/Gray1169.png - + @@ -390754,7 +390692,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Tubular_gland @@ -391238,7 +391176,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -391247,8 +391185,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -391274,11 +391212,11 @@ Classes for population already exist in IDO ('organism population', I iris epithelium - + - + @@ -391291,13 +391229,13 @@ Classes for population already exist in IDO ('organism population', I - + MA - + MP @@ -391375,7 +391313,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -391406,7 +391344,7 @@ Classes for population already exist in IDO ('organism population', I https://github.com/obophenotype/uberon/wiki/Modeling-endochondral-elements-Design-Pattern http://upload.wikimedia.org/wikipedia/commons/e/ee/Hypertrophic_Zone_of_Epiphyseal_Plate.jpg - + @@ -391419,7 +391357,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO @@ -391610,8 +391548,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -391637,11 +391575,11 @@ Classes for population already exist in IDO ('organism population', I tunica media https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg - + - + @@ -391654,13 +391592,13 @@ Classes for population already exist in IDO ('organism population', I - + cjm - + cjm @@ -391680,11 +391618,6 @@ Classes for population already exist in IDO ('organism population', I tunica media vasorum BTO:0002011 - - - - - tunica media vasorum Wikipedia:Tunica_media @@ -391702,8 +391635,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The innermost layer of a blood vessel which is a lining of endothelial cells facing the lumen[Kardong]. the FMA class represents a more generic layer which is the superclass of the layer found in both blood vessels and lymph vessels (and also endocardium) - we should probably follow this structure the FMA class represents a structure which may have both epithelium and fibroelastic connective tissue as parts @@ -391728,11 +391661,11 @@ Classes for population already exist in IDO ('organism population', I tunica intima https://upload.wikimedia.org/wikipedia/commons/3/32/Illu_artery.jpg - + - + @@ -391745,13 +391678,13 @@ Classes for population already exist in IDO ('organism population', I - + check for exceptions, e.g. capillaries - + ISBN:0073040584 @@ -391884,11 +391817,6 @@ Classes for population already exist in IDO ('organism population', I glandula BTO:0000522 - - - - - glandula Wikipedia:Gland @@ -392035,9 +391963,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + One of a series of paired bulges that develop along the lateral walls of the foregut. The pharyngeal arches have developmental contributions from endoderm, mesoderm, and neural crest cells and are separated by anterior lateral endoderm out-pockets known as pharyngeal pouches. One of a series of bony or cartilaginous arches that develop in the walls of the mouth cavity and pharynx of the embryo.[AAO] A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down.[well established][VHOG] @@ -392073,15 +392001,15 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch http://upload.wikimedia.org/wikipedia/commons/8/8b/Gray41.png - + - + - + @@ -392094,19 +392022,19 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16313389 - + http://tolweb.org/Chordata/2499 - + PMID:16313389 @@ -392175,7 +392103,7 @@ Classes for population already exist in IDO ('organism population', I - + Ectodermal placode that develops in the head into a part of the sensory nervous system. With a few exceptions (lens, adenohypophyseal), cranial placodes are neurogenic. Do not merge with neurogenic placode Comparisons of developmental gene expression suggest that the anterior ectoderm in amphioxus may be homologous to the vertebrate olfactory placode, the only vertebrate placode with primary, not secondary, neurons @@ -392195,7 +392123,7 @@ Classes for population already exist in IDO ('organism population', I cranial placode - + @@ -392208,7 +392136,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:11523831 PMID:22512454 @@ -392515,6 +392443,7 @@ Classes for population already exist in IDO ('organism population', I A spinal cord segment that adjacent_to a cervical region. + BIRNLEX:1499 FMA:71166 MA:0003081 @@ -392530,6 +392459,7 @@ Classes for population already exist in IDO ('organism population', I segmenta cervicalia medullae spinalis [1-8 uberon UBERON:0002726 + cervical spinal cord @@ -392543,11 +392473,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0581619 BIRNLEX:1499 - - - - - UMLS:C0581619 ncithesaurus:Cervical_Spinal_Cord @@ -392833,11 +392758,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0228802 BIRNLEX:2644 - - - - - UMLS:C0228802 ncithesaurus:Hypoglossal_Nucleus @@ -393035,7 +392955,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393049,14 +392969,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0002926 gustatory epithelium - + - + NIFSTD @@ -393257,6 +393177,7 @@ Classes for population already exist in IDO ('organism population', I The thoracic nerves are the spinal nerves emerging from the thoracic vertebrae. [WP,unvetted]. + BIRNLEX:966 FMA:71167 MA:0003082 @@ -393273,6 +393194,7 @@ Classes for population already exist in IDO ('organism population', I thoracic spinal cord uberon UBERON:0003038 + thoracic spinal cord http://upload.wikimedia.org/wikipedia/commons/6/68/Gray820.png @@ -393288,11 +393210,6 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0581620 BIRNLEX:966 - - - - - UMLS:C0581620 ncithesaurus:Thoracic_Spinal_Cord @@ -393439,7 +393356,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393452,7 +393369,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the brain that is the morphological boundary between the midbrain and hindbrain and that is the location of an organizing center which patterns the midbrain and hindbrain primordia of the neural plate. consider adding class for organizer. Consider adding separate class for isthmus as a structure Lampreys also have an MHB [midbrain hindbrain boundary], expressing a similar repertoire of regulatory gene cognates as in gnathostomes.[well established][VHOG] @@ -393482,11 +393399,11 @@ Classes for population already exist in IDO ('organism population', I midbrain-hindbrain boundary - + - + @@ -393500,13 +393417,13 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA @@ -393551,8 +393468,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A temporary epithelium that derives from the outer layer of the ectdoerm and is shed once the inner layer differentiates to form a true epidermis. The outermost epidermal layer covering the fish at embryonic stages; derived from the EVL and thought to eventually be replaced by the superficial stratum of the epidermis. Sometimes used synonymously with EVL. Le Guellec et al, 2004.[TAO] relationship type change: OBO_REL:part_of ectoderm (TAO:0000016) CHANGED TO: develops_from ectoderm (UBERON:0000924)[TAO] @@ -393580,11 +393497,11 @@ Classes for population already exist in IDO ('organism population', I periderm - + - + @@ -393597,13 +393514,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ZFA @@ -393760,7 +393677,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -393780,7 +393697,7 @@ Classes for population already exist in IDO ('organism population', I - + Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Unsegmented field of paraxial mesoderm present posterior to the most recently formed somite pair, from which somites will form. Kimmel et al, 1995.[TAO] It is reasonable to assume that the proximate invertebrate ancestor of the vertebrates had an amphioxus-like tail bud in its larval stage. This archetypal tail bud would have (...) (3) lacked any component of mesenchyme cells, (4) budded off new mesodermal segments directly, without any intervening zone of presomitic mesoderm (...). Then, early in vertebrate evolution, epithelium-to-mesenchyme interconversions (and the gene networks for effecting them) became prominent features of development. (...) In any case, conspicuous mesenchymal components tended to be added to the vertebrate tail bud itself. In addition, a mesenchymatous presomitic mesoderm (not a part of the tail bud proper) came to intervene between the tail bud and the forming somites.[well established][VHOG] @@ -393805,14 +393722,14 @@ Classes for population already exist in IDO ('organism population', I presomitic mesoderm - + - + Bgee:AN @@ -393865,8 +393782,6 @@ Classes for population already exist in IDO ('organism population', I - - @@ -393911,26 +393826,6 @@ Classes for population already exist in IDO ('organism population', I blood island - - - - - - - - - - - - - ISBN:0073040584 - - - - - - ISBN:0073040584 - @@ -393998,8 +393893,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A horseshoe-shaped thickening of the endoderm at the cranial (rostral) end of the primitive streak formed by the involution of Spemann's organizer cells which, together with the notochord, induces the formation of the neural plate from the overlying ectodermal cells and contributes mesodermal type cells to the surrounding tissue. TODO - check; developmental relationship to anterior hypoblast in ZFA? Axial hypoblast located anterior to the chorda mesoderm; the polster is its most anterior region. Kimmel et al, 1995.[TAO] @@ -394024,24 +393919,24 @@ Classes for population already exist in IDO ('organism population', I prechordal plate - + - + - + ZFA - + PMID:16313393 @@ -394098,9 +393993,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -394142,34 +394037,34 @@ Classes for population already exist in IDO ('organism population', I intermediate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + - + - + - + AAO - + EMAPA - + XAO @@ -394610,7 +394505,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -394648,7 +394543,7 @@ Classes for population already exist in IDO ('organism population', I eye primordium - + @@ -394661,7 +394556,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16496288 XAO @@ -394717,8 +394612,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -394747,24 +394642,24 @@ Classes for population already exist in IDO ('organism population', I optic cup - + - + - + ZFA - + ZFA @@ -394829,7 +394724,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -394870,7 +394765,7 @@ Classes for population already exist in IDO ('organism population', I lens placode http://upload.wikimedia.org/wikipedia/commons/2/2f/Gray864.png - + @@ -394883,7 +394778,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -394947,9 +394842,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + A region of embryonic ectodermal cells that lie directly above the notochord. During neurulation, they change shape and produce an infolding of the neural plate (the neural fold) that then seals to form the neural tube[XAO]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium[ZFA]. The earliest recognizable dorsal ectodermal primordium of the central nervous system present near the end of gastrulation before infolding to form the neural keel; consists of a thickened pseudostratified epithelium. Kimmel et al, 1995.[TAO] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...).[well established][VHOG] @@ -394981,34 +394876,34 @@ Classes for population already exist in IDO ('organism population', I neural plate https://upload.wikimedia.org/wikipedia/commons/8/8f/Neural_Crest.png - + - + - + - + GOTAX:0000352 - + Wikipedia - + Bgee:AN @@ -395119,7 +395014,7 @@ Classes for population already exist in IDO ('organism population', I - + The paraxial mesoderm is the mesoderm located bilaterally adjacent to the notochord and neural tube[GO]. Mesoderm lateral to the neural tube and notochord that is divided into cranial and post-cranial portions. The trunk portions further segment into somites.[AAO] Presently, Cephalochordata, Urochordata, and Vertebrata are placed as subphyla of the phylum Chordata, in which the overall organization of embryonic tissues (dorsal hollow nerve cord, ventral digestive tract, axial notochord, and bilateral paraxial mesoderm) is largely conserved. In contrast, the echinoderms and hemichordates are sister groups of the chordates and they lack the notochord and paraxial mesoderm. Thus, the basic mesodermal organization of vertebrates must have appeared first in the common ancestor of the chordates.[well established][VHOG] @@ -395148,7 +395043,7 @@ Classes for population already exist in IDO ('organism population', I paraxial mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -395161,7 +395056,7 @@ Classes for population already exist in IDO ('organism population', I - + Bgee:AN @@ -395230,8 +395125,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -395257,11 +395152,11 @@ Classes for population already exist in IDO ('organism population', I epibranchial placode - + - + @@ -395275,13 +395170,13 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + EHDAA2-abduced @@ -395384,7 +395279,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -395428,7 +395323,7 @@ Classes for population already exist in IDO ('organism population', I lateral plate mesoderm http://upload.wikimedia.org/wikipedia/commons/6/64/Gray19_with_color.png - + @@ -395441,7 +395336,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 VHOG @@ -395525,7 +395420,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -395568,7 +395463,7 @@ Classes for population already exist in IDO ('organism population', I myotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + @@ -395581,7 +395476,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-abduced @@ -395642,7 +395537,7 @@ Classes for population already exist in IDO ('organism population', I - + Trunk portion of the neural crest. The trunk neural crest lies between the vagal and sacral neural crest and gives rise to two groups of cells. One group migrates dorsolateral and populates the skin, forming pigment cells and the other migrates ventrolateral through the anterior sclerotome to become the epinephrine-producing cells of the adrenal gland and the neurons of the sympathetic nervous system. Some cells remain in the sclerotome to form the dorsal root ganglia [Wikipedia]. Post-cranial portion of the neural crest. Exact anatomical derivations not experimentally resolved in amphibians.[AAO] We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG] @@ -395662,14 +395557,14 @@ Classes for population already exist in IDO ('organism population', I trunk neural crest - + - + ZFA @@ -395712,15 +395607,15 @@ Classes for population already exist in IDO ('organism population', I - - + + - + Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline to form the heart rudiment or cone. should probably be merged with heart rudiment. Bilateral groups of cells consisting of three rows: one row of endocardial precursors medially and two rows of myocardical precursors laterally. The two populations fuse at the midline between 21 and 26 somites to form the heart rudiment or cone. Stainier 2001.[TAO] @@ -395740,15 +395635,15 @@ Classes for population already exist in IDO ('organism population', I heart primordium - + - + - + @@ -395761,19 +395656,19 @@ Classes for population already exist in IDO ('organism population', I - + ZFA - + ZFA - + XAO @@ -395828,8 +395723,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Ventral somitic compartment that is a precursor of the axial skeleton[XAO]. Sclerotomes eventually differentiate into the vertebrae and most of the skull. The caudal (posterior) half of one sclerotome fuses with the rostral (anterior) half of the adjacent one to form each vertebra. From their initial location within the somite, the sclerotome cells migrate medially towards the notochord. These cells meet the sclerotome cells from the other side to form the vertebral body. From this vertebral body, sclerotome cells move dorsally and surround the developing spinal cord, forming the vertebral arch[WP]. Skeletogenic portion of somites.[AAO] The vertebrate sclerotome has no equivalent in amphioxus and is a novelty linked with the evolution of the axial skeleton.[well established][VHOG] @@ -395856,11 +395751,11 @@ Classes for population already exist in IDO ('organism population', I sclerotome http://upload.wikimedia.org/wikipedia/commons/9/96/Gray65.png - + - + @@ -395879,13 +395774,13 @@ Classes for population already exist in IDO ('organism population', I - + VHOG:0000680 - + ZFA @@ -397436,8 +397331,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -397485,24 +397380,24 @@ Classes for population already exist in IDO ('organism population', I chorion membrane http://upload.wikimedia.org/wikipedia/commons/5/51/Gray24.png - + - + - + Hymans - + ISBN:0073040584 @@ -397602,7 +397497,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -397652,14 +397547,14 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/9/9f/Illu_conducting_passages.svg http://upload.wikimedia.org/wikipedia/commons/c/c3/Illu_conducting_passages.jpg - + - + EHDAA2 @@ -398516,7 +398411,7 @@ Classes for population already exist in IDO ('organism population', I - + A mesenchyme that is part of a chorion. TODO - check @@ -398537,7 +398432,7 @@ Classes for population already exist in IDO ('organism population', I chorionic mesenchyme - + @@ -398556,7 +398451,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:0073040584 @@ -398679,8 +398574,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -398712,24 +398607,24 @@ Classes for population already exist in IDO ('organism population', I skeleton of lower jaw - + - + - + EHDAA2 - + VHOG-modified @@ -398768,11 +398663,6 @@ Classes for population already exist in IDO ('organism population', I lower jaw MA:0001906 - - - - - lower jaw ZFA:0001273 @@ -398864,7 +398754,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -398872,7 +398762,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -398899,7 +398789,7 @@ Classes for population already exist in IDO ('organism population', I mesentery of stomach - + @@ -398912,7 +398802,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -399538,7 +399428,7 @@ Classes for population already exist in IDO ('organism population', I - + A meninx that is part of a hindbrain [Automatically generated definition]. consider changing genus to subdivision of meninx Meninges that are part of the hindbrain. [Bgee_curator][VHOG] @@ -399556,14 +399446,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003291 meninx of hindbrain - + - + definitional @@ -399781,7 +399671,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -399790,7 +399680,7 @@ Classes for population already exist in IDO ('organism population', I - + Racemose mucous glands beneath the mucous membrane of the pharynx. BTO:0004849 EHDAA2:0001461 @@ -399803,14 +399693,14 @@ Classes for population already exist in IDO ('organism population', I pharyngeal gland - + - + BTO @@ -399972,7 +399862,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood island that is part of a mesoderm. in EHDAA2, gives rise to blood and dorsal aorta UBERON:0003305 @@ -399985,7 +399875,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003304 mesoderm blood island - + @@ -399998,7 +399888,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -400050,7 +399940,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing camera-type eye. TODO - change mesenchyme relationships to precursor_of EHDAA2:0000485 @@ -400062,14 +399952,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003314 eye mesenchyme - + - + EHDAA2 @@ -400109,6 +399999,7 @@ Classes for population already exist in IDO ('organism population', I Mesenchyme that is part of a developing ovary [Automatically generated definition]. + EHDAA2:0001362 EHDAA:8128 VHOG:0001441 @@ -400123,6 +400014,7 @@ Classes for population already exist in IDO ('organism population', I ovary mesenchyme uberon UBERON:0003315 + mesenchyme of ovary @@ -400259,7 +400151,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing lower jaw [Automatically generated definition]. EHDAA2:0001024 EHDAA:8003 @@ -400272,14 +400164,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003324 mesenchyme of lower jaw - + - + EHDAA2 @@ -400792,6 +400684,7 @@ Classes for population already exist in IDO ('organism population', I A serous membrane that is part of a duodenum [Automatically generated definition]. + 1st part serosa, 2nd - 4th adventitia EMAPA:27247 FMA:14948 @@ -400805,6 +400698,7 @@ Classes for population already exist in IDO ('organism population', I visceral peritoneum of duodenum uberon UBERON:0003336 + serosa of duodenum @@ -401666,7 +401560,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -401676,8 +401570,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An epithelium that is part of a pharynx [Automatically generated definition]. Epithelium lining the pharynx consisting largely of simple columnar epithelium with a short segment (1mm) of stratified squamous epithelium on the ventral side. Chen et al, 2007.