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MetaPhOrs 2.0: integrative, phylogeny-based inference of orthology and paralogy across the tree of life
dc.contributor.author | Chorostecki, Uciel |
dc.contributor.author | Molina, Manuel |
dc.contributor.author | Pryszcz, Leszek P. |
dc.contributor.author | Gabaldon, Toni |
dc.contributor.other | Barcelona Supercomputing Center |
dc.date.accessioned | 2020-05-05T14:11:37Z |
dc.date.available | 2020-05-05T14:11:37Z |
dc.date.issued | 2020-04-28 |
dc.identifier.citation | Chorostecki, U. [et al.]. MetaPhOrs 2.0: integrative, phylogeny-based inference of orthology and paralogy across the tree of life. "Nucleic Acids Research", 28 Abril 2020. |
dc.identifier.issn | 0305-1048 |
dc.identifier.uri | http://hdl.handle.net/2117/186376 |
dc.description.abstract | Inferring homology relationships across genes in different species is a central task in comparative genomics. Therefore, a large number of resources and methods have been developed over the years. Some public databases include phylogenetic trees of homologous gene families which can be used to further differentiate homology relationships into orthology and paralogy. MetaPhOrs is a web server that integrates phylogenetic information from different sources to provide orthology and paralogy relationships based on a common phylogeny-based predictive algorithm and associated with a consistency-based confidence score. Here we describe the latest version of the web server which includes major new implementations and provides orthology and paralogy relationships derived from ∼8.2 million gene family trees—from 13 different source repositories across ∼4000 species with sequenced genomes. MetaPhOrs server is freely available, without registration, at http://orthology.phylomedb.org/ |
dc.description.sponsorship | H2020 Marie Skłodowska-Curie Actions [H2020-MSCA-IF-2017-793699 to U.C.]; Spanish Ministry of Economy, Industry, and Competitiveness (MEIC) [PGC2018-099921-B-I00]; CERCA Programme/Generalitat de Catalunya; Catalan Research Agency (AGAUR) SGR423; European Union's Horizon 2020 Research and Innovation Programme [ERC-2016-724173]; INB [PT17/0009/0023 - ISCIII-SGEFI/ERDF to T.G.]. Funding for open access charge: H2020Grant. |
dc.format.extent | 5 p. |
dc.language.iso | eng |
dc.publisher | Oxford University Press (OUP) |
dc.rights | Attribution-NonCommercial-NoDerivs 3.0 Spain |
dc.rights | Attribution-NonCommercial 4.0 International (CC BY-NC 4.0) |
dc.rights.uri | http://creativecommons.org/licenses/by-nc-nd/3.0/es/ |
dc.source.uri | https://creativecommons.org/licenses/by-nc/4.0/ |
dc.subject | Àrees temàtiques de la UPC::Ciències de la salut |
dc.subject.lcsh | Algorithms |
dc.subject.lcsh | Web servers |
dc.subject.lcsh | Comparative genomics |
dc.subject.other | Comparative genomics |
dc.subject.other | Phylogenetic information |
dc.subject.other | Orthology relationships |
dc.subject.other | Paralogy relationships |
dc.subject.other | Web server |
dc.title | MetaPhOrs 2.0: integrative, phylogeny-based inference of orthology and paralogy across the tree of life |
dc.type | Article |
dc.subject.lemac | Genòmica -- Models matemàtics |
dc.subject.lemac | Genòmica -- Informàtica |
dc.subject.lemac | Algorismes |
dc.subject.lemac | Servidors web |
dc.identifier.doi | 10.1093/nar/gkaa282 |
dc.description.peerreviewed | Peer Reviewed |
dc.relation.publisherversion | https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkaa282/5826172#202962029 |
dc.rights.access | Open Access |
dc.description.version | Postprint (author's final draft) |
dc.relation.projectid | info:eu-repo/grantAgreement/EC/H2020/793699/EU/Not one but many: adopting structural flexibility in the analysis of the evolution of lncRNAs./MULTI_FOLDS |
local.citation.publicationName | Nucleic Acids Research |
local.citation.volume | 48 |
local.citation.number | W1 |
local.citation.startingPage | W553 |
local.citation.endingPage | W557 |
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