Skip to content

Commit

Permalink
Fixes #2675 (#2762)
Browse files Browse the repository at this point in the history 
Added developmnetal liniages for intestinal epithelial cells + added references to support the new logical axiom
  • Loading branch information
@Caroline-99
Caroline-99 authored Nov 28, 2024
1 parent 1ca7174 commit a2fe8c6
Showing 1 changed file with 9 additions and 5 deletions.
14 changes: 9 additions & 5 deletions src/ontology/cl-edit.owl
View file
Original file line number Diff line number Diff line change
Expand Up @@ -7858,16 +7858,16 @@ SubClassOf(obo:CL_0000509 obo:CL_0000167)

# Class: obo:CL_0000510 (paneth cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:0517223651") Annotation(oboInOwl:hasDbXref "MESH:D019879") Annotation(oboInOwl:hasDbXref "PMID:29184701") Annotation(oboInOwl:hasDbXref "PMID:32308658") obo:IAO_0000115 obo:CL_0000510 "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:tfm") Annotation(oboInOwl:hasDbXref "ISBN:0517223651") Annotation(oboInOwl:hasDbXref "MESH:D019879") Annotation(oboInOwl:hasDbXref "PMID:29184701") Annotation(oboInOwl:hasDbXref "PMID:32308658") Annotation(oboInOwl:hasDbXref "PMID:33484640") obo:IAO_0000115 obo:CL_0000510 "An epithelial cell found in the basal part of the intestinal glands (crypts of Lieberkuhn) including the appendix. Paneth cells synthesize and secrete lysozyme and cryptdins. Numerous in the deeper parts of the intestinal crypts, particularly in the duodenum, rich in zinc, contain large acidophilic granules, with irregular apical microvilli and prominent membrane-bound vacuoles containing matrix.")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000510 "BTO:0000993")
AnnotationAssertion(oboInOwl:hasDbXref obo:CL_0000510 "FMA:62897")
AnnotationAssertion(rdfs:label obo:CL_0000510 "paneth cell")
SubClassOf(Annotation(oboInOwl:is_inferred "true") obo:CL_0000510 obo:CL_0000066)
SubClassOf(obo:CL_0000510 obo:CL_0000323)
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277))
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001983))
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0011184))
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005773))
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:BFO_0000051 obo:GO_0005902))
SubClassOf(obo:CL_0000510 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_4047017))

# Class: obo:CL_0000511 (androgen binding protein secreting cell)

Expand Down Expand Up @@ -8596,6 +8596,7 @@ AnnotationAssertion(rdfs:label obo:CL_0000584 "enterocyte")
SubClassOf(obo:CL_0000584 obo:CL_0000239)
SubClassOf(obo:CL_0000584 obo:CL_0000677)
SubClassOf(obo:CL_0000584 obo:CL_0002563)
SubClassOf(obo:CL_0000584 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_4047019))

# Class: obo:CL_0000585 (obsolete null cell)

Expand Down Expand Up @@ -24948,21 +24949,23 @@ EquivalentClasses(obo:CL_0019029 ObjectIntersectionOf(obo:CL_0000182 ObjectSomeV

# Class: obo:CL_0019031 (intestine goblet cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") Annotation(oboInOwl:hasDbXref "PMID:24942678") obo:IAO_0000115 obo:CL_0019031 "Goblet cells reside throughout the length of the small and large intestine and are responsible for the production and maintenance of the protective mucus blanket by synthesizing and secreting high-molecular-weight glycoproteins known as mucins. Human intestinal goblet cells secrete the MUC2 mucin, as well as a number of typical mucus components: CLCA1, FCGBP, AGR2, ZG16, and TFF3.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") Annotation(oboInOwl:hasDbXref "PMID:24942678") Annotation(oboInOwl:hasDbXref "PMID:33484640") obo:IAO_0000115 obo:CL_0019031 "Goblet cells reside throughout the length of the small and large intestine and are responsible for the production and maintenance of the protective mucus blanket by synthesizing and secreting high-molecular-weight glycoproteins known as mucins. Human intestinal goblet cells secrete the MUC2 mucin, as well as a number of typical mucus components: CLCA1, FCGBP, AGR2, ZG16, and TFF3.")
AnnotationAssertion(terms:contributor obo:CL_0019031 <https://orcid.org/0000-0003-2034-601X>)
AnnotationAssertion(terms:date obo:CL_0019031 "2020-10-14T14:59:07Z"^^xsd:dateTime)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:1996606") oboInOwl:hasExactSynonym obo:CL_0019031 "intestinal goblet cell")
AnnotationAssertion(rdfs:label obo:CL_0019031 "intestine goblet cell"@en)
EquivalentClasses(obo:CL_0019031 ObjectIntersectionOf(obo:CL_0000160 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277)))
SubClassOf(obo:CL_0019031 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_4047017))

# Class: obo:CL_0019032 (intestinal tuft cell)

AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22527717") obo:IAO_0000115 obo:CL_0019032 "Any brush cell that is part of the intestinal epithelium.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22527717") Annotation(oboInOwl:hasDbXref "PMID:39358509") obo:IAO_0000115 obo:CL_0019032 "Any brush cell that is part of the intestinal epithelium.")
AnnotationAssertion(terms:contributor obo:CL_0019032 <https://orcid.org/0000-0003-2034-601X>)
AnnotationAssertion(terms:date obo:CL_0019032 "2020-10-15T12:47:46Z"^^xsd:dateTime)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:22527717") oboInOwl:hasExactSynonym obo:CL_0019032 "intestinal brush cell")
AnnotationAssertion(rdfs:label obo:CL_0019032 "intestinal tuft cell"@en)
EquivalentClasses(obo:CL_0019032 ObjectIntersectionOf(obo:CL_0002204 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001277)))
SubClassOf(obo:CL_0019032 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0002250))

# Class: obo:CL_0700009 (obsolete kidney collecting duct beta-intercalated cell)

Expand Down Expand Up @@ -27882,6 +27885,7 @@ SubClassOf(obo:CL_1001509 obo:CL_0000540)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "MP:0010802") obo:IAO_0000115 obo:CL_1001516 "The various hormone- or neurotransmitter-secreting cells present throughout the mucosa of the intestinal tract.")
AnnotationAssertion(rdfs:label obo:CL_1001516 "intestinal enteroendocrine cell")
EquivalentClasses(obo:CL_1001516 ObjectIntersectionOf(obo:CL_0000164 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0001242)))
SubClassOf(obo:CL_1001516 ObjectSomeValuesFrom(obo:RO_0002207 obo:CL_4052006))

# Class: obo:CL_1001517 (stomach enteroendocrine cell)

Expand Down

0 comments on commit a2fe8c6

Please sign in to comment.