[TAO] BSA:0000112 @@ -401697,24 +401591,24 @@ Classes for population already exist in IDO ('organism population', I pharyngeal epithelium - + - + - + ZFA - + ZFA @@ -401766,7 +401660,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -401774,7 +401668,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a midgut. BTO:0005053 EHDAA2:0001195 @@ -401787,14 +401681,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003352 epithelium of midgut - + - + BTO @@ -401820,11 +401714,6 @@ Classes for population already exist in IDO ('organism population', I midgut epithelium BTO:0005053 - - - - - midgut epithelium OBOL:automatic @@ -402177,7 +402066,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402190,7 +402079,7 @@ Classes for population already exist in IDO ('organism population', I - + An unilaminar epithelium that surrounds a pelvic appendage bud. UBERON:0005232 EHDAA2:0001034 @@ -402206,24 +402095,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003371 pelvic appendage bud ectoderm - + - + - + EHDAA2 - + EHDAA2 @@ -402245,12 +402134,6 @@ Classes for population already exist in IDO ('organism population', I EMAPA:16780 - - - - hindlimb bud ectoderm - - @@ -402296,7 +402179,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402309,7 +402192,7 @@ Classes for population already exist in IDO ('organism population', I - + An unilaminar epithelium that surrounds a pectoral appendage bud. UBERON:0005231 UBERON:0005663 @@ -402326,24 +402209,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003372 pectoral appendage bud ectoderm - + - + - + EHDAA2 - + EHDAA2 @@ -402359,12 +402242,6 @@ Classes for population already exist in IDO ('organism population', I EMAPA:16407 - - - - forelimb bud ectoderm - - @@ -402413,7 +402290,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -402427,7 +402304,7 @@ Classes for population already exist in IDO ('organism population', I - + An extraembryonic structure that develops_from a ectoderm and is part of a chorion. BTO:0005145 EMAPA:16113 @@ -402438,14 +402315,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003374 chorionic ectoderm - + - + ISBN:0073040584 @@ -402491,6 +402368,7 @@ Classes for population already exist in IDO ('organism population', I A portion of cardiac muscle tissue that is part of a right atrium [Automatically generated definition]. + EHDAA2:0004155 EMAPA:17326 FMA:7282 @@ -402509,6 +402387,7 @@ Classes for population already exist in IDO ('organism population', I textus muscularis of myocardium of right cardiac atrium uberon UBERON:0003379 + cardiac muscle of right atrium @@ -402840,6 +402719,7 @@ Classes for population already exist in IDO ('organism population', I A portion of cardiac muscle tissue that is part of an interventricular septum [Automatically generated definition]. + EHDAA2:0004158 EMAPA:17335 FMA:84084 @@ -402852,6 +402732,7 @@ Classes for population already exist in IDO ('organism population', I uberon interventricular septum muscle UBERON:0003383 + cardiac muscle tissue of interventricular septum @@ -404677,7 +404558,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -404685,7 +404566,7 @@ Classes for population already exist in IDO ('organism population', I - + A bone that is part of a facial skeleton [Automatically generated definition]. test whether 'facial bone' is an exact synonym EMAPA:19019 @@ -404706,14 +404587,14 @@ Classes for population already exist in IDO ('organism population', I facial bone - + - + MA @@ -404904,7 +404785,7 @@ Classes for population already exist in IDO ('organism population', I - + The inferior labial artery (inferior labial branch of facial artery) arises near the angle of the mouth; it passes upward and forward beneath the Triangularis and, penetrating the Orbicularis oris, runs in a tortuous course along the edge of the lower lip between this muscle and the mucous membrane. It supplies the labial glands, the mucous membrane, and the muscles of the lower lip; and anastomoses with the artery of the opposite side, and with the mental branch of the inferior alveolar artery. EMAPA:37429 @@ -404922,14 +404803,14 @@ Classes for population already exist in IDO ('organism population', I artery of lower lip - + - + FMA @@ -405345,7 +405226,7 @@ Classes for population already exist in IDO ('organism population', I - + An endothelium of capillary that is part of a respiratory system [Automatically generated definition]. EMAPA:37575 MA:0001808 @@ -405376,14 +405257,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003489 respiratory system capillary endothelium - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -405615,7 +405496,7 @@ Classes for population already exist in IDO ('organism population', I - + An arteriole that is part of a respiratory system [Automatically generated definition]. EMAPA:37568 MA:0001803 @@ -405623,14 +405504,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003495 respiratory system arteriole - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -405664,7 +405545,7 @@ Classes for population already exist in IDO ('organism population', I - + A blood vessel that is part of a head [Automatically generated definition]. EMAPA:36610 MA:0000575 @@ -405676,14 +405557,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003496 head blood vessel - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -410298,6 +410179,7 @@ Classes for population already exist in IDO ('organism population', I An elastic tissue that is part of a trachea [Automatically generated definition]. + MA:0001861 cartilaginous trachea elastic connective tissue cartilaginous trachea elastic tissue @@ -410319,6 +410201,7 @@ Classes for population already exist in IDO ('organism population', I windpipe textus connectivus elasticus uberon UBERON:0003617 + trachea elastic tissue @@ -410763,11 +410646,6 @@ Classes for population already exist in IDO ('organism population', I cavitas abdominis GAID:17 - - - - - cavitas abdominis Wikipedia:Abdominal_cavity @@ -410795,7 +410673,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -410822,7 +410700,7 @@ Classes for population already exist in IDO ('organism population', I cranial suture - + @@ -410835,7 +410713,7 @@ Classes for population already exist in IDO ('organism population', I - + PMID:16496288 @@ -410875,7 +410753,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -410890,7 +410768,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411102,7 +410980,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411110,7 +410988,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411137,7 +411015,7 @@ Classes for population already exist in IDO ('organism population', I intrahepatic bile duct - + @@ -411150,7 +411028,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -411187,8 +411065,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A circle of arteries that supply blood to the brain. The Circle of Willis comprises the following arteries: Anterior cerebral artery (left and right); Anterior communicating artery; Internal carotid artery (left and right); Posterior cerebral artery (left and right); Posterior communicating artery (left and right).The basilar artery and middle cerebral arteries, supplying the brain, are also considered part of the circle. In zebrafish, the circle of vessels comprised of the basal communicating artery (BCA) and posterior communicating segments (PCS) superficially resemble but are not homologous to the human circle of Willis arterial circle @@ -411211,24 +411089,24 @@ Classes for population already exist in IDO ('organism population', I circle of Willis http://upload.wikimedia.org/wikipedia/commons/2/2e/Circle_of_Willis_en.svg - + - + - + FMA-modified - + FMA-modified @@ -411360,11 +411238,6 @@ Classes for population already exist in IDO ('organism population', I innominate vein GAID:529 - - - - - innominate vein Wikipedia:Brachiocephalic_vein @@ -411373,12 +411246,6 @@ Classes for population already exist in IDO ('organism population', I innominate veins Wikipedia:Brachiocephalic_vein - - - - vena brachiocephalica - Wikipedia:Brachiocephalic_vein - @@ -411656,7 +411523,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -411682,14 +411549,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003716 recurrent laryngeal nerve - + - + Wikipedia @@ -412388,7 +412255,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a thorax [Automatically generated definition]. MA:0000561 muscle organ of thorax @@ -412398,14 +412265,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003830 thoracic segment muscle - + - + prolog @@ -412517,7 +412384,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a esophagus [Automatically generated definition]. merge muscle and muscle layer? EMAPA:26983 @@ -412534,14 +412401,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003832 esophagus muscle - + - + MA @@ -413551,7 +413418,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -413559,7 +413426,7 @@ Classes for population already exist in IDO ('organism population', I - + A neural plate that develops_from a future spinal cord. Neural plate that is part of the spinal cord. [Bgee_curator][VHOG] (...) at some stage of its development, every chordate exhibits five uniquely derived characters or synapomorphies of the group: (...) (4) a single, tubular nerve cord that is located dorsal to the notochord (...)[well established][VHOG] @@ -413572,14 +413439,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003854 spinal cord neural plate - + - + ZFA @@ -413832,7 +413699,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the coelom in the embryo between the somatopleuric and splanchnopleuric mesoderm; the principal body cavities of the trunk (thoracic, abdominal, and pelvic) arise from this embryonic part of the coelom. consider merging with coelom. TODO - add spatial relationships to halves of LPM. Note the OG places XAO and ZFA coelem terms here. editor note: TODO check ZFA, which appears to be a structure present in adults (...) I regard it unlikely that coeloms of all bilaterian animals are comparable and evolved very early. Considering all these questions, few convincing characters concerning the evolution of body cavities remain to be named. (...) A segmental coelom appears to have evolved at least two times, in Annelida and in Myomerata (Acrania and Craniota).[well established][VHOG] @@ -413848,14 +413715,14 @@ Classes for population already exist in IDO ('organism population', I intraembryonic coelom - + - + Wikipedia @@ -413917,7 +413784,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -413976,14 +413843,14 @@ Classes for population already exist in IDO ('organism population', I fallopian tube http://upload.wikimedia.org/wikipedia/commons/6/68/Scheme_female_reproductive_system-en.svg - + - + FMA-abduced-lr @@ -414058,7 +413925,7 @@ Classes for population already exist in IDO ('organism population', I - + Paired ducts of the embryo that run down the lateral sides of the urogenital ridge and terminate at the mullerian eminence in the primitive urogenital sinus. In the female, they will develop to form the fallopian tubes, uterus, and the upper portion of the vagina; in the male, they are lost. These ducts are made of tissue of mesodermal origin[WP]. develops either by lengthwise splitting of the archinephric duct (in chondrichthyans and some amphibians) or by a elongated invagination of the coelomic epithelium (other vertebrates) In males, the oviducts regress. The cranial end of the oviduct maintains an opening into the coelom (which primitively may have been the anteriormost coelomic funnels connecting the nephrocoel with the coelom). This opening is the ostium tubae[USM]. Either of the paired embryonic ducts developing into the uterine tubes, uterus, and vagina in the female and becoming largely obliterated in the male. [TFD][VHOG] Transient developmental organ which gives rise to oviducts in female (documented to persist in some male frogs).[AAO] @@ -414088,14 +413955,14 @@ Classes for population already exist in IDO ('organism population', I Mullerian duct http://upload.wikimedia.org/wikipedia/commons/6/6d/Gray1109.png - + - + Wikipedia @@ -414217,8 +414084,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -414252,11 +414119,11 @@ Classes for population already exist in IDO ('organism population', I liver primordium - + - + @@ -414275,13 +414142,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ventral foregut endoderm Zaret 1996 @@ -414404,7 +414271,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414424,14 +414291,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0003898 skeletal muscle tissue of trunk - + - + https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -414492,7 +414359,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414513,8 +414380,9 @@ Classes for population already exist in IDO ('organism population', I - + The part of the retina that contains neurons and photoreceptor cells[GO]. + (...) an essentially similar sequence of events occurs during the embryonic development of the vertebrate eye. The eye initially develops as a single median evagination of the diencephalon that soon bifurcates to form the paired optic vesicles. As each optic vesicle grows towards the body surface, its proximal part narrows as the optic stalk, and its distal part invaginates to form a two-layered optic cup. (...) The outer layer of the optic cup becomes the pigment layer of the retina, whereas the inner layer differentiates into the photoreceptive cells and neuronal layers of the retina.[well established][VHOG] AAO:0011095 BTO:0000929 @@ -414539,18 +414407,19 @@ Classes for population already exist in IDO ('organism population', I uberon neural retinal epithelium UBERON:0003902 + retinal neural layer - + - + Bgee:AN @@ -414824,7 +414693,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -414854,14 +414723,14 @@ Classes for population already exist in IDO ('organism population', I pancreas primordium http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + Wikipedia @@ -414903,16 +414772,16 @@ Classes for population already exist in IDO ('organism population', I - - + + - - + + The embryonic pancreas develops from two separate anlagen in the foregut epithelium, one dorsal and two ventral pancreatic buds[PMID]. EFO:0003470 EMAPA:35645 @@ -414933,19 +414802,19 @@ Classes for population already exist in IDO ('organism population', I http://upload.wikimedia.org/wikipedia/commons/4/49/Suckale08FBS_fig1_pancreas_development.jpeg http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + - + @@ -414958,26 +414827,26 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia:Pancreas#Embryological_development - + zebrafish Wikipedia:Pancreatic_bud - + EHDAA2-inferred @@ -415019,8 +414888,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Pancreatic bud that gives rise to the accessory pancreatic duct. The pancreatic bud that gives rise to the accessory pancreatic duct.[AAO] In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG] @@ -415048,24 +414917,24 @@ Classes for population already exist in IDO ('organism population', I dorsal pancreatic bud http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + EHDAA2 - + XAO @@ -415112,8 +414981,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Pancreatic bud that gives rise to the major pancreatic duct. In chick, Xenopus laevis, and the teleost fish Medaka, the pancreas develops from three buds that emerge from the gut tube, two from its ventral aspect, and one from its dorsal aspect. In mouse, although there are initially three buds that arise from the gut tube at the point of contact between the endoderm and the vasculature, the pancreas develops from only two of these buds, one dorsal and one ventral. (...) In this study, we use a transgenic zebrafish line (...). We provide evidence for the existence of two distinct pancreatic anlagen - a ventral anterior bud and a dorsal posterior bud - that join to form the definitive pancreas (reference 1); The pancreas develops from the fusion of distinct endoderm-derived dorsal and ventral diverticula. In humans, by day 35 of development, the ventral pancreatic bud begins to migrate backwards and comes into contact and eventually fuses with the dorsal pancreatic bud during the sixth week of development (reference 2).[well established][VHOG] The ventral pancreatic bud becomes the head and uncinate process, and comes from the hepatic diverticulum[WP] @@ -415141,24 +415010,24 @@ Classes for population already exist in IDO ('organism population', I ventral pancreatic bud http://upload.wikimedia.org/wikipedia/commons/d/db/Gray982.png - + - + - + EHDAA2 - + PMID:16417468 WP @@ -415272,6 +415141,7 @@ Classes for population already exist in IDO ('organism population', I BTO:0000956 EHDAA2:0004567 EMAPA:32928 + FBbt:00047143 MA:0003201 NCIT:C12963 TAO:0005123 @@ -416273,7 +416143,7 @@ Classes for population already exist in IDO ('organism population', I - + A transitional population of migrating mesenchymal cells that derive from somites and that will become dermal cells. Not to be confused with 'dermatome segment of skin'. AAO:0011028 @@ -416299,7 +416169,7 @@ Classes for population already exist in IDO ('organism population', I dermatome http://upload.wikimedia.org/wikipedia/commons/f/f3/Gray64.png - + @@ -416312,7 +416182,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-abduced @@ -416557,7 +416427,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416576,14 +416446,14 @@ Classes for population already exist in IDO ('organism population', I cortical intermediate zone - + - + Wikipedia @@ -416618,7 +416488,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416645,14 +416515,14 @@ Classes for population already exist in IDO ('organism population', I biliary ductule - + - + BTO @@ -416737,7 +416607,7 @@ Classes for population already exist in IDO ('organism population', I - + The layer of undifferentiated, proliferating cells that line the neural tube lumen that is the immediate transformation of the germinal neuroepithelium. consider merging with 'ventricular zone'; note that the MA class probably does not belong here, as this is an embryonic structure The layer of undifferentiated, proliferating cells that line the neural tube lumen @@ -416755,7 +416625,7 @@ Classes for population already exist in IDO ('organism population', I neural tube ventricular layer - + @@ -416768,7 +416638,7 @@ Classes for population already exist in IDO ('organism population', I - + NCBIBook:NBK10047 @@ -416828,7 +416698,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416852,7 +416722,7 @@ Classes for population already exist in IDO ('organism population', I neural tube mantle layer - + @@ -416865,7 +416735,7 @@ Classes for population already exist in IDO ('organism population', I - + by division NCBIBook:NBK10047 @@ -416902,7 +416772,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416919,14 +416789,14 @@ Classes for population already exist in IDO ('organism population', I neural tube marginal layer - + - + forms from axons @@ -416967,7 +416837,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -416992,14 +416862,14 @@ Classes for population already exist in IDO ('organism population', I neural tube basal plate - + - + Shh Swenson @@ -417164,7 +417034,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -417179,7 +417049,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -417262,8 +417132,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An internal pocketing of pharyngeal endoderm that contacts a region of ectoderm (a pharyngeal cleft) and interdigitates in the anterior and posterior directions with the pharyngeal arches. Outpocketings of pharyngeal endoderm that interdigitate with the neural crest derived pharyngeal arches. The pouches later fuse with the surface ectoderm to form the gill slits. Crump et al, 2004.[TAO] A conserved feature of all vertebrate embryos is the presence of a series of bulges on the lateral surface of the head, the pharyngeal arches; it is within these structures that the nerves, muscles and skeletal components of the pharyngeal apparatus are laid down. The pharyngeal arches are separated by endodermal outpocketings, the pharyngeal pouches.