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In addition, PhylomeDB trees and alignments can be downloaded for further processing to detect and date gene duplication events, infer past events of inter-species hybridization and horizontal gene transfer, as well as to uncover footprints of selection, introgression, gene conversion, or other relevant evolutionary processes in the genes and organisms of interest. Here, we describe the latest evolution of PhylomeDB (version 5). This new version includes a newly implemented web interface and several new functionalities such as optimized searching procedures, the possibility to create user-defined phylome collections, and a fully redesigned data structure. This release also represents a significant core data expansion, with the database providing access to 534 phylomes, comprising over 8 million trees, and homology relationships for genes in over 6000 species. This makes PhylomeDB the largest and most comprehensive public repository of gene phylogenies. PhylomeDB is available at http:\/\/www.phylomedb.org.<\/jats:p>","DOI":"10.1093\/nar\/gkab966","type":"journal-article","created":{"date-parts":[[2021,10,6]],"date-time":"2021-10-06T17:23:20Z","timestamp":1633541000000},"page":"D1062-D1068","source":"Crossref","is-referenced-by-count":74,"title":["PhylomeDB V5: an expanding repository for genome-wide catalogues of annotated gene phylogenies"],"prefix":"10.1093","volume":"50","author":[{"given":"Diego","family":"Fuentes","sequence":"first","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"},{"name":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Baldiri Reixac\u00a010, 08028 Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manuel","family":"Molina","sequence":"additional","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"},{"name":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Baldiri Reixac\u00a010, 08028 Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2229-6853","authenticated-orcid":false,"given":"Uciel","family":"Chorostecki","sequence":"additional","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"},{"name":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Baldiri Reixac\u00a010, 08028 Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0309-604X","authenticated-orcid":false,"given":"Salvador","family":"Capella-Guti\u00e9rrez","sequence":"additional","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marina","family":"Marcet-Houben","sequence":"additional","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"},{"name":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Baldiri Reixac\u00a010, 08028 Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0019-1735","authenticated-orcid":false,"given":"Toni","family":"Gabald\u00f3n","sequence":"additional","affiliation":[{"name":"Barcelona Supercomputing Centre (BSC-CNS). Jordi Girona\u00a029, 08034\u00a0Barcelona, Spain"},{"name":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Baldiri Reixac\u00a010, 08028 Barcelona, Spain"},{"name":"Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2021,10,30]]},"reference":[{"key":"2022010507364949200_B1","doi-asserted-by":"crossref","first-page":"117693430500100004","DOI":"10.1177\/117693430500100004","article-title":"Evolution of proteins and proteomes: a phylogenetics approach","volume":"1","author":"Gabald\u00f3n","year":"2005","journal-title":"Evol. Bioinform. 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