{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,8,6]],"date-time":"2024-08-06T02:34:23Z","timestamp":1722911663935},"reference-count":31,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2008,1,7]],"date-time":"2008-01-07T00:00:00Z","timestamp":1199664000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2008,12]]},"DOI":"10.1186\/1471-2105-9-4","type":"journal-article","created":{"date-parts":[[2008,1,8]],"date-time":"2008-01-08T02:22:58Z","timestamp":1199758978000},"source":"Crossref","is-referenced-by-count":5,"title":["An open-source representation for 2-DE-centric proteomics and support infrastructure for data storage and analysis"],"prefix":"10.1186","volume":"9","author":[{"given":"Romesh","family":"Stanislaus","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"John M","family":"Arthur","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Balaji","family":"Rajagopalan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rick","family":"Moerschell","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brian","family":"McGlothlen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jonas S","family":"Almeida","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2008,1,7]]},"reference":[{"issue":"10","key":"1989_CR1","doi-asserted-by":"publisher","first-page":"2656","DOI":"10.1002\/pmic.200402048","volume":"5","author":"Q Fu","year":"2005","unstructured":"Fu Q, Garnham CP, Elliott ST, Bovenkamp DE, Van Eyk JE: A robust, streamlined, and reproducible method for proteomic analysis of serum by delipidation, albumin and IgG depletion, and two-dimensional gel electrophoresis. Proteomics 2005, 5(10):2656\u20132664. 10.1002\/pmic.200402048","journal-title":"Proteomics"},{"issue":"12","key":"1989_CR2","doi-asserted-by":"publisher","first-page":"3665","DOI":"10.1002\/pmic.200401031","volume":"4","author":"A Gorg","year":"2004","unstructured":"Gorg A, Weiss W, Dunn MJ: Current two-dimensional electrophoresis technology for proteomics. Proteomics 2004, 4(12):3665\u20133685. 10.1002\/pmic.200401031","journal-title":"Proteomics"},{"issue":"11","key":"1989_CR3","doi-asserted-by":"publisher","first-page":"1459","DOI":"10.1038\/nbt1031","volume":"22","author":"PG Pedrioli","year":"2004","unstructured":"Pedrioli PG, Eng JK, Hubley R, Vogelzang M, Deutsch EW, Raught B, Pratt B, Nilsson E, Angeletti RH, Apweiler R, Cheung K, Costello CE, Hermjakob H, Huang S, Julian RK, Kapp E, McComb ME, Oliver SG, Omenn G, Paton NW, Simpson R, Smith R, Taylor CF, Zhu W, Aebersold R: A common open representation of mass spectrometry data and its application to proteomics research. Nat Biotechnol 2004, 22(11):1459\u20131466. 10.1038\/nbt1031","journal-title":"Nat Biotechnol"},{"key":"1989_CR4","unstructured":"mzData[\n                    http:\/\/www.psidev.info\/\n                    \n                  ]"},{"key":"1989_CR5","unstructured":"mzXML[\n                    http:\/\/sashimi.sourceforge.net\/\n                    \n                  ]"},{"key":"1989_CR6","unstructured":"mzData Tools[\n                    http:\/\/www.psidev.info\/index.php?q=node\/95\n                    \n                  ]"},{"key":"1989_CR7","unstructured":"Gel Markup Language[\n                    http:\/\/www.psidev.info\/index.php?q=node\/83\n                    \n                  ]"},{"key":"1989_CR8","unstructured":"GelInfoML[\n                    http:\/\/www.psidev.info\/index.php?\/q=node\/83#miape\n                    \n                  ]"},{"key":"1989_CR9","unstructured":"Functional Genomics Experimental Object Model[\n                    http:\/\/fuge.sourceforge.net\n                    \n                  ]"},{"issue":"2","key":"1989_CR10","doi-asserted-by":"publisher","first-page":"179","DOI":"10.1089\/omi.2006.10.179","volume":"10","author":"AR Jones","year":"2006","unstructured":"Jones AR, Pizarro A, Spellman P, Miller M: FuGE: Functional Genomics Experiment Object Model. Omics 2006, 10(2):179\u2013184. 