[well established][VHOG] @@ -417296,24 +417166,24 @@ Classes for population already exist in IDO ('organism population', I The pouches are polarized structures. For example, whereas the rostral half of each pouch expresses Bmp-7, the caudal half expresses FGF-8 and the dorsal aspect of each pouch is marked via its expression of Pax-1. each pouch has an individual sense of identity. Shh expression is a prominent early feature of the caudal endoderm of the second arch, and individual pouches mark the anterior limits of expression of Hox genes within the pharyngeal endoderm; Hox-a2 has a rostral boundary at the second pouch, Hox-a3 at the third pouch and Hox-a4 at the most caudal pouch[PMID:16313389] pharyngeal pouch - + - + - + http://tolweb.org/Chordata/2499 - + EHDAA2 ZFA @@ -417704,9 +417574,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -417739,34 +417609,34 @@ Classes for population already exist in IDO ('organism population', I optic vesicle http://upload.wikimedia.org/wikipedia/commons/e/e0/Gray863.png - + - + - + - + ZFA - + GO-def - + ZFA @@ -417914,8 +417784,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A specific region of the lateral mesoderm that will form the primary beating heart tube. In mammals the primary heart field gives rise to the left ventricle. this term denotes the primary heart field; GO:0003128 denotes the superclass of primary and secondary: specific region of the lateral mesoderm into the area which will form the primary beating heart tube[GO:0003138] XAO:0004185 @@ -417928,24 +417798,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004140 primary heart field - + - + - + GO:0003128 - + https://orcid.org/0000-0003-3308-6245 @@ -418004,7 +417874,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelial tube that will give rise to the mature heart. the paired, longitudinal, endothelial-lined channels formed from the cardiogenic mesoderm in embryonic development; angiogenic cell clusters (aka angioblastic cords) located in a horse-shoe shape configuration in the cardiogenic plate coalesce to form the right and left endocardial heart tubes which then fuse in cephalo-caudal direction to form a single primitive heart tube. AAO:0010411 @@ -418024,14 +417894,14 @@ Classes for population already exist in IDO ('organism population', I heart tube - + - + ZFA-modified @@ -418175,8 +418045,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The His-Purkinje system receives signals from the AV node and is composed of the fibers that regulate cardiac muscle contraction in the ventricles. the intraventricular conduction system from the bundle of His to the distal Purkinje fibers, which carries the impulse to the ventricles. HPS @@ -418187,11 +418057,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004146 His-Purkinje system - + - + @@ -418204,13 +418074,13 @@ Classes for population already exist in IDO ('organism population', I - + GO - + PMID:12626327 PMID:21234997 github:michaelerice @@ -418382,8 +418252,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An embryonic group of progenitor cells that forms from an outpouching of the septum transversum near the venous pole of the heart and gives rise to the epicardium. propepicardial Proepicardial clusters in Zebrafish form on the pericardial wall, adjacent to the atrioventricular (AV) junction and near the venous pole[ZFA] @@ -418395,24 +418265,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004160 proepicardium - + - + - + todo check other taxa - + ZFA @@ -418967,8 +418837,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A portion of smooth muscle tissue that is part of a large intestine [Automatically generated definition]. MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa EMAPA:35469 @@ -418984,24 +418854,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004220 large intestine smooth muscle - + - + - + MA - + consider merging @@ -419082,7 +418952,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -419119,14 +418989,14 @@ Classes for population already exist in IDO ('organism population', I intestine smooth muscle - + - + consider merging @@ -420175,7 +420045,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of smooth muscle tissue that is part of a small intestine [Automatically generated definition]. MA class may specifically mean muscle layer, but we treat as the sum of smooth muscle in both muscle layer and muscularis mucosa EMAPA:35783 @@ -420200,14 +420070,14 @@ Classes for population already exist in IDO ('organism population', I small intestine smooth muscle - + - + consider merging @@ -421465,7 +421335,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -421473,7 +421343,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -421489,14 +421359,14 @@ Classes for population already exist in IDO ('organism population', I eye muscle - + - + MA @@ -421527,6 +421397,7 @@ Classes for population already exist in IDO ('organism population', I Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body. + Anatomical cluster that consists of all the skeletal elements (eg., bone, cartilage, and teeth) of the body.[VSAO] skeletal AEO:0000168 @@ -421549,6 +421420,7 @@ Classes for population already exist in IDO ('organism population', I uberon UBERON:0004288 + skeleton @@ -421583,7 +421455,7 @@ Classes for population already exist in IDO ('organism population', I - + The bilaminar epithelium formed from the myotome and dermatome. Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis. Within the dermomyotome there is also a medio-lateral difference. The central region makes dermis, the mesenchymal connective tissue of the back skin. The medial region (closest to neural tube) makes epaxial muscle, and the lateral region (furthest from neural tube) makes hypaxial muscle[http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=eurekah&part=A66768]. Epithelial sheet on the external surface of the somite that gives rise to trunk, muscle and dermis.[TAO] @@ -421606,7 +421478,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004290 dermomyotome - + @@ -421625,7 +421497,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 ZFA @@ -421872,8 +421744,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -421891,24 +421763,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004293 parasympathetic nerve - + - + - + NCBIBook:NBK10065 - + NCBIBook:NBK10065 @@ -421981,11 +421853,11 @@ Classes for population already exist in IDO ('organism population', I - - - - - + + + + + A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals[VHOG]. A membranous sac that develops from the posterior part of the alimentary canal in the embryos of mammals, birds, and reptiles, and it is important in the formation of the umbilical cord and placenta in mammals. [TFD][VHOG] Structures homologous to the four extraembryonic membranes of reptiles and birds appear in mammals: amnion, chorion, yolk sac, and allantois.[well established][VHOG] @@ -422010,55 +421882,55 @@ Classes for population already exist in IDO ('organism population', I allantois http://upload.wikimedia.org/wikipedia/commons/a/a5/Gray25.png - + - + - + - + - + - + EHDAA2-modified - + Hymans - + Hymans - + hindgut diverticulum endoderm ISBN:0073040584 - + ISBN:0073040584 @@ -422114,14 +421986,14 @@ Classes for population already exist in IDO ('organism population', I - + - + Outermost layer of cells in the blastodermic vesicle, which will develop into the trophoblast layer and then contact the endometrium and take part in establishing the embryo's means of nutrition. distinction between trophectoderm and trophoblast unclear/inconsistent in many sources The outer cellular layer of the mammalian blastocyst. [Evolution, Fourth_Edition_(2006)_McGraw-Hill, Function, Vertebrates:_Comparative_Anatomy, p.750, see_Kardong_KV][VHOG] @@ -422139,11 +422011,11 @@ Classes for population already exist in IDO ('organism population', I trophectoderm - + - + @@ -422156,13 +422028,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -422565,7 +422437,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -422621,14 +422493,14 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch artery http://upload.wikimedia.org/wikipedia/commons/8/84/Gray473.png - + - + ZFA @@ -422842,7 +422714,7 @@ Classes for population already exist in IDO ('organism population', I - + A transparent homogeneous acellular layer found between the substantia propria and the endothelial layer of the cornea[MP]. Acellular anatomical structure composed of collagen, Descemet's membrane is secreted as a basement membrane of the corneal endothelium. Located between the stroma and the corneal endothelium, it is approximately 0.15 micrometer thick at 6 months post-fertilization.[ZFIN] @@ -422872,14 +422744,14 @@ Classes for population already exist in IDO ('organism population', I Descemet's membrane https://github.com/obophenotype/uberon/issues/15 - + - + Cline et al @@ -424336,7 +424208,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -424344,7 +424216,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of cardiac muscle tissue that is part of a myocardium [Automatically generated definition]. Note placement of MA class based on parthood relationship EMAPA:32688 @@ -424355,14 +424227,14 @@ Classes for population already exist in IDO ('organism population', I cardiac muscle tissue of myocardium - + - + MA @@ -424433,11 +424305,9 @@ Classes for population already exist in IDO ('organism population', I A portion of smooth muscle tissue that is part of a bronchiole [Automatically generated definition]. - FMA:261045 uberon UBERON:0004515 - smooth muscle tissue of bronchiole @@ -425227,7 +425097,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -425261,7 +425131,7 @@ Classes for population already exist in IDO ('organism population', I liver lobule - + @@ -425274,7 +425144,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA MA @@ -425462,7 +425332,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -425494,14 +425364,14 @@ Classes for population already exist in IDO ('organism population', I interventricular septum membranous part - + - + Wikipedia @@ -425708,8 +425578,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The raphe nuclei are thin plates of cells in and immediately adjacent to the sagittal plane. BAMS:RA EMAPA:35721 @@ -425738,25 +425608,25 @@ Classes for population already exist in IDO ('organism population', I raphe nuclei http://upload.wikimedia.org/wikipedia/commons/9/94/Gray694.png - + - + - + GO Wikipedia - + Wikipedia @@ -425785,11 +425655,6 @@ Classes for population already exist in IDO ('organism population', I raphe nuclei FMA:84017 - - - - - raphe nuclei NLXANAT:20090205 @@ -426267,7 +426132,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426276,7 +426141,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426307,7 +426172,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426330,11 +426195,11 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin - + - + @@ -426347,13 +426212,13 @@ Classes for population already exist in IDO ('organism population', I - + VSAO - + definitional @@ -426435,7 +426300,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426457,14 +426322,14 @@ Classes for population already exist in IDO ('organism population', I pelvic appendage - + - + definitional @@ -426533,7 +426398,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -426557,14 +426422,14 @@ Classes for population already exist in IDO ('organism population', I pectoral appendage - + - + definitional @@ -427050,15 +426915,15 @@ Classes for population already exist in IDO ('organism population', I - + - - + + The dentary is a dermal bone that forms the antero-lateral part of the lower jaw in fishes and amphibians, extending to the whole lower jaw in mammals[VHOG,modified]. Dermal bone that is usually the anteriormost bone of the lower jaw, and that articulates with the angular, or anguloarticular bone, posteriorly, and carries part of the mandibular sensory canal and pore openings of the mandibular sensory canal on its lateral surface. The dentary is a paired bone.[TAO] Ossified element of intramembranous origin that invests the lateral margin of Meckel's cartilage thereby forming the lateral side of the mandible in anurans and salamanders (Duellman & Trueb, 1994:293). In caecilians, the dentary is part of a compound bone termed the pseudodentary.[AAO] @@ -427082,15 +426947,15 @@ Classes for population already exist in IDO ('organism population', I dentary - + - + - + @@ -427103,7 +426968,7 @@ Classes for population already exist in IDO ('organism population', I - + mandibular series ISBN:0073040584 ZFA @@ -427111,13 +426976,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2-modified @@ -427215,7 +427080,7 @@ Classes for population already exist in IDO ('organism population', I - + A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO]. A specialized form of connective tissue in which the extracellular matrix is firm, providing the tissue with resilience, and/or mineralized and that functions in mechanical and structural support.[VSAO] EMAPA:37744 @@ -427229,7 +427094,7 @@ Classes for population already exist in IDO ('organism population', I Four classes of mineralized tissues are found in vertebrates: bone, cartilage, dentine, and enamel. We think of cartilage and bone as skeletal tissues and of enamel and dentine as dental tissues, but enamel and dentine arose evolutionarily together with bone as skeletal tissues in the dermal skeleton (exoskeleton) of early vertebrates. Scales and teeth of sharks are examples of dermal skeletal elements that are still composed of the three ancient components-enamel, dentine, and bone. Cartilage, on the other hand, provided the basis for the second vertebrate skeletal system, the endoskeleton (Smith and Hall, 1990; Hall, 1998a,b). some invertebrate skeletal tissues have surprisingly bone-like features. Examples include chondrocytes interconnected by cell processes in cephalopod cartilages (Cole and Hall, 2004a,b), and the calcium phosphate layer in the shells of brachiopods (Rodland et al., 2003). However, neither bone nor mineralized cartilage have been found in invertebrates. Editors notes: TODO - develops_from skeletal tissue - + @@ -427242,7 +427107,7 @@ Classes for population already exist in IDO ('organism population', I - + 2012-08-14 VSAO:0000015 VSAO @@ -427585,7 +427450,7 @@ Classes for population already exist in IDO ('organism population', I - + The primitive cartilagionous skeletal structure of the fetal skull that grows to envelop the rapidly growing embyonic brain. In humans, the chondrocranium begins forming at 28 days from mesenchymal condensations and is fully formed between week 7 and 9 of fetal development. While the majority of the chondrocranium is succeeded by the bony skull in most higher vertebrates, some components do persist into adulthood.[1] In Cartilagious fishes and Agnathans, the chondrocranium persist throughout life.[2] Embryologically, the chondrocranium represent the basal cranial structure, and lay the base for the formation of the endocranium in higher vertebrates[WP]. in contrast to chondrocranium, this structure is entirely cartiliginous. In Chondricthyes this is the same as the neurocranium. FMA:76621 is an undefined fetal structure, so we assume the correct placement is here. Note that this is distinct from MA:0000317 which is the uberon:neurocranium (the part of the cranium that encloses the brain) AAO:0000094 @@ -427607,7 +427472,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004761 cartilaginous neurocranium - + @@ -427620,7 +427485,7 @@ Classes for population already exist in IDO ('organism population', I - + PMC1571569 @@ -427717,7 +427582,7 @@ Classes for population already exist in IDO ('organism population', I - + Organ consisting of skeletal tissue. Encompasses whole bones, fused bones, cartilaginious elements, teeth, dermal denticles. Organ entity that is typically involved in mechanical support and may have different skeletal tissue compositions at different stages.[VSAO] Organ entity that may have different tissue compositions at different stages and is typically involved in mechanical support.[TAO] @@ -427733,14 +427598,14 @@ Classes for population already exist in IDO ('organism population', I skeletal element - + - + VSAO @@ -427793,10 +427658,12 @@ Classes for population already exist in IDO ('organism population', I A bone that is part of a cranium. here cranium = skull - mandible + SCTID:181792001 cranium bone uberon UBERON:0004766 + cranial bone @@ -427868,7 +427735,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -427907,14 +427774,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004770 articular system - + - + FMA @@ -428082,7 +427949,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a respiratory system [Automatically generated definition]. EMAPA:37576 MA:0001821 @@ -428097,14 +427964,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004779 respiratory system lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428180,7 +428047,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a gastrointestinal system. MA:0001899 NCIT:C49299 @@ -428189,14 +428056,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004780 gastrointestinal system lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428230,7 +428097,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a gallbladder [Automatically generated definition]. EMAPA:35371 FMA:278594 @@ -428249,14 +428116,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004781 gallbladder lamina propria - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -428850,10 +428717,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + A mucosa that is part of a gastrointestinal system. BTO:0000546 BTO:0005568 @@ -428869,44 +428736,44 @@ Classes for population already exist in IDO ('organism population', I The gut mucosa of amphioxus has insulin-secreting cells. http://www.ncbi.nlm.nih.gov/pubmed/16417468 gastrointestinal system mucosa - + - + - + - + - + PMID:16417468 - + PMID:16417468 - + PMID:16417468 - + BTO-modified @@ -430566,7 +430433,7 @@ Classes for population already exist in IDO ('organism population', I - + An endothelium of artery that is part of a respiratory system [Automatically generated definition]. EMAPA:37566 @@ -430587,14 +430454,14 @@ Classes for population already exist in IDO ('organism population', I respiratory system arterial endothelium - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -431451,7 +431318,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -431474,14 +431341,14 @@ Classes for population already exist in IDO ('organism population', I splanchnopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -431509,7 +431376,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -431532,14 +431399,14 @@ Classes for population already exist in IDO ('organism population', I somatopleure http://upload.wikimedia.org/wikipedia/commons/2/28/Gray16.png - + - + EHDAA2 @@ -431728,6 +431595,7 @@ Classes for population already exist in IDO ('organism population', I A neuron projection bundle that connects the retina or its analog in the eye with the brain. This includes the vertebrate optic nerve (not truly a nerve) as well as analogous structures such as the Bolwig nerve in Drosophila. + optic nerve BTO:0000966 EV:0100351 @@ -431737,6 +431605,7 @@ Classes for population already exist in IDO ('organism population', I uberon UBERON:0004904 + for the vertebrate-specific structure, see UBERON:0000941 (cranial nerve II) neuron projection bundle connecting eye with brain @@ -431766,7 +431635,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts. + Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. FBbt:00005811 joint uberon @@ -431777,7 +431646,7 @@ Classes for population already exist in IDO ('organism population', I - Anatomical cluster that connects two or more adjacent skeletal elements or hardened body parts. + Anatomical structure that connects two or more adjacent skeletal elements or hardened body parts. http://orcid.org/0000-0002-6601-2165 @@ -432071,8 +431940,8 @@ Classes for population already exist in IDO ('organism population', I - - + + EHDAA2:0000171 EMAPA:16561 EMAPA_RETIRED:16565 @@ -432083,11 +431952,11 @@ Classes for population already exist in IDO ('organism population', I biliary bud