{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,9]],"date-time":"2026-01-09T12:18:17Z","timestamp":1767961097962,"version":"3.49.0"},"reference-count":39,"publisher":"Oxford University Press (OUP)","issue":"11","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,6,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Motivation: Knowing the localization of a protein within the cell helps elucidate its role in biological processes, its function and its potential as a drug target. Thus, subcellular localization prediction is an active research area. Numerous localization prediction systems are described in the literature; some focus on specific localizations or organisms, while others attempt to cover a wide range of localizations.<\/jats:p><jats:p>Results: We introduce SherLoc, a new comprehensive system for predicting the localization of eukaryotic proteins. It integrates several types of sequence and text-based features. While applying the widely used support vector machines (SVMs), SherLoc\u2019s main novelty lies in the way in which it selects its text sources and features, and integrates those with sequence-based features. We test SherLoc on previously used datasets, as well as on a new set devised specifically to test its predictive power, and show that SherLoc consistently improves on previous reported results. We also report the results of applying SherLoc to a large set of yet-unlocalized proteins.<\/jats:p><jats:p>Availability: SherLoc, along with Supplementary Information, is available at: http:\/\/www-bs.informatik.uni-tuebingen.de\/Services\/SherLoc\/<\/jats:p><jats:p>Contact: shatkay@cs.queensu.ca<\/jats:p><jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm115","type":"journal-article","created":{"date-parts":[[2007,3,29]],"date-time":"2007-03-29T00:32:41Z","timestamp":1175128361000},"page":"1410-1417","source":"Crossref","is-referenced-by-count":98,"title":["SherLoc: high-accuracy prediction of protein subcellular localization by integrating text and protein sequence data"],"prefix":"10.1093","volume":"23","author":[{"given":"Hagit","family":"Shatkay","sequence":"first","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Annette","family":"H\u00f6glund","sequence":"additional","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Scott","family":"Brady","sequence":"additional","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Torsten","family":"Blum","sequence":"additional","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pierre","family":"D\u00f6nnes","sequence":"additional","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Oliver","family":"Kohlbacher","sequence":"additional","affiliation":[{"name":"1 School of Computing, Queen\u2019s University, Kingston, Ontario, Canada and 2Division for Simulation of Biological Systems, ZBIT\/WSI, University of T\u00fcbingen, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2007,3,28]]},"reference":[{"key":"2023041104583897400_","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1093\/nar\/28.1.45","article-title":"The SWISS-PROT protein sequence database and its supplement in TrEMBL in 2000","volume":"28","author":"Bairoch","year":"2000","journal-title":"Nucleic Acids Res"},{"key":"2023041104583897400_","first-page":"3583","article-title":"PROSITE: recent developments","volume":"22","author":"Bairoch","year":"1994","journal-title":"Nucleic Acids Res"},{"key":"2023041104583897400_","doi-asserted-by":"crossref","first-page":"298","DOI":"10.1093\/bioinformatics\/18.2.298","article-title":"Extensive feature detection of N-terminal protein sorting signals","volume":"18","author":"Bannai","year":"2002","journal-title":"Bioinformatics"},{"key":"2023041104583897400_","doi-asserted-by":"crossref","first-page":"1087","DOI":"10.1101\/gad.8.9.1087","article-title":"Large-scale analysis of gene expression, protein localization and gene disruption in Saccharomyces cerevisiae","volume":"8","author":"Burns","year":"1994","journal-title":"Genes Dev"},{"key":"2023041104583897400_","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1016\/j.bbrc.2004.08.113","article-title":"Predicting 22 protein localizations in budding yeast","volume":"323","author":"Cai","year":"2004","journal-title":"Biochem. 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