10.1089\/omi.2006.10.179","journal-title":"Omics"},{"issue":"8","key":"1989_CR11","doi-asserted-by":"publisher","first-page":"887","DOI":"10.1038\/nbt1329","volume":"25","author":"CF Taylor","year":"2007","unstructured":"Taylor CF, Paton NW, Lilley KS, Binz PA, Julian RK Jr., Jones AR, Zhu W, Apweiler R, Aebersold R, Deutsch EW, Dunn MJ, Heck AJ, Leitner A, Macht M, Mann M, Martens L, Neubert TA, Patterson SD, Ping P, Seymour SL, Souda P, Tsugita A, Vandekerckhove J, Vondriska TM, Whitelegge JP, Wilkins MR, Xenarios I, Yates JR 3rd, Hermjakob H: The minimum information about a proteomics experiment (MIAPE). Nat Biotechnol 2007, 25(8):887\u2013893. 10.1038\/nbt1329","journal-title":"Nat Biotechnol"},{"issue":"14","key":"1989_CR12","doi-asserted-by":"publisher","first-page":"3552","DOI":"10.1002\/pmic.200500626","volume":"5","author":"S Orchard","year":"2005","unstructured":"Orchard S, Hermjakob H, Taylor CF, Potthast F, Jones P, Zhu W, Julian RK Jr., Apweiler R: Further steps in standardisation. Report of the second annual Proteomics Standards Initiative Spring Workshop (Siena, Italy 17\u201320th April 2005). Proteomics 2005, 5(14):3552\u20133555. 10.1002\/pmic.200500626","journal-title":"Proteomics"},{"key":"1989_CR13","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1186\/1471-2105-5-9","volume":"5","author":"R Stanislaus","year":"2004","unstructured":"Stanislaus R, Jiang LH, Swartz M, Arthur J, Almeida JS: An XML standard for the dissemination of annotated 2D gel electrophoresis data complemented with mass spectrometry results. BMC Bioinformatics 2004, 5: 9. 10.1186\/1471-2105-5-9","journal-title":"BMC Bioinformatics"},{"issue":"3","key":"1989_CR14","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1038\/nbt0303-247","volume":"21","author":"CF Taylor","year":"2003","unstructured":"Taylor CF, Paton NW, Garwood KL, Kirby PD, Stead DA, Yin Z, Deutsch EW, Selway L, Walker J, Riba-Garcia I, Mohammed S, Deery MJ, Howard JA, Dunkley T, Aebersold R, Kell DB, Lilley KS, Roepstorff P, Yates JR 3rd, Brass A, Brown AJ, Cash P, Gaskell SJ, Hubbard SJ, Oliver SG: A systematic approach to modeling, capturing, and disseminating proteomics experimental data. Nat Biotechnol 2003, 21(3):247\u2013254. 10.1038\/nbt0303-247","journal-title":"Nat Biotechnol"},{"issue":"9","key":"1989_CR15","doi-asserted-by":"publisher","first-page":"1754","DOI":"10.1093\/bioinformatics\/bti246","volume":"21","author":"R Stanislaus","year":"2005","unstructured":"Stanislaus R, Chen C, Franklin J, Arthur J, Almeida JS: AGML Central: web based gel proteomic infrastructure. Bioinformatics 2005, 21(9):1754\u20131757. 10.1093\/bioinformatics\/bti246","journal-title":"Bioinformatics"},{"issue":"Database issue","key":"1989_CR16","doi-asserted-by":"publisher","first-page":"D659","DOI":"10.1093\/nar\/gkj138","volume":"34","author":"P Jones","year":"2006","unstructured":"Jones P, Cote RG, Martens L, Quinn AF, Taylor CF, Derache W, Hermjakob H, Apweiler R: PRIDE: a public repository of protein and peptide identifications for the proteomics community. Nucleic Acids Res 2006, 34(Database issue):D659\u201363. 10.1093\/nar\/gkj138","journal-title":"Nucleic Acids Res"},{"key":"1989_CR17","unstructured":"Minimum information about 2-D gel electrophoresis[\n                    http:\/\/www.agml.org\/mi2dg\n                    \n                  ]"},{"key":"1989_CR18","unstructured":"XML namespace rules[\n                    http:\/\/www.w3.org\/TR\/REC-xml-names\/\n                    \n                  ]"},{"issue":"5","key":"1989_CR19","doi-asserted-by":"publisher","first-page":"1242","DOI":"10.1002\/pmic.200401003","volume":"5","author":"JS Almeida","year":"2005","unstructured":"Almeida JS, Stanislaus R, Krug E, Arthur JM: Normalization and analysis of residual variation in two-dimensional gel electrophoresis for quantitative differential proteomics. Proteomics 2005, 5(5):1242\u20131249. 10.1002\/pmic.200401003","journal-title":"Proteomics"},{"issue":"3-4","key":"1989_CR20","doi-asserted-by":"publisher","first-page":"484","DOI":"10.1002\/elps.1150180324","volume":"18","author":"C Ericsson","year":"1997","unstructured":"Ericsson C, Petho Z, Mehlin H: An on-line two-dimensional polyacrylamide gel electrophoresis protein database of adult Drosophila melanogaster. Electrophoresis 1997, 18(3\u20134):484\u2013490. 