http://upload.wikimedia.org/wikipedia/commons/4/4f/Gray1088.png - + - + @@ -432100,13 +431969,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2-modified @@ -432445,6 +432314,7 @@ Classes for population already exist in IDO ('organism population', I FMA:71131 uberon alimentary system subdivision + gut section intestinal tract segment of intestinal tract subdivision of alimentary system @@ -432464,6 +432334,12 @@ Classes for population already exist in IDO ('organism population', I alimentary system subdivision FMA:71131 + + + + gut section + FBbt:00100315 + @@ -432890,11 +432766,6 @@ Classes for population already exist in IDO ('organism population', I pylorus submucosa FMA:17462 - - - - - pylorus submucosa OBOL:automatic @@ -433697,7 +433568,7 @@ Classes for population already exist in IDO ('organism population', I - + A mucosa that is part of a pyloric antrum [Automatically generated definition]. BTO:0004107 FMA:17055 @@ -433730,14 +433601,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0004997 mucosa of pyloric antrum - + - + BTO @@ -436328,7 +436199,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -436354,14 +436225,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005075 forebrain-midbrain boundary - + - + definitional @@ -437348,7 +437219,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -437361,7 +437232,7 @@ Classes for population already exist in IDO ('organism population', I - + A tubuloacinar seromucous gland that is located principally in the submucosa of the trachea. Excretory ducts from this gland pass through the lamina propria to the tracheal lumen. @@ -437472,7 +437343,7 @@ Classes for population already exist in IDO ('organism population', I - + An external ectoderm that is part of a optic eminence [Automatically generated definition]. EMAPA:16539 RETIRED_EHDAA2:0001311 @@ -437481,14 +437352,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005216 optic eminence surface ectoderm - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -437897,7 +437768,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of primordial embryonic connective tissue of the developing head, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to head connective tissue, bone and musculature in conjunction with cranial neural crest cells. Mesoderm that will give rise, along with cranial neural crest cells, to connective tissue, bone and musculature in the head. (Source: BioGlossary, www.Biology-Text.com)[TAO] EFO:0003492 @@ -437919,14 +437790,14 @@ Classes for population already exist in IDO ('organism population', I head mesenchyme - + - + EHDAA2 @@ -437993,7 +437864,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a developing trunk. EFO:0003485 EHDAA2:0002092 @@ -438009,14 +437880,14 @@ Classes for population already exist in IDO ('organism population', I trunk mesenchyme - + - + EHDAA2 @@ -438039,7 +437910,7 @@ Classes for population already exist in IDO ('organism population', I - + The posterior part of the developing vertebrate hindbrain or the corresponding part of the adult brain composed of the medulla oblongata and a portion of the fourth ventricle; as well as the glossopharyngeal nerve (CN IX), vagus nerve (CN X), accessory nerve (CN XI), hypoglossal nerve (CN XII), and a portion of the vestibulocochlear nerve (CN VIII).[BTO,WP]. The posterior of the two brain vesicles formed by specialization of the rhombencephalon in the developing embryo, it comprises the medulla oblongata. [TFD][VHOG] @@ -438064,14 +437935,14 @@ Classes for population already exist in IDO ('organism population', I myelencephalon http://upload.wikimedia.org/wikipedia/commons/5/54/EmbryonicBrain.svg - + - + definitional @@ -438442,7 +438313,7 @@ Classes for population already exist in IDO ('organism population', I - + The outer neural tube region in which post-mitotic neuroblasts migrate along radial glia to form the adult cortical layers[MP]. A single stem cell in the ventricular layer can give rise to neurons (and glial cells) in any of the cortical layers (Walsh and Cepko 1988)[NCBIBook:NBK10047] in humans develops into cortical layers II-VI @@ -438463,14 +438334,14 @@ Classes for population already exist in IDO ('organism population', I cortical plate - + - + NCBIBook:NBK10047 @@ -439251,7 +439122,7 @@ Classes for population already exist in IDO ('organism population', I - + An apical ectodermal ridge that is part of a pectoral appendage bud. An ectodermal thickening at the end of the forelimb bud in the developing embryo. [TFD][VHOG] Apical ectodermal ridge that is part of the pectoral fin bud.[TAO] @@ -439278,14 +439149,14 @@ Classes for population already exist in IDO ('organism population', I pectoral appendage apical ectodermal ridge - + - + EHDAA2 @@ -439402,7 +439273,7 @@ Classes for population already exist in IDO ('organism population', I - + An apical ectodermal ridge that is part of a pelvic appendage bud. An ectodermal thickening at the end of the hindlimb bud in the developing embryo. [TFD][VHOG] Apical ectodermal ridge that is part of the pelvic fin bud.[TAO] @@ -439425,14 +439296,14 @@ Classes for population already exist in IDO ('organism population', I pelvic appendage apical ectodermal ridge - + - + EHDAA2 @@ -439749,7 +439620,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of tissue that is part of the eye and gives rise to the mature, fully layered cornea. TAO:0002188 ZFA:0001688 @@ -439757,7 +439628,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005427 corneal primordium - + @@ -439776,7 +439647,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -439875,7 +439746,7 @@ Classes for population already exist in IDO ('organism population', I - + The dilated structure that is lined by endothelial cells and located at the arterial pole of the heart just above (distal to) the truncus arteriosus in mammalian embryos; it is the primordial vascular channel from which the aortic arches (and eventually the dorsal aortae) arise; the aortic sac is homologous to the ventral aorta of gill-bearing vertebrates. the merged ventral aortae of the embryo which supplies blood to the aortic arches[TMD][http://medical-dictionary.thefreedictionary.com/aortic+sac]. EHDAA2:0004145 @@ -439890,7 +439761,7 @@ Classes for population already exist in IDO ('organism population', I aortic sac - + @@ -439903,7 +439774,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -440048,7 +439919,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440063,19 +439934,19 @@ Classes for population already exist in IDO ('organism population', I - + - + - + @@ -440241,7 +440112,7 @@ Classes for population already exist in IDO ('organism population', I - + A longitudinal groove in the neural tube wall that divides the neural tube into dorsal (alar) and ventral (basal) halves (dorsal receives input from sensory neurons, ventral effects motor functions); stretches from the mesencephalon caudad[TMD]. sulcus limitans BAMS:slim @@ -440252,14 +440123,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005478 sulcus limitans of neural tube - + - + EHDAA2 @@ -440550,7 +440421,7 @@ Classes for population already exist in IDO ('organism population', I - + Multi-tissue structure that arises from the heart rudiment and will become the heart tube. EHDAA2:0001512 EHDAA:424 @@ -440568,14 +440439,14 @@ Classes for population already exist in IDO ('organism population', I primitive heart tube - + - + ZFA @@ -440649,7 +440520,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest which gives rise to the trigeminal ganglion. todo - compare ZFA and EHDAA2 representation We conclude this section by listing some of the many synapomorphies of craniates, including (1) the neural crest (...).[well established][VHOG] @@ -440666,7 +440537,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal neural crest - + @@ -440685,7 +440556,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -440711,7 +440582,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440740,7 +440611,7 @@ Classes for population already exist in IDO ('organism population', I gonad primordium - + @@ -440753,7 +440624,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -440811,7 +440682,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440821,8 +440692,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Somite located in the head region, caudal to the otic vesicle. in humans this includes somites 1-4 They provide the epaxial and hypaxial muscles of the neck, the pharyngeal and laryngeal muscles that develop in the caudal branchial arches and the musculature of the tongue. Despite their localisation in the head, myogenic precursors from occipital somites essentially follow the trunk programmes (E. H. Walters and S. D., unpublished). during evolution, have been secondarily incorporated into the head (Gans and Northcutt, 1983) @@ -440836,24 +440707,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005594 head somite - + - + - + EHDAA2 - + EHDAA2 @@ -440900,7 +440771,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -440920,7 +440791,7 @@ Classes for population already exist in IDO ('organism population', I lung primordium - + @@ -440933,7 +440804,7 @@ Classes for population already exist in IDO ('organism population', I - + XAO @@ -441006,8 +440877,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The portion of mesentery attached to the greater curvature of the stomach is named the dorsal mesentery (or dorsal mesogastrium, when referring to the portion at the stomach), and the part which suspends the colon is termed the mesocolon. The dorsal mesogastrium develops into the greater omentum. The dorsal sheet of the primitive mesentery that encloses the stomach. The greater omentum develops from the dorsal mesogastrium. [TFD][VHOG] EHDAA2:0000416 @@ -441023,11 +440894,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005602 dorsal mesogastrium - + - + @@ -441040,13 +440911,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -441084,8 +440955,8 @@ Classes for population already exist in IDO ('organism population', I - - + + EMAPA:16844 MA:0001636 VHOG:0000215 @@ -441095,24 +440966,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005604 extrahepatic part of hepatic duct - + - + - + MA - + MA @@ -441998,11 +441869,6 @@ Classes for population already exist in IDO ('organism population', I peritoneal mesothelium BTO:0003156 - - - - - peritoneal mesothelium EMAPA:16139 @@ -442574,7 +442440,7 @@ Classes for population already exist in IDO ('organism population', I - + . EHDAA2:0000474 EMAPA:31862 @@ -442587,7 +442453,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005728 extraembryonic mesoderm - + @@ -442600,7 +442466,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -442743,7 +442609,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -442759,14 +442625,14 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin field - + - + ISBN:9780878932504 ZFA-inferred @@ -443584,7 +443450,7 @@ Classes for population already exist in IDO ('organism population', I - + A delimited region of dense mesenchyme within looser mesenchyme. AEO:0000148 EHDAA2_RETIRED:0003148 @@ -443594,7 +443460,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005856 developing mesenchymal condensation - + @@ -443613,7 +443479,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO-modified-relation @@ -443635,7 +443501,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443656,7 +443522,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005863 cartilaginous condensation - + @@ -443669,7 +443535,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -443720,7 +443586,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443742,14 +443608,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005865 pre-muscle condensation - + - + AEO @@ -443760,7 +443626,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -443780,7 +443646,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005866 pre-cartilage condensation - + @@ -443793,7 +443659,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -443884,8 +443750,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A subdivision of skeleton that supports pharyngeal arch 2. it's not clear where AAO:'hyobranchial skeleton' belongs AAO:0000665 @@ -443902,24 +443768,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005884 hyoid arch skeleton - + - + - + ZFA - + cjm @@ -444181,6 +444047,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeleton which consists of cranial skeleton, set of all vertebrae, set of all ribs and sternum[FMA, modified]. + Skeletal subdivision of the central body axis including the cranium, vertebrae, notochord, ribs, and sternum.[VSAO] AAO:0000963 EMAPA:17214 @@ -444195,6 +444062,7 @@ Classes for population already exist in IDO ('organism population', I uberon skeleton axiale UBERON:0005944 + axial skeleton plus cranial skeleton @@ -444312,7 +444180,7 @@ Classes for population already exist in IDO ('organism population', I - + Anteriosuperior, smooth-walled portion of the cavity of the right ventricle, beginning at the supraventricular crest and terminating in the pulmonary trunk. infundibulum EMAPA:37926 @@ -444335,14 +444203,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0005953 outflow part of right ventricle - + - + PMID:17276708 @@ -444387,11 +444255,6 @@ Classes for population already exist in IDO ('organism population', I infundibulum of right ventricle FMA:7216 - - - - - infundibulum of right ventricle MP:0010428 @@ -444514,11 +444377,6 @@ Classes for population already exist in IDO ('organism population', I aortic vestibule FMA:9473 - - - - - aortic vestibule MP:0010429 @@ -444667,7 +444525,7 @@ Classes for population already exist in IDO ('organism population', I - + A sheet of somatopleure that grows upward over the embryo and eventually meets in the midline enclosing the embryo, eventually giving rise to the amnion and chorion[Kardong]. EMAPA:16076 amnionic fold @@ -444676,14 +444534,14 @@ Classes for population already exist in IDO ('organism population', I amniotic fold - + - + ISBN:0073040584 @@ -444873,7 +444731,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -444897,14 +444755,14 @@ Classes for population already exist in IDO ('organism population', I atrioventricular septum - + - + PMID:15797462 Wikipedia @@ -444952,7 +444810,7 @@ Classes for population already exist in IDO ('organism population', I - + The paired arteries that carry blood to the yolk sac from the dorsal aorta. EHDAA2:0002208 EMAPA:16207 @@ -444964,14 +444822,14 @@ Classes for population already exist in IDO ('organism population', I vitelline artery http://upload.wikimedia.org/wikipedia/commons/5/55/Gray31.png - + - + ventral branch @@ -445292,7 +445150,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445325,14 +445183,14 @@ Classes for population already exist in IDO ('organism population', I aortico-pulmonary spiral septum http://upload.wikimedia.org/wikipedia/commons/b/b9/Gray470.png - + - + PMID:6844926 Wikipedia @@ -445387,7 +445245,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445431,14 +445289,14 @@ Classes for population already exist in IDO ('organism population', I buccopharyngeal membrane http://upload.wikimedia.org/wikipedia/commons/9/93/Gray977.png - + - + EHDAA2 @@ -445511,7 +445369,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445534,14 +445392,14 @@ Classes for population already exist in IDO ('organism population', I future diencephalon - + - + EHDAA2 @@ -445723,8 +445581,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -445743,24 +445601,24 @@ Classes for population already exist in IDO ('organism population', I future central tendon - + - + - + EHDAA2 - + mesenchyme cranial part Wikipedia @@ -445871,7 +445729,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -445895,14 +445753,14 @@ Classes for population already exist in IDO ('organism population', I future spinal cord - + - + EHDAA2 @@ -445948,8 +445806,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -445967,24 +445825,24 @@ Classes for population already exist in IDO ('organism population', I gallbladder primordium - + - + - + EMAPA - + EHDAA2 @@ -446002,7 +445860,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -446021,7 +445879,7 @@ Classes for population already exist in IDO ('organism population', I the collection consisting of the two lateral swellings and the medial swelling lingual swellings - + @@ -446034,7 +445892,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446129,7 +445987,7 @@ Classes for population already exist in IDO ('organism population', I - + The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. TODO - check ordering; awaiting confirmation from JB The notochordal plate is the dorsal part of the notochordal process when the ventral portion breaks down. It is continuous laterally with the endoderm that composes the roof of the primitive foregut and is in contact dorsally with the neural tube. The folding off of the notochordal plate gives rise to the notochord. [Carson_JL, Dehart_DB, Developmental_Dynamics_(1994)_201:_260-278, Gesteland_K_and_Schoenwolf_GC, Inagaki_T, Morphogenesis_of_the_murine_node_and_notochordal_plate, The_prechordal_plate, Vrablic_T, see_Mueller_F_and_O'Rahilly_R, the_rostral_end_of_the_notochord_and_nearby_median_features_in_staged_human_embryos._Cells_Tissues_Organs_(2003)_173:_1-20_and_Sulik_K][VHOG] @@ -446144,7 +446002,7 @@ Classes for population already exist in IDO ('organism population', I notochordal plate - + @@ -446157,7 +446015,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446194,7 +446052,7 @@ Classes for population already exist in IDO ('organism population', I - + A midline cellular cord formed from the migration of mesenchymal cells from the primitive knot. EHDAA2:0001279 EHDAA:224 @@ -446211,14 +446069,14 @@ Classes for population already exist in IDO ('organism population', I The notochordal process grows cranially until it reaches the prechordal plate, the future site of the mouth. In this area the ectoderm is attached directly to the endoderm without intervening mesoderm. This area is known as the oropharyngeal membrane, and it will break down to become the mouth. At the other end of the primitive streak the ectoderm is also fused directly to the endoderm; this is known as the cloacal membrane (proctodeum), or primordial anus. notochordal process - + - + EHDAA2 @@ -446256,7 +446114,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -446289,7 +446147,7 @@ Classes for population already exist in IDO ('organism population', I pleuroperitoneal canal - + @@ -446302,7 +446160,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -446334,8 +446192,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -446366,24 +446224,24 @@ Classes for population already exist in IDO ('organism population', I The embryonic ventricle or primitive ventricle of the developing heart gives rise to the trabeculated parts of the left and right ventricles. In contrast, the smooth parts of the left and right ventricles originate from the embryological bulbus cordis. The primitive ventricle becomes divided by a septum, the septum inferius or ventricular septum, which grows upward from the lower part of the ventricle, its position being indicated on the surface of the heart by a furrow. Its dorsal part increases more rapidly than its ventral portion, and fuses with the dorsal part of the septum intermedium. For a time an interventricular foramen exists above its ventral portion, but this foramen is ultimately closed by the fusion of the aortic septum with the ventricular septum[WP] future cardiac ventricle - + - + - + ZFA - + EMAPA @@ -446432,8 +446290,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A dense syncitial-like mesenchymal thickening in the dorsal mesogastrium[ISBN]. the embryonic connective tissue made up of loosely aggregated mesenchymal cells, supported by interlaminar jelly, that gives rise to the developing spleen[MP]. check difference between splenic and spleen in EMAPA; note that in EHDAA2 the class 'spleen' refers to the mesenchyme UBERON:0009750 @@ -446450,11 +446308,11 @@ Classes for population already exist in IDO ('organism population', I spleen primordium - + - + @@ -446467,13 +446325,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2-modified - + XAO @@ -446532,7 +446390,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA:924 EMAPA:16663 RETIRED_EHDAA2:0002089 @@ -446544,14 +446402,14 @@ Classes for population already exist in IDO ('organism population', I See: https://github.com/obophenotype/mouse-anatomy-ontology/issues/13 and https://github.com/obophenotype/uberon/issues/693 -- consider merging into trigeminal ganglion, as this complicates the model future trigeminal ganglion - + - + EHDAA2 @@ -447013,6 +446871,7 @@ Classes for population already exist in IDO ('organism population', I The pharynx is the part of the digestive system immediately posterior to the mouth[GO]. currently this is an extremely generic class, encompassing both protostomes and deuterostomes. + 2023-04-20 branchial pharyngeal FBbt:00005380 @@ -447655,7 +447514,7 @@ Classes for population already exist in IDO ('organism population', I - + A cartilaginous joint that connects left and right mandibles/dentary bones. Mandibular symphysis is unpaired[TAO,modified]. this is placed as part of lower jaw region, as in this ontology the skeleton does not include joints Joint that articulates the left and right dentary bones. Mandibular symphysis is unpaired.