{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,8]],"date-time":"2025-12-08T22:40:00Z","timestamp":1765233600526,"version":"3.41.2"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2023,9,6]],"date-time":"2023-09-06T00:00:00Z","timestamp":1693958400000},"content-version":"vor","delay-in-days":5,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Ministero dell\u2019Istruzione, dell\u2019Universit\u00e0 e della Ricerca, PON","award":["DOT1319403-4"],"award-info":[{"award-number":["DOT1319403-4"]}]},{"name":"Universit\u00e0 degli Studi di Padova, Italy","award":["DOR2020"],"award-info":[{"award-number":["DOR2020"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,9,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Defining the full domain of protein functions belonging to an organism is a complex challenge that is due to the huge heterogeneity of the taxonomy, where single or small groups of species can bear unique functional characteristics. FunTaxIS-lite provides a solution to this challenge by determining taxon-based constraints on Gene Ontology (GO) terms, which specify the functions that an organism can or cannot perform. The tool employs a set of rules to generate and spread the constraints across both the taxon hierarchy and the GO graph.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>The taxon-based constraints produced by FunTaxIS-lite extend those provided by the Gene Ontology Consortium by an average of 300%. The implementation of these rules significantly reduces errors in function predictions made by automatic algorithms and can assist in correcting inconsistent protein annotations in databases.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>FunTaxIS-lite is available on https:\/\/www.medcomp.medicina.unipd.it\/funtaxis-lite and from https:\/\/github.com\/MedCompUnipd\/FunTaxIS-lite.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btad549","type":"journal-article","created":{"date-parts":[[2023,9,5]],"date-time":"2023-09-05T13:30:33Z","timestamp":1693920633000},"source":"Crossref","is-referenced-by-count":2,"title":["FunTaxIS-lite: a simple and light solution to investigate protein functions in all living organisms"],"prefix":"10.1093","volume":"39","author":[{"given":"Federico","family":"Bianca","sequence":"first","affiliation":[{"name":"Computational Medicine Group (MedComp), Department of Molecular Medicine, University of Padova , Padova, Italy"}]},{"given":"Emilio","family":"Ispano","sequence":"additional","affiliation":[{"name":"Computational Medicine Group (MedComp), Department of Molecular Medicine, University of Padova , Padova, Italy"}]},{"given":"Ermanno","family":"Gazzola","sequence":"additional","affiliation":[{"name":"Computational Medicine Group (MedComp), Department of Molecular Medicine, University of Padova , Padova, Italy"}]},{"given":"Enrico","family":"Lavezzo","sequence":"additional","affiliation":[{"name":"Computational Medicine Group (MedComp), Department of Molecular Medicine, University of Padova , Padova, Italy"}]},{"given":"Paolo","family":"Fontana","sequence":"additional","affiliation":[{"name":"Research and Innovation Center, Edmund Mach Foundation, San Michele all'Adige , Trento, Italy"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0246-3119","authenticated-orcid":false,"given":"Stefano","family":"Toppo","sequence":"additional","affiliation":[{"name":"Computational Medicine Group (MedComp), Department of Molecular Medicine, University of Padova , Padova, Italy"}]}],"member":"286","published-online":{"date-parts":[[2023,9,6]]},"reference":[{"key":"2023091404595872000_btad549-B1","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: tool for the unification of biology","volume":"25","author":"Ashburner","year":"2000","journal-title":"Nat Genet"},{"key":"2023091404595872000_btad549-B2","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1038\/nmeth.3176","article-title":"Fast and sensitive protein alignment using DIAMOND","volume":"12","author":"Buchfink","year":"2015","journal-title":"Nat 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Biol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btad549\/51387343\/btad549.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/39\/9\/btad549\/51546700\/btad549.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/39\/9\/btad549\/51546700\/btad549.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,9,14]],"date-time":"2023-09-14T05:38:26Z","timestamp":1694669906000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/doi\/10.1093\/bioinformatics\/btad549\/7261514"}},"subtitle":[],"editor":[{"given":"Peter","family":"Robinson","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2023,9,1]]},"references-count":9,"journal-issue":{"issue":"9","published-print":{"date-parts":[[2023,9,2]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btad549","relation":{},"ISSN":["1367-4811"],"issn-type":[{"type":"electronic","value":"1367-4811"}],"subject":[],"published-other":{"date-parts":[[2023,9,1]]},"published":{"date-parts":[[2023,9,1]]},"article-number":"btad549"}}