10.1002\/elps.1150180324","journal-title":"Electrophoresis"},{"key":"1989_CR21","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1186\/1471-2105-7-13","volume":"7","author":"F Li","year":"2006","unstructured":"Li F, Li M, Xiao Z, Zhang P, Li J, Chen Z: Construction of a nasopharyngeal carcinoma 2D\/MS repository with Open Source XML database--Xindice. BMC Bioinformatics 2006, 7: 13. 10.1186\/1471-2105-7-13","journal-title":"BMC Bioinformatics"},{"issue":"4","key":"1989_CR22","doi-asserted-by":"publisher","first-page":"1083","DOI":"10.1002\/pmic.200401075","volume":"5","author":"Y Yoshida","year":"2005","unstructured":"Yoshida Y, Miyazaki K, Kamiie J, Sato M, Okuizumi S, Kenmochi A, Kamijo K, Nabetani T, Tsugita A, Xu B, Zhang Y, Yaoita E, Osawa T, Yamamoto T: Two-dimensional electrophoretic profiling of normal human kidney glomerulus proteome and construction of an extensible markup language (XML)-based database. Proteomics 2005, 5(4):1083\u20131096. 10.1002\/pmic.200401075","journal-title":"Proteomics"},{"issue":"8","key":"1989_CR23","doi-asserted-by":"publisher","first-page":"2352","DOI":"10.1002\/pmic.200300830","volume":"4","author":"C Hoogland","year":"2004","unstructured":"Hoogland C, Mostaguir K, Sanchez JC, Hochstrasser DF, Appel RD: SWISS-2DPAGE, ten years later. Proteomics 2004, 4(8):2352\u20132356. 10.1002\/pmic.200300830","journal-title":"Proteomics"},{"key":"1989_CR24","unstructured":"Japan Human Proteome Organization[\n                    http:\/\/www.jhupo.org\n                    \n                  ]"},{"key":"1989_CR25","unstructured":"AGML Central[\n                    http:\/\/www.agml.org\n                    \n                  ]"},{"issue":"4","key":"1989_CR26","doi-asserted-by":"publisher","first-page":"471","DOI":"10.1038\/nbt0404-471","volume":"22","author":"JT Prince","year":"2004","unstructured":"Prince JT, Carlson MW, Wang R, Lu P, Marcotte EM: The need for a public proteomics repository. Nat Biotechnol 2004, 22(4):471\u2013472. 10.1038\/nbt0404-471","journal-title":"Nat Biotechnol"},{"issue":"6","key":"1989_CR27","doi-asserted-by":"publisher","first-page":"2588","DOI":"10.1111\/j.1523-1755.2005.00730.x","volume":"68","author":"JC Oates","year":"2005","unstructured":"Oates JC, Varghese S, Bland AM, Taylor TP, Self SE, Stanislaus R, Almeida JS, Arthur JM: Prediction of urinary protein markers in lupus nephritis. Kidney Int 2005, 68(6):2588\u20132592. 10.1111\/j.1523-1755.2005.00730.x","journal-title":"Kidney Int"},{"key":"1989_CR28","unstructured":"Minimum Ontology for 2DE Gel Electrophoresis[\n                    http:\/\/charlestoncore.musc.edu\/ont\/mo2dg.html\n                    \n                  ]"},{"key":"1989_CR29","unstructured":"MIAPE: The Minimum Information About a Proteomics Experiment[\n                    http:\/\/www.psidev.info\/miape\/\n                    \n                  ]"},{"key":"1989_CR30","unstructured":"I3C Announces new life science protocols to simplify data exchange, knowledge sharing.[\n                    http:\/\/www.sun.com\/smi\/Press\/sunflash\/2002\u201306\/sunflash.20020610.3.xml\n                    \n                  ]"},{"issue":"8","key":"1989_CR31","doi-asserted-by":"publisher","first-page":"2363","DOI":"10.1002\/pmic.200400884","volume":"4","author":"S Orchard","year":"2004","unstructured":"Orchard S, Taylor CF, Hermjakob H, Weimin Z, Julian RK Jr., Apweiler R: Advances in the development of common interchange standards for proteomic data. Proteomics 2004, 4(8):2363\u20132365. 10.1002\/pmic.200400884","journal-title":"Proteomics"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-9-4\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T03:50:21Z","timestamp":1548129021000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-9-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,1,7]]},"references-count":31,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["1989"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-9-4","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,1,7]]},"article-number":"4"}}