{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,16]],"date-time":"2025-10-16T20:12:54Z","timestamp":1760645574783},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"22","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2008,11,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: MS-BID (MS Biomarker Discovery Platform) is an integrative computational pipeline for biomarker discovery using LC-MS-based comparative proteomic analysis. This platform consists of several computational tools for: (i) detecting peptides in the collected patterns; (ii) matching detected peptides across a number of LC-MS datasets and (iii) selecting discriminatory peptides between classes of samples.<\/jats:p>\n               <jats:p>Availability: MS-BID source codes, binaries and documentations are freely available under LGPL from http:\/\/tools.proteomecenter.org\/msBID.php.<\/jats:p>\n               <jats:p>Contact: \u00a0dhhwang@postech.ac.kr<\/jats:p>","DOI":"10.1093\/bioinformatics\/btn491","type":"journal-article","created":{"date-parts":[[2008,9,20]],"date-time":"2008-09-20T00:14:03Z","timestamp":1221869643000},"page":"2641-2642","source":"Crossref","is-referenced-by-count":10,"title":["MS-BID: a Java package for label-free LC-MS-based comparative proteomic analysis"],"prefix":"10.1093","volume":"24","author":[{"given":"Daehee","family":"Hwang","sequence":"first","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"},{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ning","family":"Zhang","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hookeun","family":"Lee","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"},{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eugene","family":"Yi","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hui","family":"Zhang","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Inyoul Y.","family":"Lee","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Leroy","family":"Hood","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ruedi","family":"Aebersold","sequence":"additional","affiliation":[{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"},{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"},{"name":"1 Institute for Systems Biology, Seattle, WA 98103, USA, 2I-BIO Program and Department of Chemical Eng., Pohang 790-784, 3LCDI, Gachon University of Medicine and Science, Incheon, Republic of Korea, 4Institute for Molecular Systems Biology, ETH, CH-8093 Z\u00fcrich and 5Faculty of natural science, University of Z\u00fcrich, Z\u00fcrich, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2008,9,19]]},"reference":[{"key":"2023020212224480500_B1","doi-asserted-by":"crossref","first-page":"198","DOI":"10.1038\/nature01511","article-title":"Mass spectrometry-based proteomics","volume":"422","author":"Aebersold","year":"2003","journal-title":"Nature"},{"key":"2023020212224480500_B2","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1074\/mcp.M300127-MCP200","article-title":"The human plasma proteome: a nonredundant list developed by combination of four separate sources","volume":"3","author":"Anderson","year":"2004","journal-title":"Mol. Cell. Proteomics"},{"key":"2023020212224480500_B3","doi-asserted-by":"crossref","DOI":"10.1515\/9780691218632","article-title":"Time Series Analysis","author":"Hamilton","year":"1994"},{"key":"2023020212224480500_B4","doi-asserted-by":"crossref","first-page":"17296","DOI":"10.1073\/pnas.0508647102","article-title":"A data integration methodology for systems biology","volume":"102","author":"Hwang","year":"2005","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"2023020212224480500_B5","doi-asserted-by":"crossref","first-page":"3470","DOI":"10.1002\/pmic.200700057","article-title":"SuperHirn - a novel tool for high resolution LC-MS-based peptide\/protein profiling","volume":"7","author":"Mueller","year":"2007","journal-title":"Proteomics"},{"key":"2023020212224480500_B6","doi-asserted-by":"crossref","first-page":"1459","DOI":"10.1038\/nbt1031","article-title":"A common open representation of mass spectrometry data and its application to proteomics research","volume":"22","author":"Pedrioli","year":"2004","journal-title":"Nat. Biotechnol."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/24\/22\/2641\/49055279\/bioinformatics_24_22_2641.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/24\/22\/2641\/49055279\/bioinformatics_24_22_2641.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T14:45:39Z","timestamp":1675349139000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/24\/22\/2641\/185080"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,9,19]]},"references-count":6,"journal-issue":{"issue":"22","published-print":{"date-parts":[[2008,11,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btn491","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2008,11,15]]},"published":{"date-parts":[[2008,9,19]]}}}