[TAO] @@ -447679,7 +447538,7 @@ Classes for population already exist in IDO ('organism population', I mandibular symphysis http://upload.wikimedia.org/wikipedia/commons/6/64/Gray176.png - + @@ -447692,7 +447551,7 @@ Classes for population already exist in IDO ('organism population', I - + connects adjacent mandibles @@ -447986,7 +447845,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448001,7 +447860,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448037,14 +447896,14 @@ Classes for population already exist in IDO ('organism population', I - + - + The three-lobed cloverleaf-shaped aponeurosis situated at the center of the diaphragm; the central tendon is fused with the fibrous pericardium that provides attachment for the muscle fibers. In mammals, the diaphragm muscle divides the thoracoabdominal cavity into thorax and abdomen. In most mammals, the diaphragm is a flat sheet with muscle fibers radiating outward from a central tendon, and the diaphragm's apposition to the cranial surface of the liver gives it a dome-shape. Muscle fiber contraction reduces the curvature of the dome, thereby expanding the thoracic cavity and aspirating air into the lungs.[well established][VHOG] EMAPA:17702 @@ -448062,24 +447921,24 @@ Classes for population already exist in IDO ('organism population', I central tendon of diaphragm - + - + - + VHOG - + definitional @@ -448179,7 +448038,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448200,7 +448059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448248,7 +448107,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448273,14 +448132,14 @@ Classes for population already exist in IDO ('organism population', I median lingual swelling http://upload.wikimedia.org/wikipedia/commons/5/5c/Gray979.png - + - + EHDAA2 @@ -448429,6 +448288,7 @@ Classes for population already exist in IDO ('organism population', I The edge of the cornea where it joins the sclera; the limbus is a common site for the occurrence of corneal epithelial neoplasm. + EFO:0001403 EMAPA:37835 FMA:58342 @@ -448448,6 +448308,7 @@ Classes for population already exist in IDO ('organism population', I limbus corneae UBERON:0006761 + This location has parts such as blood vessels etc. See PMC2868485, http://www.ncbi.nlm.nih.gov/pubmed/2695343 @@ -448471,11 +448332,6 @@ Classes for population already exist in IDO ('organism population', I corneal limbus FMA:58342 - - - - - corneal limbus GAID:896 @@ -448582,7 +448438,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -448603,7 +448459,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0006815 areolar connective tissue - + @@ -448616,7 +448472,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -448756,7 +448612,6 @@ Classes for population already exist in IDO ('organism population', I A subdivision of a the reproductive tract in a female organism that is the site of embryo development. uterus - FBbt:00004924 TADS:0000421 WBbt:0006760 uberon @@ -449064,7 +448919,7 @@ Classes for population already exist in IDO ('organism population', I - + A head mesenchyme that develops_from a mesoderm. merged in 'head mesoderm' from XAO/AAO and EFO here. Partially implements https://github.com/obophenotype/uberon/wiki/The-neural-crest NC meeting scheme AAO:0011051 @@ -449092,7 +448947,7 @@ Classes for population already exist in IDO ('organism population', I head mesenchyme from mesoderm - + @@ -449105,7 +448960,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 XAO @@ -449928,7 +449783,7 @@ Classes for population already exist in IDO ('organism population', I - + The stroma of the ovary is a peculiar soft tissue, abundantly supplied with blood vessels, consisting for the most part of spindle-shaped cells with a small amount of ordinary connective tissue. These cells have been regarded by some anatomists as unstriped muscle cells, which, indeed, they most resemble; by others as connective-tissue cells. On the surface of the organ this tissue is much condensed, and forms a layer composed of short connective-tissue fibers, with fusiform cells between them. The stroma of the ovary may contain interstitial cells resembling those of the testis. CALOHA:TS-1246 @@ -449950,14 +449805,14 @@ Classes for population already exist in IDO ('organism population', I ovary stroma - + - + FMA @@ -450535,7 +450390,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest that migrates into the mandibular arch. TAO:0007064 XAO:0000024 @@ -450544,7 +450399,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007098 mandibular neural crest - + @@ -450557,7 +450412,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -450573,7 +450428,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial neural crest that migrates into the hyoid arch. TAO:0007065 XAO:0000025 @@ -450583,7 +450438,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007099 hyoid neural crest - + @@ -450596,7 +450451,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -450621,7 +450476,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -450635,7 +450490,7 @@ Classes for population already exist in IDO ('organism population', I - + A hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood or analogs[GO,modified]. note we reserve the subclass 'heart' from the vertebrate multi-chambered heart. 'The first heart-like organ is believed to have appeared 500my ago in an ancestral bilaterian'. Amniotes: four-chambered heart. Amphibians: two atria, one ventricle, pulmonary; fish: single atrium and ventricle; amphioxus: tubular, non-striated, closed, unidirectional; ascidians: tubular, striated, open, bidirectional; arthropods: tubular, open; C elegans: contractile pharynx; Cnideria: striated muscle cells associated with gastrodermis SPD:0000130 @@ -450650,14 +450505,14 @@ Classes for population already exist in IDO ('organism population', I Gene notes: Bmp, Nkx, Gata primary circulatory organ - + - + GO uses blood circulation generically to include the haemolymphatic fluid of arthropods @@ -450692,8 +450547,8 @@ Classes for population already exist in IDO ('organism population', I - - + + One of the minute vascular projections of the fetal chorion that combines with maternal uterine tissue to form the placenta. The mouse and human placentas have labyrinthine and villous types of interdigitation between maternal and fetal tissues, respectively @@ -450723,24 +450578,24 @@ Classes for population already exist in IDO ('organism population', I chorionic villus http://upload.wikimedia.org/wikipedia/commons/1/1e/Gray29.png - + - + - + BTO - + MP-def @@ -452037,14 +451892,12 @@ Classes for population already exist in IDO ('organism population', I The stroma of the bone marrow is all tissue not directly involved in the primary function of hematopoiesis. The yellow bone marrow belongs here, and makes the majority of the bone marrow stroma, in addition to stromal cells located in the red bone marrow. Yellow bone marrow is found in the Medullary cavity. Still, the stroma is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis by the parenchymal cells. For instance, they generate colony stimulating factors, affecting hematopoiesis. - CALOHA:TS-0085 FMA:21426 Wikipedia:Bone_marrow#Stroma bone marrow stroma uberon UBERON:0007195 - stroma of bone marrow @@ -452085,7 +451938,7 @@ Classes for population already exist in IDO ('organism population', I - + The structure from the trachea, bronchi, and bronchioles that forms the airways that supply air to the lungs. The lining of the tracheobronchial tree consists of ciliated columnar epithelial cells. UBERON:0004102 @@ -452102,14 +451955,14 @@ Classes for population already exist in IDO ('organism population', I tracheobronchial tree - + - + Wikipedia @@ -452264,7 +452117,7 @@ Classes for population already exist in IDO ('organism population', I - + relationship to Meckel's cartilage to be added Subsequent vertebrate evolution has also involved major alterations to the pharynx; perhaps the most notable occurred with the evolution of the gnathostomes. This involved substantial modifications to the most anterior pharyngeal segments, with the jaw forming from the first, anterior, pharyngeal segment, while the second formed its supporting apparatus, the hyoid.[well established][VHOG] EHDAA2:0000031 @@ -452278,14 +452131,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007237 1st arch mandibular component - + - + EHDAA2 @@ -452401,7 +452254,7 @@ Classes for population already exist in IDO ('organism population', I - + A tunica adventitia that is part of a artery. EMAPA:36295 EV:0100030 @@ -452413,14 +452266,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007240 tunica adventitia of artery - + - + FMA @@ -452708,7 +452561,7 @@ Classes for population already exist in IDO ('organism population', I - + A pre-cartilage condensation that is part of a trachea. EHDAA2:0002070 EHDAA:7082 @@ -452716,14 +452569,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007267 trachea pre-cartilage rings - + - + EHDAA2 @@ -452909,7 +452762,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -452930,14 +452783,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007272 pectoral appendage skeleton - + - + VSAO @@ -452972,7 +452825,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -452990,14 +452843,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007273 pelvic appendage skeleton - + - + VSAO @@ -453030,8 +452883,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -453058,24 +452911,24 @@ Classes for population already exist in IDO ('organism population', I presumptive hindbrain - + - + - + XAO-abduced - + cjm @@ -453132,7 +452985,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453146,14 +452999,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007278 presumptive sinus venosus - + - + ZFA @@ -453239,7 +453092,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453258,14 +453111,14 @@ Classes for population already exist in IDO ('organism population', I presumptive midbrain hindbrain boundary - + - + ZFA @@ -453304,7 +453157,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453321,14 +453174,14 @@ Classes for population already exist in IDO ('organism population', I presumptive segmental plate - + - + https://github.com/obophenotype/uberon/wiki/The-neural-crest EDHAA2 @@ -453427,7 +453280,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453453,7 +453306,7 @@ Classes for population already exist in IDO ('organism population', I presumptive paraxial mesoderm - + @@ -453469,7 +453322,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1277 @@ -453855,7 +453708,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -453901,7 +453754,7 @@ Classes for population already exist in IDO ('organism population', I pancreatic duct http://upload.wikimedia.org/wikipedia/commons/1/15/Gray1100.png - + @@ -453914,7 +453767,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -454661,7 +454514,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme with little extracellular matrix. AEO:0000146 EHDAA2:0003146 @@ -454669,7 +454522,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007524 dense mesenchyme tissue - + @@ -454682,7 +454535,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -454927,7 +454780,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -454947,14 +454800,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007616 layer of synovial tissue - + - + BTO @@ -455019,6 +454872,7 @@ Classes for population already exist in IDO ('organism population', I An anatomical cavity that surrounded_by a synovial joint. + FMA:11356 articular cavity (synovial joint) cavitas articularis (junctura synovialis) @@ -455027,6 +454881,7 @@ Classes for population already exist in IDO ('organism population', I joint cavity synovial cavity UBERON:0007617 + synovial cavity of joint @@ -455155,7 +455010,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455180,7 +455035,7 @@ Classes for population already exist in IDO ('organism population', I trigeminal nuclear complex http://upload.wikimedia.org/wikipedia/commons/3/30/Gray696.png - + @@ -455193,7 +455048,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -455245,8 +455100,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -455267,24 +455122,24 @@ Classes for population already exist in IDO ('organism population', I future meninx - + - + - + EHDAA2 - + ISBN:0073040584 @@ -455329,7 +455184,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455344,14 +455199,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007647 ectomeninx - + - + ISBN:9781607950325 @@ -455489,7 +455344,7 @@ Classes for population already exist in IDO ('organism population', I - + . EFO:0003626 EHDAA2:0001457 @@ -455508,14 +455363,14 @@ Classes for population already exist in IDO ('organism population', I relation conflict: ZFA vs EHDAA2. Note EHDAA2 term renamed to 'early PA endoderm' early pharyngeal endoderm - + - + cjm @@ -455552,7 +455407,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455560,7 +455415,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -455579,7 +455434,7 @@ Classes for population already exist in IDO ('organism population', I gustatory pore https://upload.wikimedia.org/wikipedia/commons/0/0e/Taste_bud.svg - + @@ -455592,7 +455447,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -455825,9 +455680,10 @@ Classes for population already exist in IDO ('organism population', I - + Anatomical system that consists of all blood and lymph vessels. consider merging with vasculature + The cardiovascular and lymphatic systems, collectively[ncithesaurus:Vascular_System]. in both MA and BTO, the arterial system and venous sytem are subtypes of the vascular system BTO:0001085 @@ -455839,17 +455695,18 @@ Classes for population already exist in IDO ('organism population', I UMLS:C0489903 uberon UBERON:0007798 + vascular system - + - + MA @@ -456144,7 +456001,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesentery that is located in the peritoneum. FMA:20570 TAO:0005129 @@ -456154,14 +456011,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007826 peritoneal mesentery - + - + FMA @@ -456240,11 +456097,13 @@ Classes for population already exist in IDO ('organism population', I A bone that is part of a pectoral girdle region. + EMAPA:35669 MA:0000292 bone of pectoral girdle uberon UBERON:0007829 + pectoral girdle bone @@ -456290,6 +456149,7 @@ Classes for population already exist in IDO ('organism population', I A bone element or fused bone that is part of pelvic girdle. check sacrum, coccyx (MA does NOT include these) + typically the ilium, ischium and pubis. These can alternately be considered individual bones, or zones of a single fused bone EMAPA:18028 MA:0000293 @@ -456300,6 +456160,7 @@ Classes for population already exist in IDO ('organism population', I pelvic girdle bone uberon UBERON:0007830 + pelvic girdle bone/zone @@ -456522,7 +456383,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -456565,14 +456426,14 @@ Classes for population already exist in IDO ('organism population', I pelvic girdle skeleton http://upload.wikimedia.org/wikipedia/commons/f/fe/Gray242.png - + - + PMID:21455939 @@ -456736,8 +456597,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -456763,11 +456624,11 @@ Classes for population already exist in IDO ('organism population', I cartilage element - + - + @@ -456780,13 +456641,13 @@ Classes for population already exist in IDO ('organism population', I - + VSAO - + VSAO @@ -456995,7 +456856,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457003,7 +456864,7 @@ Classes for population already exist in IDO ('organism population', I - + A bone that is part of a craniocervical region. EMAPA:37245 MA:0000569 @@ -457013,7 +456874,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0007914 bone of craniocervical region - + @@ -457026,7 +456887,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457393,7 +457254,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457401,7 +457262,7 @@ Classes for population already exist in IDO ('organism population', I - + Musculature system of the pharyngeal and head regions. in MA this is restricted to skeletal muscles EMAPA:37259 @@ -457415,7 +457276,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008229 craniocervical region musculature - + @@ -457428,7 +457289,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457475,8 +457336,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Subdivision of thorax, which in humans is the posterior part of the thorax and is demarcated from the chest by the external surface of the posterolateral part of the rib cage and the anterior surface of the thoracic vertebral column; together with the chest, it constitutes the thorax. EMAPA:37234 FMA:24217 @@ -457492,30 +457353,25 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008231 dorsal thoracic segment of trunk - + - + - + FMA - - - - - MA - + FMA @@ -457576,7 +457432,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457585,7 +457441,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle of back that is part of a dorsal thoracic segment of trunk. EMAPA:37261 MA:0000508 @@ -457594,7 +457450,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008243 upper back muscle - + @@ -457607,7 +457463,7 @@ Classes for population already exist in IDO ('organism population', I - + MA @@ -457750,7 +457606,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a duodenum. CALOHA:TS-2087 @@ -457764,14 +457620,14 @@ Classes for population already exist in IDO ('organism population', I duodenal epithelium - + - + FMA @@ -457840,7 +457696,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -457854,7 +457710,7 @@ Classes for population already exist in IDO ('organism population', I - + An embryonic structure that is derived from the inner cell mass and lies above the hypoblast and gives rise to the three primary germ layers. EHDAA2:0000444 EHDAA:42 @@ -457870,14 +457726,14 @@ Classes for population already exist in IDO ('organism population', I The epiblast cells (appearing on day 8 of human embryonic development) make up a columnar epithelium with dense microvilli on the apical surface. During gastrulation, the epiblast cells undergo epithelial-to-mesenchymal transition and delaminate to become the loose mesenchyme of the primitive streak. The epiblast is present in postimplantation mouse embryos between E5.5-E7.5. inner cell mass derived epiblast - + - + Wikipedia @@ -457904,7 +457760,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458023,7 +457879,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458038,7 +457894,7 @@ Classes for population already exist in IDO ('organism population', I neural tube derived brain https://github.com/obophenotype/uberon/issues/338 - + @@ -458051,7 +457907,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -458072,8 +457928,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An out-pocket of thickened ventral foregut epithelium adjacent to the developing heart. Constitutes the first morphological sign of the embryonic liver. The anterior portion of the hepatic diverticulum gives rise to the liver and intrahepatic biliary tree, while the posterior portion forms the gall bladder and extrahepatic bile ducts. in mice, the hepatic diverticulum forms by E9 and expands into an obvious liver bud by E10 The caudal part of the septum transversum is invaded by the hepatic diverticulum which divides within it to form the liver and thus gives rise to the ventral mesentery of the foregut. @@ -458092,11 +457948,11 @@ Classes for population already exist in IDO ('organism population', I hepatic diverticulum http://upload.wikimedia.org/wikipedia/commons/4/4f/Gray1088.png - + - + @@ -458109,14 +457965,14 @@ Classes for population already exist in IDO ('organism population', I - + caudal part EHDAA2 - + EHDAA2 @@ -458155,13 +458011,13 @@ Classes for population already exist in IDO ('organism population', I - + BTO:0001642 uberon UBERON:0008836 liver bud - + @@ -458174,7 +458030,7 @@ Classes for population already exist in IDO ('organism population', I - + http://www.stembook.org/node/512 @@ -458241,7 +458097,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458256,10 +458112,10 @@ Classes for population already exist in IDO ('organism population', I - - - - + + + + Dense regular connective tissue connecting two or more adjacent skeletal elements[VSAO,modified]. logical definition deliberately made strict to avoid classifying MA:spiral ligament as both nonskeletal and skeletal. see https://github.com/obophenotype/mouse-anatomy-ontology/issues/71 Dense regular connective tissue connecting two or more adjacent skeletal elements or supporting an organ.