The Quest for Orthologs orthology benchmark service in 2022
Yannis Nevers, Tamsin E. M. Jones, Dushyanth Jyothi, Bethan Yates, Meritxell Ferret, Laura Portell-Silva, Laia Codó, Salvatore Cosentino, Marina Marcet‐Houben, Anna Vlasova, Laetitia Poidevin, Arnaud Kress, Mark Hickman, Emma Persson, Ivana Piližota, Cristina Guijarro-Clarke, Adrian Altenhoff, Elspeth A Bruford, Salvatore Cosentino, Christophe Dessimoz, Ingo Ebersberger, David Emms, Toni Gabaldón, Natasha Glover, Cristina Guijarro-Clarke, Mark Hickman, Yanhui Hu, Wataru Iwasaki, Tamsin E M Jones, Dushyanth Jyothi, Arnaud Kress, Odile Lecompte, Benjamin Linard, Marina Marcet‐Houben, María Martin, Yannis Nevers, Emma Persson, Ivana Piližota, Laetitia Poidevin, David S. Roos, Erik Sonhammer, Paul D. Thomas, David Thybert, Klaas Vandepoele, Anna Vlasova, Bethan Yates, Salvador Capella-Gutiérrez, Laia Codó, Meritxell Ferret, Asier Gonzalez‐Uriarte, Javier Garrayo-Ventas, Laura Portell-Silva, Dmitry Repchevsky, Vicky Sundesha, Wataru Iwasaki, Odile Lecompte, Erik L. L. Sonnhammer, David S. Roos, Toni Gabaldón, David Thybert, Paul D. Thomas, Yanhui Hu, David Emms, Elspeth A. Bruford, Salvador Capella-Gutiérrez, María Martin, Christophe Dessimoz, Adrian Altenhoff
Abstract
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.