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The quest for orthologs benchmark service and consensus calls in 2020

dc.contributor.authorAltenhoff, Adrian M
dc.contributor.authorGarrayo Ventas, Javier
dc.contributor.authorConsentino, Salvatore
dc.contributor.authorEmms, David
dc.contributor.authorGlover, Natasha M
dc.contributor.authorHernández Plaza, Ana
dc.contributor.authorNevers, Yannis
dc.contributor.authorSzklarczyk, Damian
dc.contributor.authorFernández González, Jose María
dc.contributor.authorCodó, Laia
dc.contributor.authorGelpi, Josep
dc.contributor.authorHuertas Cepas, Jaime
dc.contributor.authorIwasaki, Wataru
dc.contributor.authorKelly, Steven
dc.contributor.authorLecompte, Odile
dc.contributor.authorMuffato, Matthieu
dc.contributor.authorMartín, María Jesús
dc.contributor.authorCapella Gutiérrez, Salvador
dc.contributor.authorThomas, Paul D.
dc.contributor.authorSonnhammer, Erik
dc.contributor.authorDessimoz, Christophe
dc.contributor.authorthe Quest for Orthologs Consortium
dc.contributor.otherBarcelona Supercomputing Center
dc.date.accessioned2020-05-14T14:24:10Z
dc.date.available2020-05-14T14:24:10Z
dc.date.issued2020-05-06
dc.identifier.citationAltenhoff, A. M. [et al.]. The quest for orthologs benchmark service and consensus calls in 2020. "Nucleic Acids Research", 6 Maig 2020, gkaa308.
dc.identifier.issn1362-4962
dc.identifier.issn0305-1048
dc.identifier.urihttp://hdl.handle.net/2117/187596
dc.description.abstractThe identification of orthologs—genes in different species which descended from the same gene in their last common ancestor—is a prerequisite for many analyses in comparative genomics and molecular evolution. Numerous algorithms and resources have been conceived to address this problem, but benchmarking and interpreting them is fraught with difficulties (need to compare them on a common input dataset, absence of ground truth, computational cost of calling orthologs). To address this, the Quest for Orthologs consortium maintains a reference set of proteomes and provides a web server for continuous orthology benchmarking (http://orthology.benchmarkservice.org). Furthermore, consensus ortholog calls derived from public benchmark submissions are provided on the Alliance of Genome Resources website, the joint portal of NIH-funded model organism databases.
dc.description.sponsorshipService and Infrastructure grant from the Swiss Institute of Bioinformatics [to C.D.]; NSF [1917302 to P.D.T.]; NIH NHGRI [HG002273, HG010859 to P.D.T.]; INB [PT17/0009/0001 - ISCIII-SGEFI/ERDF to J.G.V., V.S., J.M.F., L.C., J.L.G. and S.C.G.]; H2020 ELIXIR-EXCELERATE [676559 to J.G.V., V.S., J.M.F., L.C., J.L.G. and S.C.G]; ELIXIR, the research infrastructure for life-science data [to J.G.V., V.S., J.M.F., L.C., J.L.G. and S.C.G]; Ministerio de Ciencia, Innovación y Universidades [PGC2018-098073-A-I00 MCIU/AEI/FEDER, UE to J.H.C.]; European Union's Horizon 2020 Research and Innovation Programme [686070 to J.H.C. and D.S, and 637765 to D.M.E. and S.K.]; Consejería de Educación, Juventud y Deporte de la Comunidad de Madrid and Fondo Social Europeo [PEJ-2017-AI/TIC-7514 to A.H.P.]; IdEX Unistra in the framework of the Investments for the future program of the French government [to O.L.]; National Institutes of Health (NIH) [U24HG007822 to M.J.M.]; European Molecular Biology Laboratory (EMBL) [core funds to M.J.M and M.M.]; Wellcome Trust [WT108749/Z/15/Z to M.M.]; S.K. is a royal Society University Research Fellow; Swiss National Science Foundation [183723 to C.D.]. Funding for open access charge: Swiss National Science Foundation.
dc.format.extent8 p.
dc.language.isoeng
dc.publisherOxford University Press (OUP)
dc.rightsAttribution 3.0 Spain
dc.rightsAttribution 4.0 International (CC BY 4.0)
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/es/
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectÀrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica
dc.subject.lcshPhylogeny
dc.subject.lcshProteins
dc.subject.lcshGenomics
dc.subject.lcshComparative genomics
dc.subject.otherComparative genomics
dc.subject.otherMolecular evolution
dc.subject.otherOrthologs
dc.subject.otherQuest for Orthologs consortium
dc.subject.otherProteomes
dc.titleThe quest for orthologs benchmark service and consensus calls in 2020
dc.typeArticle
dc.subject.lemacGenòmica -- Informàtica
dc.subject.lemacFilogènia
dc.subject.lemacProteïnes
dc.subject.lemacGenòmica
dc.identifier.doi10.1093/nar/gkaa308
dc.description.peerreviewedPeer Reviewed
dc.relation.publisherversionhttps://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaa308/5831173
dc.rights.accessOpen Access
dc.description.versionPostprint (published version)
dc.relation.projectidinfo:eu-repo/grantAgreement/EC/H2020/676559/EU/ELIXIR-EXCELERATE: Fast-track ELIXIR implementation and drive early user exploitation across the life-sciences./ELIXIR-EXCELERATE
local.citation.othergkaa308
local.citation.publicationNameNucleic Acids Research


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