Database-integrated genome-screening (DIGS) is a form of systematic genome screening -in which a sequence similarity search-based screening pipeine is linked to a relational database management +in which a sequence similarity search-based screening pipeline is linked to a relational database management system (RDBMS). This provides a robust foundation for implementing large-scale, automated screens, and allows screening output to be investigated via database-querying.
diff --git a/website/user-guide/explore.html b/website/user-guide/explore.html index 1673d13..f8a4ffb 100644 --- a/website/user-guide/explore.html +++ b/website/user-guide/explore.html @@ -349,160 +349,7 @@
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- Campbell M, Loncar S, Gifford RJ, Kotin R, and RJ Gifford
- (2022)
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- Comparative analysis reveals the long-term co-evolutionary history of parvoviruses and vertebrates.
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- Plos Biology
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- Bamford CGG, de Souza WM, Parry R and RJ Gifford
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- Comparative analysis of genome-encoded viral sequences reveals the evolutionary history of the Flaviviridae.
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- Virus Evolution
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- Wickenhagen A, Sugrue E, Lytras S, Kuchi S, Noerenberg M, Turnbull ML, Loney C, Herder V, Allan J, Jarmson I, Cameron-Ruiz N, Varjak M, Pinto RM, Lee JY, Iselin L, Palmalux N, Stewart DG, Swingler S, Greenwood EJD, Crozier TWM, Gu Q, Davies EL, Clohisey S, Wang B, Trindade Maranhão Costa F, Freire Santana M, de Lima Ferreira LC, Murphy L, Fawkes A, Meynert A, Grimes G, Da Silva Filho JL, Marti M, Hughes J, Stanton RJ, Wang ECY, Ho A, Davis I, Jarrett RF, Castello A, Robertson DL, Semple MG, Openshaw PJM, Palmarini M, Lehner PJ, Baillie JK, Rihn SJ, and SJ Wilson
- (2021)
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- A prenylated dsRNA sensor protects against severe COVID-19.
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- Science
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- Lytras S, Arriagada G, and RJ Gifford
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- Ancient evolution of hepadnaviral paleoviruses and their impact on host genomes.
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- Virus Evolution
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- Hildebrandt E, Penzes J, Gifford RJ, Agbandje-Mckenna M, and R Kotin
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- Evolution of dependoparvoviruses across geological timescales – implications for design of AAV-based gene therapy vectors.
- Virus Evolution
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- Pénzes JJ, de Souza WM, Agbandje-Mckenna M, and RJ Gifford
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- An ancient lineage of highly divergent parvoviruses infects both vertebrate and invertebrate hosts.
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- Viruses
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- Ito J, Gifford RJ, and Kei Sato
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- Retroviruses drive the rapid evolution of mammalian APOBEC3 genes.
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- PNAS
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- Shaw AE, Hughes J, Gu Q, Behdenna A, Singer J, Dennis T, Orton RJ, Varela M, Gifford RJ, Wilson SJ and M Palmarini
- (2017)
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- Fundamental properties of the mammalian innate immune system revealed by multi-species comparison of type I interferon responses.
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- Plos Biology
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- Hron T, Elleder D, and RJ Gifford
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- Deltaretroviruses have circulated since at least the Paleogene and infected a broad range of mammalian species.
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- Retrovirology
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- Pénzes JJ, Marsile-Medun S, Agbandje-McKenna M, and RJ Gifford
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- Endogenous amdoparvovirus-related elements reveal insights into the biology and evolution of vertebrate parvoviruses.
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- Virus Evolution
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- Blanco Melo D, Gifford RJ, and P. Bieniasz
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- Reconstruction of a replication-competent ancestral murine endogenous retrovirus-L.
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- Retrovirology
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- Dennis TPW, Flynn PJ, de Souza WM, Singer JB, Moreau CS, Wilson SJ, and RJ Gifford
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- Insights into circovirus host range from the genomic fossil record.
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- Journal of Virology
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- Dennis TPW, de Souza WM, Marsile-Medun S, Singer JB, Wilson SJ, and RJ Gifford
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- The evolution, distribution and diversity of endogenous circoviral elements in vertebrate genomes.
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- Virus Research
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- Blanco-Melo D, Gifford RJ, and PD Bieniasz
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- Co-option of an endogenous retrovirus envelope for host defense in hominid ancestors.
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- Elife
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