{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,20]],"date-time":"2026-07-20T11:09:03Z","timestamp":1784545743806,"version":"3.55.0"},"reference-count":34,"publisher":"Oxford University Press (OUP)","issue":"13","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2334,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: PSORTb has remained the most precise bacterial protein subcellular localization (SCL) predictor since it was first made available in 2003. However, the recall needs to be improved and no accurate SCL predictors yet make predictions for archaea, nor differentiate important localization subcategories, such as proteins targeted to a host cell or bacterial hyperstructures\/organelles. Such improvements should preferably be encompassed in a freely available web-based predictor that can also be used as a standalone program.<\/jats:p>\n               <jats:p>Results: We developed PSORTb version 3.0 with improved recall, higher proteome-scale prediction coverage, and new refined localization subcategories. It is the first SCL predictor specifically geared for all prokaryotes, including archaea and bacteria with atypical membrane\/cell wall topologies. It features an improved standalone program, with a new batch results delivery system complementing its web interface. We evaluated the most accurate SCL predictors using 5-fold cross validation plus we performed an independent proteomics analysis, showing that PSORTb 3.0 is the most accurate but can benefit from being complemented by Proteome Analyst predictions.<\/jats:p>\n               <jats:p>Availability: \u00a0http:\/\/www.psort.org\/psortb (download open source software or use the web interface).<\/jats:p>\n               <jats:p>Contact: \u00a0psort-mail@sfu.ca<\/jats:p>\n               <jats:p>Supplementary Information: \u00a0Supplementary data are availableat Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq249","type":"journal-article","created":{"date-parts":[[2010,5,15]],"date-time":"2010-05-15T00:17:52Z","timestamp":1273882672000},"page":"1608-1615","source":"Crossref","is-referenced-by-count":2295,"title":["PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes"],"prefix":"10.1093","volume":"26","author":[{"given":"Nancy Y.","family":"Yu","sequence":"first","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"James R.","family":"Wagner","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matthew R.","family":"Laird","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gabor","family":"Melli","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"S\u00e9bastien","family":"Rey","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Raymond","family":"Lo","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Phuong","family":"Dao","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"S. Cenk","family":"Sahinalp","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martin","family":"Ester","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Leonard J.","family":"Foster","sequence":"additional","affiliation":[{"name":"1 Department of Molecular Biology and Biochemistry, 2 School of Computing Science, Simon Fraser University, Burnaby, BC V5A 1S6 and 3 Centre for High-Throughput Biology and Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fiona S. 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