{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,28]],"date-time":"2025-10-28T00:28:47Z","timestamp":1761611327389},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"15","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: We present PIUS, a tool that identifies peptides from tandem mass spectrometry data by analyzing the six-frame translation of a complete genome. It differs from earlier studies that have performed such a genomic search in two ways: (i) it considers a larger search space and (ii) it is designed for natural peptide identification rather than proteomics. Differently from other peptidomics tools designed for genome-wide searches, PIUS does not limit the analysis to a set of sequences that match a list of de novo reconstructions.<\/jats:p>\n               <jats:p>Availability: Source code, executables and a detailed technical report are freely available at http:\/\/dtai.cs.kuleuven.be\/ml\/systems\/pius.<\/jats:p>\n               <jats:p>Contact: \u00a0eduardo.costa@cs.kuleuven.be<\/jats:p>\n               <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt298","type":"journal-article","created":{"date-parts":[[2013,5,25]],"date-time":"2013-05-25T03:49:30Z","timestamp":1369453770000},"page":"1913-1914","source":"Crossref","is-referenced-by-count":6,"title":["PIUS: peptide identification by unbiased search"],"prefix":"10.1093","volume":"29","author":[{"given":"Eduardo P.","family":"Costa","sequence":"first","affiliation":[{"name":"1 Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium, 2Department of Mathematical Modelling, Statistics and Bioinfomatics, Ghent University, Coupure Links 653, B-9000 Ghent, Belgium and 3Department of Pharmaceutical and Pharmacological Sciences, KU Leuven, O&N II Herestraat 49, B-3000 Leuven, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gerben","family":"Menschaert","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium, 2Department of Mathematical Modelling, Statistics and Bioinfomatics, Ghent University, Coupure Links 653, B-9000 Ghent, Belgium and 3Department of Pharmaceutical and Pharmacological Sciences, KU Leuven, O&N II Herestraat 49, B-3000 Leuven, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Walter","family":"Luyten","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium, 2Department of Mathematical Modelling, Statistics and Bioinfomatics, Ghent University, Coupure Links 653, B-9000 Ghent, Belgium and 3Department of Pharmaceutical and Pharmacological Sciences, KU Leuven, O&N II Herestraat 49, B-3000 Leuven, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kurt","family":"De Grave","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium, 2Department of Mathematical Modelling, Statistics and Bioinfomatics, Ghent University, Coupure Links 653, B-9000 Ghent, Belgium and 3Department of Pharmaceutical and Pharmacological Sciences, KU Leuven, O&N II Herestraat 49, B-3000 Leuven, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jan","family":"Ramon","sequence":"additional","affiliation":[{"name":"1 Department of Computer Science, KU Leuven, Celestijnenlaan 200A, B-3001 Heverlee, Belgium, 2Department of Mathematical Modelling, Statistics and Bioinfomatics, Ghent University, Coupure Links 653, B-9000 Ghent, Belgium and 3Department of Pharmaceutical and Pharmacological Sciences, KU Leuven, O&N II Herestraat 49, B-3000 Leuven, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2013,5,24]]},"reference":[{"key":"2023012810450536400_btt298-B1","doi-asserted-by":"crossref","first-page":"1466","DOI":"10.1093\/bioinformatics\/bth092","article-title":"TANDEM: matching proteins with tandem mass spectra","volume":"20","author":"Craig","year":"2004","journal-title":"Bioinformatics"},{"key":"2023012810450536400_btt298-B2","doi-asserted-by":"crossref","first-page":"976","DOI":"10.1016\/1044-0305(94)80016-2","article-title":"An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database","volume":"5","author":"Eng","year":"1994","journal-title":"J. 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