[VSAO] @@ -458284,44 +458140,44 @@ Classes for population already exist in IDO ('organism population', I skeletal ligament https://upload.wikimedia.org/wikipedia/commons/9/9a/Knee_diagram.svg - + - + - + - + - + AEO - + AEO - + bones or cartilage organs - + VSAO @@ -458391,7 +458247,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458418,14 +458274,14 @@ Classes for population already exist in IDO ('organism population', I stomach muscularis externa - + - + MA-abduced @@ -458471,7 +458327,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458503,7 +458359,7 @@ Classes for population already exist in IDO ('organism population', I pyloric canal https://upload.wikimedia.org/wikipedia/commons/3/33/Illu_stomach.jpg - + @@ -458516,7 +458372,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia @@ -458570,7 +458426,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458595,7 +458451,7 @@ Classes for population already exist in IDO ('organism population', I pyloric gastric gland http://upload.wikimedia.org/wikipedia/commons/b/bf/Gray1054.png - + @@ -458608,7 +458464,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Tubular_gland @@ -458667,7 +458523,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -458700,14 +458556,14 @@ Classes for population already exist in IDO ('organism population', I hypodermis skeletal muscle layer - + - + MP-def @@ -458910,10 +458766,11 @@ Classes for population already exist in IDO ('organism population', I - - + + Subdivision of endoskeleton derived from pharyngeal arches. + Anatomical cluster that is part of the cranium and consists of the jaws, hyoid and branchial arches.[TAO] Anatomical cluster that is part of the cranium and consists of the jaws, hyoid, and branchial arches.[AAO] The part of the skull derived from the embryonic pharyngeal arches. [Biology_Online][VHOG] @@ -458939,27 +458796,28 @@ Classes for population already exist in IDO ('organism population', I visceral skeletal system visceral skeleton UBERON:0008895 + splanchnocranium http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg - + - + - + https://github.com/obophenotype/uberon/issues/83 - + redundant Grays PMID:11237469 @@ -459195,7 +459053,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459204,7 +459062,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that forms superficially in the organism, usually in association with the ectoderm[VSAO]. Intramembranous bone that forms superficially in the organism.[TAO] other AOs are not yet in sync with this classification @@ -459219,7 +459077,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008907 dermal bone - + @@ -459238,7 +459096,7 @@ Classes for population already exist in IDO ('organism population', I - + VSAO @@ -459350,7 +459208,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459358,7 +459216,7 @@ Classes for population already exist in IDO ('organism population', I - + A parenchyma that is part of a lung. EMAPA:35522 FMA:27360 @@ -459371,7 +459229,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0008946 lung parenchyma - + @@ -459384,7 +459242,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -459986,7 +459844,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -459995,7 +459853,7 @@ Classes for population already exist in IDO ('organism population', I - + Cranial ganglion which develops from an epibranchial placode. TAO:0001555 ZFA:0001555 @@ -460005,7 +459863,7 @@ Classes for population already exist in IDO ('organism population', I Epibranchial ganglia orchestrate the development of the cranial neurogenic crest epibranchial ganglion - + @@ -460018,7 +459876,7 @@ Classes for population already exist in IDO ('organism population', I - + NCBIBook:NBK53175 @@ -460062,8 +459920,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Endocardium that is part of the right atrium. EHDAA2:0000274 FMA:7281 @@ -460077,24 +459935,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009129 right atrium endocardium - + - + - + EHDAA2 - + EHDAA2 @@ -460258,7 +460116,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -460275,14 +460133,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009142 entire embryonic mesenchyme - + - + EHDAA2 @@ -460298,7 +460156,7 @@ Classes for population already exist in IDO ('organism population', I - + EMAPA:16549 RETIRED_EHDAA2:0001454 pharyngeal region @@ -460306,14 +460164,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009145 pharyngeal region of foregut - + - + EHDAA2 @@ -460429,20 +460287,20 @@ Classes for population already exist in IDO ('organism population', I - + Any suture between facial bones. uberon UBERON:0009199 facial suture - + - + between two adjacent facial bones @@ -460458,7 +460316,7 @@ Classes for population already exist in IDO ('organism population', I - + The superior surface of the tongue divided by the sulcus terminalis into an anterior two-thirds, the presulcal part (pars presulcalis). and a posterior one-third, the postsulcal part (pars postsulcalis). FMA:54651 NCIT:C32482 @@ -460471,14 +460329,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009471 dorsum of tongue - + - + FMA @@ -460713,7 +460571,7 @@ Classes for population already exist in IDO ('organism population', I - + A portion of mesenchymal tissue associated with an individual pharyngeal arch. this represents a part of the entire arch mesenchyme (UBERON:0010046), and is therefore a superclass of the individual arch mesenchyme classes. Alternate definition: primordial embryonic connective tissue associated with the branchial arches, consisting of mesenchymal cells supported in interlaminar jelly, that derive mostly from the mesoderm and contribute to facial and cranial nerve-associated structures. EMAPA:32755 @@ -460725,7 +460583,7 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch mesenchymal region - + @@ -460738,7 +460596,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -460785,14 +460643,14 @@ Classes for population already exist in IDO ('organism population', I - + - + An epithelium that is part of a foregut-midgut junction. EHDAA2:0000573 EMAPA:16564 @@ -460801,24 +460659,24 @@ Classes for population already exist in IDO ('organism population', I epithelium of foregut-midgut junction - + - + - + EHDAA2 - + EHDAA2 @@ -461173,7 +461031,7 @@ Classes for population already exist in IDO ('organism population', I - + A submucosa that is part of a intestine. FMA:15696 submucosa of intestine @@ -461181,14 +461039,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009566 intestinal submucosa - + - + FMA @@ -461306,7 +461164,7 @@ Classes for population already exist in IDO ('organism population', I - + A sulcus limitans of neural tube that is part of a future medulla oblongata. EHDAA2:0001100 EMAPA:17561 @@ -461314,14 +461172,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009576 medulla oblongata sulcus limitans - + - + EHDAA2 @@ -461536,7 +461394,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -461544,7 +461402,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a 1st arch mandibular component. UBERON:0010043 EHDAA2:0000034 @@ -461557,14 +461415,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009584 1st arch mandibular mesenchyme - + - + EMAPA @@ -461680,9 +461538,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461696,7 +461554,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009610 forebrain neural plate - + @@ -461705,20 +461563,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461733,9 +461591,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461749,7 +461607,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009611 midbrain neural plate - + @@ -461758,20 +461616,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461786,9 +461644,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461802,7 +461660,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009614 hindbrain neural plate - + @@ -461811,20 +461669,20 @@ Classes for population already exist in IDO ('organism population', I - + - + ZFA - + ZFA @@ -461840,8 +461698,8 @@ Classes for population already exist in IDO ('organism population', I - - + + TODO - developmental relationships for lines TAO:0007044 ZFA:0007044 @@ -461851,24 +461709,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009615 midbrain hindbrain boundary neural plate - + - + - + ZFA - + https://github.com/obophenotype/uberon/issues/438 Bgee:AN @@ -461902,14 +461760,14 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -461934,24 +461792,24 @@ Classes for population already exist in IDO ('organism population', I presumptive midbrain - + - + - + ZFA - + ZFA @@ -461997,7 +461855,7 @@ Classes for population already exist in IDO ('organism population', I - + Bilateral mesenchymal mesoderm parallel and immediately adjacent to the neural tube/notochord; it generates a subset of extra-ocular, and other head, muscles. A major contributor to neurocranium [PMID:16313393] EHDAA2:0000736 @@ -462014,14 +461872,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009617 head paraxial mesoderm - + - + EHDAA2 @@ -462074,7 +461932,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0002094 trunk and cervical paraxial mesenchyme uberon @@ -462082,14 +461940,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009618 trunk paraxial mesoderm - + - + EHDAA2 @@ -462111,10 +461969,12 @@ Classes for population already exist in IDO ('organism population', I + EMAPA:35878 MA:0001859 uberon UBERON:0009644 + trachea non-cartilage connective tissue @@ -462141,7 +462001,7 @@ Classes for population already exist in IDO ('organism population', I - + A basement membrane that is part of a bronchus. MA classifies as type of connective tissue: https://github.com/obophenotype/mouse-anatomy-ontology/issues/108 EMAPA:37809 @@ -462153,14 +462013,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009652 bronchus basement membrane - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships @@ -462212,8 +462072,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A basement membrane that is part of a trachea. EMAPA:37552 MA:0001854 @@ -462223,25 +462083,25 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009653 trachea basement membrane - + - + - + true https://github.com/obophenotype/uberon/wiki/Inferring-part-of-relationships - + MA-modified @@ -462432,7 +462292,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004566 EMAPA:32911 MA:0003203 @@ -462443,14 +462303,14 @@ Classes for population already exist in IDO ('organism population', I gut mesentery https://github.com/obophenotype/uberon/issues/509 - + - + EHDAA2 @@ -462537,8 +462397,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -462555,24 +462415,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009670 rectal lumen - + - + - + cjm - + EHDAA2 @@ -462595,9 +462455,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0001371 uberon @@ -462607,15 +462467,15 @@ Classes for population already exist in IDO ('organism population', I dorsal pancreas - + - + - + @@ -462628,19 +462488,19 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 - + cjm @@ -462651,9 +462511,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0001393 uberon @@ -462663,15 +462523,15 @@ Classes for population already exist in IDO ('organism population', I ventral pancreas - + - + - + @@ -462684,19 +462544,19 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 - + cjm @@ -462723,8 +462583,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Any endocardium that is part of the right ventricle of the heart. Endocardium of ventricle which is continuous tricuspid valve, pulmonary valve and with the tunica intima of the pulmonary trunk. EHDAA2:0002188 @@ -462741,24 +462601,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009712 endocardium of right ventricle - + - + - + EHDAA2 - + FMA @@ -462821,7 +462681,7 @@ Classes for population already exist in IDO ('organism population', I - + Any endocardium that is part of the left ventricle of the heart. Endocardium of ventricle which is continuous with mitral valve, aortic valve, atrioventricular septum and the tunica intima of the aorta. EHDAA2:0002182 @@ -462837,14 +462697,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009713 endocardium of left ventricle - + - + FMA @@ -462930,7 +462790,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -462945,14 +462805,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009722 entire pharyngeal arch endoderm - + - + EHDAA2 @@ -463107,7 +462967,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -463120,7 +462980,7 @@ Classes for population already exist in IDO ('organism population', I - + A serous sac that has the pleura and the pleural cavity as parts. despite its name the class EHDAA2:0004737 is not a true cavity, it corresponds to what we call the sac EHDAA2:0004737 @@ -463131,24 +462991,24 @@ Classes for population already exist in IDO ('organism population', I pleural sac - + - + - + FMA - + FMA-abduced-lr @@ -463263,8 +463123,8 @@ Classes for population already exist in IDO ('organism population', I - - + + An epithelium that is part of a embryonic cloaca. cloacal epithelium EHDAA2:0004585 @@ -463272,24 +463132,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009846 embryonic cloacal epithelium - + - + - + EHDAA2 - + EHDAA2 @@ -463435,7 +463295,7 @@ Classes for population already exist in IDO ('organism population', I - + EFO:0003704 TAO:0005041 ZFA:0005041 @@ -463445,14 +463305,14 @@ Classes for population already exist in IDO ('organism population', I anterior lateral plate mesoderm - + - + ZFA @@ -463527,9 +463387,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -463549,34 +463409,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0009889 secondary heart field - + - + - + - + GO:0003129 - + PMID:17276708 - + PMID:17276708 @@ -463745,14 +463605,14 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0001315 EHDAA:1122 uberon UBERON:0009920 optic neural crest - + @@ -463765,7 +463625,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -464050,7 +463910,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -464065,14 +463925,14 @@ Classes for population already exist in IDO ('organism population', I placental labyrinth villous - + - + MP @@ -464190,7 +464050,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -464226,7 +464086,7 @@ Classes for population already exist in IDO ('organism population', I anterior part of tongue https://upload.wikimedia.org/wikipedia/commons/4/4c/Illu04_tongue.jpg - + @@ -464242,7 +464102,7 @@ Classes for population already exist in IDO ('organism population', I - + ISBN:1607950324 @@ -464411,8 +464271,8 @@ Classes for population already exist in IDO ('organism population', I - - + + The sum total of mesenchymal tissue in the pharyngeal arch region. Pharyngeal mesenchyme is undifferentiated, loose connective tissue derived mostly from mesoderm, and also contains ectodermally derived neural crest cells. EHDAA2:0001459 EMAPA:16550 @@ -464424,11 +464284,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010046 entire pharyngeal arch associated mesenchyme - + - + @@ -464441,13 +464301,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + cjm @@ -464628,13 +464488,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004610 uberon UBERON:0010059 hypoglossal cord - + @@ -464647,7 +464507,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -464674,7 +464534,7 @@ Classes for population already exist in IDO ('organism population', I - + An anatomical space with at least one opening to another space or the exterior. AEO:0000221 EHDAA2:0004616 @@ -464682,14 +464542,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010064 open anatomical space - + - + cjm @@ -464822,9 +464682,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -464838,34 +464698,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010083 future dermis - + - + - + - + EHDAA2 - + EHDAA2 - + XAO @@ -464892,9 +464752,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + @@ -464907,34 +464767,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010084 future diaphragm - + - + - + - + EHDAA2 - + PMID:23586979 - + PMID:23586979 @@ -465333,7 +465193,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465345,14 +465205,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010191 aortic system - + - + Wikipedia @@ -465476,7 +465336,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465498,14 +465358,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010212 laryngeal apparatus - + - + EHDAA2 @@ -465527,30 +465387,30 @@ Classes for population already exist in IDO ('organism population', I - - + + uberon UBERON:0010213 laryngeal pre-cartilage condensation - + - + - + EHDAA2-abstracted - + EHDAA2-abstracted @@ -465560,35 +465420,35 @@ Classes for population already exist in IDO ('organism population', I - + - - - + + + EHDAA2:0004085 uberon UBERON:0010221 Many sources say: thyroid cartilage from arch 4 other laryngeal cartilage (cricoid/arytenoid) from 6? laryngeal associated mesenchyme - + - + - + - + @@ -465601,25 +465461,25 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + Wikipedia - + Wikipedia - + Wikipedia @@ -465650,7 +465510,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465668,14 +465528,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010227 future cardiac atrium - + - + ZFA @@ -465709,7 +465569,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465734,14 +465594,14 @@ Classes for population already exist in IDO ('organism population', I eyeball of camera-type eye - + - + FMA @@ -465827,7 +465687,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465840,8 +465700,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -465854,11 +465714,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010252 1st arch mandibular mesenchyme from neural crest - + - + @@ -465871,13 +465731,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -465896,7 +465756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465910,8 +465770,8 @@ Classes for population already exist in IDO ('organism population', I - - + + @@ -465928,24 +465788,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010254 2nd arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -465964,7 +465824,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -465978,7 +465838,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a neural crest and is part of a 3rd arch mesenchyme. In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG] EHDAA2:0000083 @@ -465993,14 +465853,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010255 3rd arch mesenchyme from neural crest - + - + EHDAA2 @@ -466041,7 +465901,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466055,8 +465915,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a 4th arch mesenchyme. In all vertebrates, the pharyngeal apparatus develops from a series of bulges found on the lateral surface of the head, the pharyngeal arches, which consist of a number of different embryonic cell types. Each arch has an external covering of ectoderm and inner covering of endoderm, and between these a mesenchymal filling of neural crest with a central core of mesoderm.