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The Quest for Orthologs orthology benchmark service in 2022

The Orthology Benchmark Service (https://orthology.benchmarkservice.org) is the gold standard for orthology inference evaluation, supported and maintained by the Quest for Orthologs consortium. It is an essential resource to compare existing and new methods of orthology inference (the bedrock for ma...

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Autores principales: Nevers, Yannis, Jones, Tamsin E M, Jyothi, Dushyanth, Yates, Bethan, Ferret, Meritxell, Portell-Silva, Laura, Codo, Laia, Cosentino, Salvatore, Marcet-Houben, Marina, Vlasova, Anna, Poidevin, Laetitia, Kress, Arnaud, Hickman, Mark, Persson, Emma, Piližota, Ivana, Guijarro-Clarke, Cristina, Iwasaki, Wataru, Lecompte, Odile, Sonnhammer, Erik, Roos, David S, Gabaldón, Toni, Thybert, David, Thomas, Paul D, Hu, Yanhui, Emms, David M, Bruford, Elspeth, Capella-Gutierrez, Salvador, Martin, Maria J, Dessimoz, Christophe, Altenhoff, Adrian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252809/
https://www.ncbi.nlm.nih.gov/pubmed/35552456
http://dx.doi.org/10.1093/nar/gkac330
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author Nevers, Yannis
Jones, Tamsin E M
Jyothi, Dushyanth
Yates, Bethan
Ferret, Meritxell
Portell-Silva, Laura
Codo, Laia
Cosentino, Salvatore
Marcet-Houben, Marina
Vlasova, Anna
Poidevin, Laetitia
Kress, Arnaud
Hickman, Mark
Persson, Emma
Piližota, Ivana
Guijarro-Clarke, Cristina
Iwasaki, Wataru
Lecompte, Odile
Sonnhammer, Erik
Roos, David S
Gabaldón, Toni
Thybert, David
Thomas, Paul D
Hu, Yanhui
Emms, David M
Bruford, Elspeth
Capella-Gutierrez, Salvador
Martin, Maria J
Dessimoz, Christophe
Altenhoff, Adrian
author_facet Nevers, Yannis
Jones, Tamsin E M
Jyothi, Dushyanth
Yates, Bethan
Ferret, Meritxell
Portell-Silva, Laura
Codo, Laia
Cosentino, Salvatore
Marcet-Houben, Marina
Vlasova, Anna
Poidevin, Laetitia
Kress, Arnaud
Hickman, Mark
Persson, Emma
Piližota, Ivana
Guijarro-Clarke, Cristina
Iwasaki, Wataru
Lecompte, Odile
Sonnhammer, Erik
Roos, David S
Gabaldón, Toni
Thybert, David
Thomas, Paul D
Hu, Yanhui
Emms, David M
Bruford, Elspeth
Capella-Gutierrez, Salvador
Martin, Maria J
Dessimoz, Christophe
Altenhoff, Adrian
author_sort Nevers, Yannis
collection PubMed
description The Orthology Benchmark Service (https://orthology.benchmarkservice.org) is the gold standard for orthology inference evaluation, supported and maintained by the Quest for Orthologs consortium. It is an essential resource to compare existing and new methods of orthology inference (the bedrock for many comparative genomics and phylogenetic analysis) over a standard dataset and through common procedures. The Quest for Orthologs Consortium is dedicated to maintaining the resource up to date, through regular updates of the Reference Proteomes and increasingly accessible data through the OpenEBench platform. For this update, we have added a new benchmark based on curated orthology assertion from the Vertebrate Gene Nomenclature Committee, and provided an example meta-analysis of the public predictions present on the platform.
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spelling pubmed-92528092022-07-05 The Quest for Orthologs orthology benchmark service in 2022 Nevers, Yannis Jones, Tamsin E M Jyothi, Dushyanth Yates, Bethan Ferret, Meritxell Portell-Silva, Laura Codo, Laia Cosentino, Salvatore Marcet-Houben, Marina Vlasova, Anna Poidevin, Laetitia Kress, Arnaud Hickman, Mark Persson, Emma Piližota, Ivana Guijarro-Clarke, Cristina Iwasaki, Wataru Lecompte, Odile Sonnhammer, Erik Roos, David S Gabaldón, Toni Thybert, David Thomas, Paul D Hu, Yanhui Emms, David M Bruford, Elspeth Capella-Gutierrez, Salvador Martin, Maria J Dessimoz, Christophe Altenhoff, Adrian Nucleic Acids Res Web Server Issue The Orthology Benchmark Service (https://orthology.benchmarkservice.org) is the gold standard for orthology inference evaluation, supported and maintained by the Quest for Orthologs consortium. It is an essential resource to compare existing and new methods of orthology inference (the bedrock for many comparative genomics and phylogenetic analysis) over a standard dataset and through common procedures. The Quest for Orthologs Consortium is dedicated to maintaining the resource up to date, through regular updates of the Reference Proteomes and increasingly accessible data through the OpenEBench platform. For this update, we have added a new benchmark based on curated orthology assertion from the Vertebrate Gene Nomenclature Committee, and provided an example meta-analysis of the public predictions present on the platform. Oxford University Press 2022-05-12 /pmc/articles/PMC9252809/ /pubmed/35552456 http://dx.doi.org/10.1093/nar/gkac330 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Web Server Issue
Nevers, Yannis
Jones, Tamsin E M
Jyothi, Dushyanth
Yates, Bethan
Ferret, Meritxell
Portell-Silva, Laura
Codo, Laia
Cosentino, Salvatore
Marcet-Houben, Marina
Vlasova, Anna
Poidevin, Laetitia
Kress, Arnaud
Hickman, Mark
Persson, Emma
Piližota, Ivana
Guijarro-Clarke, Cristina
Iwasaki, Wataru
Lecompte, Odile
Sonnhammer, Erik
Roos, David S
Gabaldón, Toni
Thybert, David
Thomas, Paul D
Hu, Yanhui
Emms, David M
Bruford, Elspeth
Capella-Gutierrez, Salvador
Martin, Maria J
Dessimoz, Christophe
Altenhoff, Adrian
The Quest for Orthologs orthology benchmark service in 2022
title The Quest for Orthologs orthology benchmark service in 2022
title_full The Quest for Orthologs orthology benchmark service in 2022
title_fullStr The Quest for Orthologs orthology benchmark service in 2022
title_full_unstemmed The Quest for Orthologs orthology benchmark service in 2022
title_short The Quest for Orthologs orthology benchmark service in 2022
title_sort quest for orthologs orthology benchmark service in 2022
topic Web Server Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252809/
https://www.ncbi.nlm.nih.gov/pubmed/35552456
http://dx.doi.org/10.1093/nar/gkac330
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