[well established][VHOG] EHDAA2:0000098 @@ -466071,24 +465931,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010256 4th arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -466129,7 +465989,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466143,8 +466003,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a 6th arch mesenchyme. EHDAA2:0004077 neural crest derived arch 6 mesenchyme @@ -466154,24 +466014,24 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010257 6th arch mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -466199,7 +466059,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466212,14 +466072,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010258 mesenchyme from rhombencephalic neural crest - + - + EHDAA2 @@ -466287,7 +466147,7 @@ Classes for population already exist in IDO ('organism population', I - + A group of bones comprised of hyoid body and two pairs of cornua (i.e. greater cornua and lesser cornua), and lies just below the tongue, above the thyroid cartilage. Apparatus located in the floor of the mouth, under the mandibular arcade. The apparatus consists of a central corpus and four pairs of processes. This apparatus serves as the site of insertion for a variety of muscles associated with movements of the tongue and as the origin of the m. hyoglossus.[AAO] relationship loss: part_of hyolaryngeal complex (AAO:0000226)[AAO] @@ -466306,14 +466166,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010272 hyoid apparatus - + - + AAO @@ -466420,8 +466280,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Portion of tissue that is dorsolateral to the floor plate and part of the midbrain. DHBA:12322 EFO:0003567 @@ -466435,11 +466295,11 @@ Classes for population already exist in IDO ('organism population', I midbrain basal plate - + - + @@ -466452,13 +466312,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + ZFA @@ -466486,7 +466346,7 @@ Classes for population already exist in IDO ('organism population', I - + Portion of neural tube that gives rise to the midbrain. we follow ZFA in temporally dividing midbrain NT from presumptive midbrain, but in future this may be collapsed TAO:0007039 @@ -466495,14 +466355,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010286 midbrain neural tube - + - + ZFA @@ -466518,21 +466378,21 @@ Classes for population already exist in IDO ('organism population', I - + . Wikipedia:Sclera#Histology uberon UBERON:0010291 layer of sclera - + - + cjm @@ -466753,7 +466613,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -466769,14 +466629,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010312 immature eye - + - + definitional @@ -467028,20 +466888,20 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a limb/fin bud. uberon UBERON:0010329 paired limb/fin bud mesenchyme - + - + EHDAA2-abduced @@ -467076,20 +466936,20 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that is part of a extraembryonic membrane. uberon UBERON:0010333 extraembryonic membrane mesenchyme - + - + EHDAA2-abduced @@ -467108,7 +466968,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467121,32 +466981,32 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a neural crest and is part of a mandibular process mesenchyme. EHDAA2:0004603 uberon UBERON:0010336 mandibular process mesenchyme from neural crest - + - + - + EHDAA2 - + EHDAA2 @@ -467165,7 +467025,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467178,32 +467038,32 @@ Classes for population already exist in IDO ('organism population', I - - + + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a mandibular process mesenchyme. EHDAA2:0004604 uberon UBERON:0010337 mandibular process mesenchyme from head mesenchyme - + - + - + EHDAA2 - + EHDAA2 @@ -467222,7 +467082,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467235,21 +467095,21 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mandibular mesenchyme. EHDAA2:0000036 uberon UBERON:0010339 1st arch mandibular mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467268,7 +467128,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467282,7 +467142,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 1st arch mesenchyme. EMAPA:16130 mesenchyme derived from head mesoderm of mesenchyme of 1st arch @@ -467290,14 +467150,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010341 1st arch mesenchyme from head mesenchyme - + - + EMAPA @@ -467322,7 +467182,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467336,7 +467196,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 2nd arch mesenchyme. EHDAA2:0000067 EMAPA:16280 @@ -467348,14 +467208,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010343 2nd arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467380,7 +467240,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467394,7 +467254,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 3rd arch mesenchyme. EHDAA2:0000082 EMAPA:16403 @@ -467406,14 +467266,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010344 3rd arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467438,7 +467298,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467452,7 +467312,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 4th arch mesenchyme. EHDAA2:0000097 EMAPA:16771 @@ -467464,14 +467324,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010345 4th arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467496,7 +467356,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467510,7 +467370,7 @@ Classes for population already exist in IDO ('organism population', I - + Mesenchyme that develops_from a head mesenchyme from mesoderm and is part of a 6th arch mesenchyme. EHDAA2:0004078 head mesenchyme derived arch 6 mesenchyme @@ -467520,14 +467380,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010347 6th arch mesenchyme from head mesenchyme - + - + EHDAA2 @@ -467900,7 +467760,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467915,14 +467775,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010375 pancreas dorsal primordium - + - + EHDAA2 @@ -467951,7 +467811,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -467966,14 +467826,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010376 pancreas ventral primordium - + - + EHDAA2 @@ -468006,7 +467866,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -468020,7 +467880,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010377 mesenchyme from somatopleure - + @@ -468033,7 +467893,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -468065,7 +467925,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -468078,7 +467938,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010378 mesenchyme from splanchnopleure - + @@ -468091,7 +467951,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -468430,7 +468290,7 @@ Classes for population already exist in IDO ('organism population', I - + Skeletal element that forms as a replacement or substitution of another element or tissue. VSAO:0000135 XAO:0004016 @@ -468439,7 +468299,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010522 replacement element - + @@ -468452,7 +468312,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -468471,7 +468331,7 @@ Classes for population already exist in IDO ('organism population', I - + A vessel of the microcirculature, lying between the arterioles and venules; includes capillaries (blood and lymphatic), metarterioles and arteriovenous anastomoses. MESH:D055806 TAO:0005251 @@ -468481,14 +468341,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010523 microcirculatory vessel - + - + ZFA @@ -469023,7 +468883,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469046,14 +468906,14 @@ Classes for population already exist in IDO ('organism population', I bone of appendage girdle complex - + - + UBERONREF:0000003 @@ -469306,7 +469166,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscles of the pelvic girdle, hindlimb or pelvic fin. Muscles of the pelvic girdle, thigh, leg (crus), and foot (pes).[AAO] AAO:0000218 @@ -469324,14 +469184,14 @@ Classes for population already exist in IDO ('organism population', I pelvic complex muscle - + - + prolog @@ -469399,7 +469259,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle of a pectoral girdle, pectoral fin or anterior limb. the MA class belongs here, based on its current child classes Muscles of the pectoral girdle, arm, forearm, and hand (brachium, antebrachium, manus respectively).[AAO] @@ -469416,14 +469276,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010891 pectoral complex muscle - + - + prolog @@ -469475,8 +469335,8 @@ Classes for population already exist in IDO ('organism population', I - - + + Anatomical cluster consisting of the skeletal elements (i.e. bone elements, cartilage elements, cartilage condensations) that are part of an individual subdivision of the organism. Excludes joints. Anatomical cluster consisting of the skeletal elements that are part of the skeleton.[VSAO] FMA:23879 @@ -469489,11 +469349,11 @@ Classes for population already exist in IDO ('organism population', I subdivision of skeleton - + - + @@ -469506,13 +469366,13 @@ Classes for population already exist in IDO ('organism population', I - + UBERONREF:0000003 - + VSAO @@ -469562,7 +469422,7 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of either the head or the neck. NCIT:C32716 UMLS:C0448281 @@ -469572,14 +469432,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0010959 craniocervical muscle - + - + prolog @@ -469604,7 +469464,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469612,7 +469472,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -469630,7 +469490,7 @@ Classes for population already exist in IDO ('organism population', I pharyngeal arch cartilage - + @@ -469643,7 +469503,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -470096,7 +469956,7 @@ Classes for population already exist in IDO ('organism population', I - + Subdivision of the skeletal system which consists of the postcranial axial skeleton plus associated joints. axial skeletal system FMA:302077 @@ -470106,7 +469966,7 @@ Classes for population already exist in IDO ('organism population', I postcranial axial skeletal system http://purl.obolibrary.org/obo/uberon/docs/The-axial-skeleton - + @@ -470119,7 +469979,7 @@ Classes for population already exist in IDO ('organism population', I - + cjm @@ -470159,7 +470019,7 @@ Classes for population already exist in IDO ('organism population', I - + Gland of the lamina epithelialis mucosae which perforate the lamina muscularis, with their adenomeres located in the submucosal connective tissue. BTO:0003751 EMAPA:37970 @@ -470168,14 +470028,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011148 submucosal gland - + - + perforates @@ -470199,7 +470059,7 @@ Classes for population already exist in IDO ('organism population', I - + Subdivision of skull that consists of the facial bones. EHDAA2:0002206 EHDAA:8361 @@ -470218,7 +470078,7 @@ Classes for population already exist in IDO ('organism population', I facial skeleton http://upload.wikimedia.org/wikipedia/commons/7/77/Illu_facial_bones.jpg - + @@ -470231,7 +470091,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -470453,7 +470313,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a large intestine. FMA:15654 @@ -470467,14 +470327,14 @@ Classes for population already exist in IDO ('organism population', I lamina propria of large intestine - + - + FMA @@ -470519,7 +470379,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a large intestine. FMA:14971 NCIT:C32927 @@ -470532,14 +470392,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011198 muscle layer of large intestine - + - + FMA @@ -470597,7 +470457,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a small intestine. FMA:14932 NCIT:C33569 @@ -470613,14 +470473,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011201 muscle layer of small intestine - + - + FMA @@ -470768,7 +470628,7 @@ Classes for population already exist in IDO ('organism population', I - + Muscles within the eye (bulbus oculi).[AAO] AAO:0010038 EMAPA:18808 @@ -470779,14 +470639,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011222 intra-ocular muscle - + - + EMAPA @@ -470942,7 +470802,7 @@ Classes for population already exist in IDO ('organism population', I - + The part of the trunk that is in the dorsum[cjm]. In humans, the subdivision of trunk which is demarcated from the trunk proper by the external surface of the posterolateral part of the rib cage, the anterior surface of the thoracic vertebral column and the posterior axillary lines, the external surface of the posterior abdominal wall; together with the trunk proper, it constitutes the trunk[FMA] EMAPA:35162 @@ -470957,7 +470817,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011270 dorsal trunk - + @@ -470970,7 +470830,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -471005,8 +470865,8 @@ Classes for population already exist in IDO ('organism population', I - - + + compare with 'stratum basale of epidermis'. This class is the source for many adult structures - see WP2062. See also: 'enveloping layer of ectoderm' EHDAA2:0001845 uberon @@ -471015,11 +470875,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011272 embryonic skin basal layer - + - + @@ -471032,13 +470892,13 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 - + EHDAA2 @@ -471371,7 +471231,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471395,14 +471255,14 @@ Classes for population already exist in IDO ('organism population', I lumen of esophagus - + - + FMA @@ -471466,7 +471326,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471484,14 +471344,14 @@ Classes for population already exist in IDO ('organism population', I paired limb/fin skeleton - + - + ISBN:9780878932504 @@ -471563,7 +471423,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -471584,14 +471444,14 @@ Classes for population already exist in IDO ('organism population', I jaw region http://eol.org/collections/11578 - + - + EMAPA FMA-abduced ZFA-abduced @@ -471610,14 +471470,14 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0001020 lower jaw future lip uberon UBERON:0011596 future lower lip - + @@ -471630,7 +471490,7 @@ Classes for population already exist in IDO ('organism population', I - + Wikipedia:Mandibular_prominence @@ -471669,14 +471529,14 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that develops_from a ectoderm and is part of a oral epithelium. EHDAA2:0004137 uberon UBERON:0011642 oral epithelium from ectoderm - + @@ -471689,7 +471549,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -472775,7 +472635,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of a wall of esophagus. In the upper esophagus, part of the externa is skeletal muscle, rather than smooth muscle FMA:62998 @@ -472789,14 +472649,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011878 muscle layer of esophagus - + - + upper part Wikipedia:Muscular_layer @@ -472858,7 +472718,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -472900,7 +472760,7 @@ Classes for population already exist in IDO ('organism population', I anterior uvea - + @@ -472913,7 +472773,7 @@ Classes for population already exist in IDO ('organism population', I - + MP @@ -472953,7 +472813,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -472978,7 +472838,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0011899 epimysium - + @@ -472991,7 +472851,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -473044,7 +472904,7 @@ Classes for population already exist in IDO ('organism population', I - + Masses of developing blood cells attached to endothelium in the yolk sac. EHDAA2:0000177 EMAPA:16115 @@ -473055,14 +472915,14 @@ Classes for population already exist in IDO ('organism population', I yolk sac blood island - + - + EHDAA2 @@ -473570,9 +473430,9 @@ Classes for population already exist in IDO ('organism population', I - + - + @@ -473588,7 +473448,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012082 bronchial lumen - + @@ -473597,20 +473457,20 @@ Classes for population already exist in IDO ('organism population', I - + - + FMA - + FMA @@ -474037,7 +473897,7 @@ Classes for population already exist in IDO ('organism population', I - + The deep cervical artery (Profunda cervicalis) is an artery of the neck. FMA:10659 @@ -474049,14 +473909,14 @@ Classes for population already exist in IDO ('organism population', I deep cervical artery - + - + FMA @@ -474114,11 +473974,6 @@ Classes for population already exist in IDO ('organism population', I cervical artery MA:0001936 - - - - - cervical artery Wikipedia:Transverse_cervical_artery @@ -474283,20 +474138,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004588 uberon UBERON:0012361 internal anal region - + - + EHDAA2 @@ -474317,7 +474172,7 @@ Classes for population already exist in IDO ('organism population', I - + A muscle layer that is part of an intestine. FMA:15697 intestinal muscularis propria @@ -474327,14 +474182,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012367 muscle layer of intestine - + - + FMA @@ -474622,7 +474477,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -474644,7 +474499,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012429 hematopoietic tissue - + @@ -474657,7 +474512,7 @@ Classes for population already exist in IDO ('organism population', I - + defitional @@ -474802,7 +474657,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -474819,14 +474674,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0012463 cloacal lumen - + - + cjm @@ -475016,20 +474871,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004589 uberon UBERON:0012469 external anal region - + - + EHDAA2 @@ -475056,7 +474911,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -475076,14 +474931,14 @@ Classes for population already exist in IDO ('organism population', I skeleton of pectoral complex - + - + FMA @@ -475152,7 +475007,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -475172,14 +475027,14 @@ Classes for population already exist in IDO ('organism population', I skeleton of pelvic complex - + - + FMA @@ -476036,7 +475891,7 @@ Classes for population already exist in IDO ('organism population', I - + A vein that drains a lip. SCTID:367664002 labial vein of face @@ -476047,14 +475902,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013136 vein of lip - + - + FMA @@ -476190,9 +476045,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + EHDAA2:0000033 EMAPA:16384 endoderm of mandibular component @@ -476200,34 +476055,34 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013156 1st arch mandibular endoderm - + - + - + - + EHDAA2 - + EHDAA2 - + EHDAA2 @@ -476342,7 +476197,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -476366,14 +476221,14 @@ Classes for population already exist in IDO ('organism population', I cranial cavity http://upload.wikimedia.org/wikipedia/commons/e/ee/Scheme_body_cavities-en.svg - + - + Wikipedia @@ -476669,7 +476524,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -476686,14 +476541,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013525 stomach lumen - + - + FMA @@ -476744,7 +476599,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a intestinal villus. FMA:63587 intestinal villus epithelium @@ -476754,14 +476609,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0013636 epithelium of intestinal villus - + - + FMA @@ -477621,7 +477476,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -477639,14 +477494,14 @@ Classes for population already exist in IDO ('organism population', I paired anteriolateral division of the embryonic prosencephalon plus the lamina terminalis from which the olfactory lobes, cerebral cortex, and subcortical nuclei are derived[MP] future telencephalon - + - + definitional @@ -478226,6 +478081,7 @@ Classes for population already exist in IDO ('organism population', I Subdivision of skeletal system that consists of all skeletal elements in the thoracic region of the trunk. In most vertebrates this is the rib cage and sternum. + EHDAA2:0002013 FMA:77169 Wikipedia:Thoracic_skeleton @@ -478234,6 +478090,7 @@ Classes for population already exist in IDO ('organism population', I thoracic skeleton uberon UBERON:0014477 + thoracic skeleton @@ -478405,6 +478262,7 @@ Classes for population already exist in IDO ('organism population', I A ventral horn of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:1410 SCTID:367876000 UMLS:C0228632 @@ -478413,6 +478271,7 @@ Classes for population already exist in IDO ('organism population', I uberon thoracic spinal cord anterior horn UBERON:0014610 + thoracic spinal cord ventral horn @@ -478471,12 +478330,14 @@ Classes for population already exist in IDO ('organism population', I A gray matter of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1521 SCTID:362438009 UMLS:C0228610 cervical spinal cord gray matter uberon UBERON:0014613 + cervical spinal cord gray matter @@ -478523,12 +478384,14 @@ Classes for population already exist in IDO ('organism population', I A white matter of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1531 SCTID:174829001 UMLS:C0228616 cervical spinal cord white matter uberon UBERON:0014614 + cervical spinal cord white matter @@ -478575,6 +478438,7 @@ Classes for population already exist in IDO ('organism population', I A ventral horn of spinal cord that is part of a cervical spinal cord. + BIRNLEX:1680 SCTID:174363005 UMLS:C0228615 @@ -478583,6 +478447,7 @@ Classes for population already exist in IDO ('organism population', I uberon cervical spinal cord anterior horn UBERON:0014621 + cervical spinal cord ventral horn @@ -478641,12 +478506,14 @@ Classes for population already exist in IDO ('organism population', I A gray matter of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:980 SCTID:362441000 UMLS:C0228627 thoracic spinal cord gray matter uberon UBERON:0014636 + thoracic spinal cord gray matter @@ -478693,6 +478560,7 @@ Classes for population already exist in IDO ('organism population', I A white matter of spinal cord that is part of a thoracic spinal cord. + BIRNLEX:999 SCTID:367881009 UMLS:C0228633 @@ -478700,6 +478568,7 @@ Classes for population already exist in IDO ('organism population', I thoracic spinal cord white matter uberon UBERON:0014637 + thoracic spinal cord white matter @@ -478856,7 +478725,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -478871,14 +478740,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0014704 pleuroperitoneal canal lumen - + - + EHDAA2 @@ -478920,7 +478789,7 @@ Classes for population already exist in IDO ('organism population', I - + An epithelium that is part of a median lingual swelling. EHDAA2:0001085 EMAPA:17188 @@ -478929,7 +478798,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0014705 median lingual swelling epithelium - + @@ -478942,7 +478811,7 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2 @@ -479545,20 +479414,20 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pectoral appendage (forelimb or pectoral fin). uberon UBERON:0014794 pectoral appendage muscle - + - + prolog @@ -479585,20 +479454,20 @@ Classes for population already exist in IDO ('organism population', I - + Any muscle organ that is part of a pelvic appendage (hindlimb or pelvic fin). uberon UBERON:0014795 pelvic appendage muscle - + - + prolog @@ -479667,6 +479536,10 @@ Classes for population already exist in IDO ('organism population', I + + + + @@ -479679,10 +479552,6 @@ Classes for population already exist in IDO ('organism population', I - - - - @@ -479693,6 +479562,12 @@ Classes for population already exist in IDO ('organism population', I + + + + + + @@ -479711,12 +479586,6 @@ Classes for population already exist in IDO ('organism population', I - - - - - - A muscle organ that consists of skeletal muscle tissue ensheathed in epimysium, that develops from myotome and that is innervated by some somatic motor neuron. Skeletal muscles are typically attached (via a tendon) to a bone but there are exceptions (e.g. intrinsic tongue muscles). skeletal muscle AAO:0011099 @@ -479801,7 +479670,7 @@ Classes for population already exist in IDO ('organism population', I - + One of the primary blood vessel sprouts that originate from the dorsal aorta and posterior cardinal vein and align dorsoventrally at the myotomal boundaries between somites. Blood vessels that connect the dorsal aorta or the posterior cardinal vein and the dorsal longitudinal anastomotic vessel. They run along the vertical myotomal boundaries. At early stages these don't have venous or arterial markers[ZFA:0001285, ZFIN:ZDB-PUB-030908-4]. EFO:0003664 @@ -479819,7 +479688,7 @@ Classes for population already exist in IDO ('organism population', I intersomitic vessel - + @@ -479832,7 +479701,7 @@ Classes for population already exist in IDO ('organism population', I - + ZFA @@ -479892,20 +479761,20 @@ Classes for population already exist in IDO ('organism population', I - + these layers primarily refer to the mammalian future neocortex uberon UBERON:0014950 layer of developing cerebral cortex - + - + EMAPA @@ -479915,7 +479784,7 @@ Classes for population already exist in IDO ('organism population', I - + consider merging into myocardial compact layer FMA:83105 perimysial connective tissue of subepicardium @@ -479924,14 +479793,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015128 subepicardial layer of epicardium - + - + FMA @@ -480030,7 +479899,7 @@ Classes for population already exist in IDO ('organism population', I - + A gland that is typically found in or near the orbital region, in or around either the medial or lateral canthi, and is typically associated with secretions onto the eyeball or associated ducts. Includes the Harderian, nictitans and lacrimal glands. the only orbital gland found in anuran amphibians is either the Harderian or the lacrimal; if it is a lacrimal, then a progressive lateral migration of the lacrimal glands must occur through the amniotes[PMID:7559104] the only orbital gland found in anuran amphibians is the Harderian[PMID:8843648] @@ -480040,14 +479909,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015152 gland of ocular region - + - + inferred @@ -480558,7 +480427,7 @@ Classes for population already exist in IDO ('organism population', I - + A basement membrane of epithelium that is part of a respiratory system. EMAPA:37570 MA:0001815 @@ -480566,14 +480435,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0015329 respiratory system basement membrane - + - + MA @@ -480634,7 +480503,7 @@ Classes for population already exist in IDO ('organism population', I - + The hepatic artery proper (also proper hepatic artery), arises from the common hepatic artery and runs alongside the portal vein and the common bile duct to form the portal triad. The hepatic artery proper gives off a small supraduodenal artery to the duodenal bulb. Then the right gastric artery comes off and runs to the left along the lesser curvature of the stomach to meet the left gastric artery, which is a branch of the celiac trunk. It subsequently gives off the cystic artery, which feeds the gallbladder, before bifurcating into the right and left hepatic arteries. Of note, the right and left hepatic arteries may demonstrate variant anatomy. A replaced right hepatic artery may arise from the superior mesenteric artery (SMA) and a replaced left hepatic artery may arise from the left gastric artery. EMAPA:37217 @@ -480649,7 +480518,7 @@ Classes for population already exist in IDO ('organism population', I proper hepatic artery - + @@ -480662,7 +480531,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -480699,7 +480568,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480708,7 +480577,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480728,14 +480597,14 @@ Classes for population already exist in IDO ('organism population', I left hepatic artery - + - + FMA @@ -480780,7 +480649,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480789,7 +480658,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -480809,14 +480678,14 @@ Classes for population already exist in IDO ('organism population', I right hepatic artery - + - + FMA @@ -481178,7 +481047,7 @@ Classes for population already exist in IDO ('organism population', I - + A lamina propria that is part of a duodenum. EMAPA:27255 @@ -481192,14 +481061,14 @@ Classes for population already exist in IDO ('organism population', I duodenum lamina propria - + - + FMA @@ -481280,7 +481149,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -481295,7 +481164,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482210,7 +482079,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482233,7 +482102,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0016887 entire extraembryonic component - + @@ -482246,7 +482115,7 @@ Classes for population already exist in IDO ('organism population', I - + AEO @@ -482798,7 +482667,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482814,14 +482683,14 @@ Classes for population already exist in IDO ('organism population', I skeletal musculature - + - + MA @@ -482961,7 +482830,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -482976,7 +482845,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -484692,7 +484561,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -484706,14 +484575,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0034710 spinal cord ventricular layer - + - + EHDAA2 @@ -484768,12 +484637,14 @@ Classes for population already exist in IDO ('organism population', I Any of the cranial nerves, or their central nervous system analogs (the optic tract, the epiphyseal tract). These analogs are not true nerves, and are instead evaginated sensory afferents emanating from the brain. + uberon cranial nerve fiber bundle cranial nerve fiber tract cranial nerve or tract neuron projection bundle from brain UBERON:0034713 + cranial neuron projection bundle @@ -486222,7 +486093,7 @@ Classes for population already exist in IDO ('organism population', I - + Any of several arteries that arise from the aorta and supply blood to the esophagus. FMA:4149 @@ -486236,7 +486107,7 @@ Classes for population already exist in IDO ('organism population', I esophageal artery - + @@ -486249,7 +486120,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -486624,7 +486495,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -486672,11 +486543,6 @@ Classes for population already exist in IDO ('organism population', I accessory visual structures FMA:76554 - - - - - accessory visual structures Wikipedia:Accessory_visual_structures @@ -486766,7 +486632,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -486782,14 +486648,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0035763 cavity of cardiac chamber - + - + FMA @@ -487269,20 +487135,20 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004070 uberon UBERON:0036072 respiratory primordium epithelium - + - + EHDAA2 @@ -487309,21 +487175,21 @@ Classes for population already exist in IDO ('organism population', I - + EHDAA2:0004071 respiratory primordium associated mesenchyme uberon UBERON:0036073 respiratory primordium mesenchyme - + - + EHDAA2 @@ -487774,7 +487640,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487782,7 +487648,7 @@ Classes for population already exist in IDO ('organism population', I - + Wall of ventricle which is continuous with the wall of aorta. FMA:9556 left ventricular wall @@ -487790,7 +487656,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036285 wall of left ventricle - + @@ -487803,7 +487669,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -487828,7 +487694,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487836,7 +487702,7 @@ Classes for population already exist in IDO ('organism population', I - + Wall of ventricle which is continuous with the wall of pulmonary trunk. FMA:9533 right ventricular wall @@ -487844,7 +487710,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036286 wall of right ventricle - + @@ -487857,7 +487723,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -487890,7 +487756,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -487902,14 +487768,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036288 anterior wall of left ventricle - + - + FMA @@ -488144,7 +488010,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488152,21 +488018,21 @@ Classes for population already exist in IDO ('organism population', I - + FMA:14657 gallbladder wall uberon UBERON:0036343 wall of gallbladder - + - + FMA @@ -488185,7 +488051,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488193,14 +488059,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15089 brachiocephalic arterial wall uberon UBERON:0036351 wall of brachiocephalic artery - + @@ -488213,7 +488079,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488232,7 +488098,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488240,14 +488106,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15090 subclavian arterial wall uberon UBERON:0036352 wall of subclavian artery - + @@ -488260,7 +488126,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488279,7 +488145,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488291,21 +488157,21 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15704 anal canal wall uberon UBERON:0036362 wall of anal canal - + - + FMA @@ -488324,7 +488190,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488332,7 +488198,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA:18211 pulmonary arterial wall @@ -488341,7 +488207,7 @@ Classes for population already exist in IDO ('organism population', I wall of pulmonary artery - + @@ -488354,7 +488220,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488373,7 +488239,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488382,7 +488248,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA:18303 uterine tube wall wall of fallopian tube @@ -488391,7 +488257,7 @@ Classes for population already exist in IDO ('organism population', I UBERON:0036441 wall of uterine tube - + @@ -488404,7 +488270,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488435,7 +488301,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488444,13 +488310,13 @@ Classes for population already exist in IDO ('organism population', I - + FMA:231590 uberon UBERON:0036553 wall of synovial tendon sheath - + @@ -488463,7 +488329,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488476,7 +488342,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488484,14 +488350,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:58098 eyeball wall uberon UBERON:0036925 wall of eyeball - + @@ -488504,7 +488370,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488523,7 +488389,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488531,14 +488397,14 @@ Classes for population already exist in IDO ('organism population', I - + FMA:66284 common carotid arterial wall uberon UBERON:0037094 wall of common carotid artery - + @@ -488551,7 +488417,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -488570,7 +488436,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488578,9 +488444,9 @@ Classes for population already exist in IDO ('organism population', I - - - + + + Wall of organ which has as its parts the endocardium, myocardium , epicardium, and the cardiac septum, surrounded by the pericardial sac proper and is continuous with the walls of the systemic and pulmonary arterial and venous trees. FMA:7274 cardiac wall @@ -488588,15 +488454,15 @@ Classes for population already exist in IDO ('organism population', I UBERON:0037144 wall of heart - + - + - + @@ -488609,19 +488475,19 @@ Classes for population already exist in IDO ('organism population', I - + FMA - + FMA - + FMA @@ -488655,7 +488521,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -488669,14 +488535,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:0039222 cystic artery - + - + FMA Wikipedia @@ -488717,20 +488583,20 @@ Classes for population already exist in IDO ('organism population', I - + FMA:15395 uberon UBERON:0039228 sigmoid vein - + - + FMA @@ -488792,14 +488658,14 @@ Classes for population already exist in IDO ('organism population', I - + Ovarian vein, each instance of which is a tributary of some inferior vena cava that drains the right pampiniform plexus of some broad ligament. FMA:14342 uberon UBERON:0039856 right ovarian vein - + @@ -488812,7 +488678,7 @@ Classes for population already exist in IDO ('organism population', I - + FMA @@ -489010,7 +488876,7 @@ Classes for population already exist in IDO ('organism population', I - + @@ -489026,14 +488892,14 @@ Classes for population already exist in IDO ('organism population', I UBERON:2001053 future internal carotid artery - + - + EHDAA2 @@ -489762,8 +489628,8 @@ Classes for population already exist in IDO ('organism population', I - - + + A collection of Purkinje fibers that receives signals from the right and left bundle branches and innervates the ventricular cardiac muscle. The Purkinje fiber network creates synchronized contractions of the heart ventricles. Purkinje fibre network @@ -489771,11 +489637,11 @@ Classes for population already exist in IDO ('organism population', I UBERON:8000009 Purkinje fiber network - + - + @@ -489790,7 +489656,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -489798,7 +489664,7 @@ Classes for population already exist in IDO ('organism population', I - + https://github.com/obophenotype/uberon/issues/1785 https://orcid.org/0000-0001-5208-3432 https://orcid.org/0000-0002-9791-0064 @@ -489998,7 +489864,7 @@ Classes for population already exist in IDO ('organism population', I Arteriole of villus of small intestine. - http://orcid.org/0000-0003-4183-8865/ + http://orcid.org/0000-0003-4183-8865 @@ -490109,7 +489975,7 @@ Classes for population already exist in IDO ('organism population', I An arteriole located in the colon. http://orcid.org/0000-0003-3440-1876 - http://orcid.org/0000-0003-4183-8865/ + http://orcid.org/0000-0003-4183-8865 @@ -490442,7 +490308,7 @@ Classes for population already exist in IDO ('organism population', I A submucosal gland found in a respiratory tract. - + 2022-03-24T14:21:59Z EFO:0010666 respiratory tract submucosal gland @@ -490593,7 +490459,7 @@ Classes for population already exist in IDO ('organism population', I Blood located in the placenta. - + 2022-04-04T11:06:09Z uberon UBERON:8470000 @@ -490626,7 +490492,7 @@ Classes for population already exist in IDO ('organism population', I A capillary that is part of the brain. - + 2022-06-24T09:28:31Z uberon UBERON:8480001 @@ -490663,7 +490529,7 @@ Classes for population already exist in IDO ('organism population', I A portion of smooth muscle tissue that is part of the thoracic aorta. - + 2022-06-24T09:30:54Z uberon UBERON:8480002 @@ -490702,7 +490568,7 @@ Classes for population already exist in IDO ('organism population', I An endothelium that is part of the placental artery. - + 2022-06-24T09:34:25Z uberon UBERON:8480005 @@ -490734,7 +490600,7 @@ Classes for population already exist in IDO ('organism population', I An artery that is part of the placenta. - + 2022-06-24T11:25:24Z uberon UBERON:8480007 @@ -490766,7 +490632,7 @@ Classes for population already exist in IDO ('organism population', I A vein that is part of the placenta. - + 2022-06-27T09:30:52Z uberon UBERON:8480008 @@ -490803,7 +490669,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is above the clavicle zone in the pectoral girdle region. - + 2022-08-29T14:17:12Z uberon UBERON:8480025 @@ -490840,7 +490706,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is above the iliac crest in the pelvic girdle bone/zone. - + 2022-08-29T14:19:16Z skin of posterior iliac crest region uberon @@ -490879,7 +490745,7 @@ Classes for population already exist in IDO ('organism population', I A zone of skin that is part of the external genitalia. - + 2022-08-30T06:55:06Z uberon UBERON:8480029 @@ -490917,7 +490783,7 @@ Classes for population already exist in IDO ('organism population', I Subserosa that is part of the uterine tube. It contains loose connective tissue, blood vessels and lymphatic tissue. - + 2022-10-21T08:55:11Z subserosa of fallopian tube subserosa of oviduct @@ -490947,6 +490813,72 @@ Classes for population already exist in IDO ('organism population', I + + + + + + + + + + + A muscle tissue that is associated with soft internal organs (viscera). + + 2023-02-16T10:17:46Z + visceral muscle + uberon + UBERON:8600004 + It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated. + visceral muscle tissue + + + + + A muscle tissue that is associated with soft internal organs (viscera). + BTO:0002780 + CLAO:0001295 + + + + + visceral muscle + BTO:0002780 + + + + + It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however, most visceral muscles in arthropods are actually striated. + FBbt:00005070 + https://en.wikipedia.org/wiki/Smooth_muscle + PMID:8720463 + + + + + + + + + + A striated muscle tissue that is associated with soft internal organs (viscera). + + 2023-02-16T10:34:43Z + striated visceral muscle tissue + uberon + UBERON:8600006 + visceral striated muscle tissue + + + + + A striated muscle tissue that is associated with soft internal organs (viscera). + PMID:8720463 + https://pressbooks.pub/rbtallitsch/chapter/chapter-6-muscle-tissue/ + + + +