{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T14:12:54Z","timestamp":1790086374452,"version":"4.0.1"},"reference-count":4,"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>Motivation: The Functional Genomics Experiment Object Model (FuGE) supports modelling of experimental processes either directly or through extensions that specialize FuGE for use in specific contexts. FuGE applications commonly include components that capture, store and search experiment descriptions, where the requirements of different applications have much in common.<\/jats:p>\n               <jats:p>Results: We describe a toolkit that supports data capture, storage and web-based search of FuGE experiment models; the toolkit can be used directly on FuGE compliant models or configured for use with FuGE extensions. The toolkit is illustrated using a FuGE extension standardized by the proteomics standards initiative, namely GelML.<\/jats:p>\n               <jats:p>Availability: The toolkit and a demonstration are available at http:\/\/code.google.com\/p\/fugetoolkit<\/jats:p>\n               <jats:p>Contact: \u00a0khalid.belhajjame@manchester.ac.uk<\/jats:p>","DOI":"10.1093\/bioinformatics\/btn496","type":"journal-article","created":{"date-parts":[[2008,9,19]],"date-time":"2008-09-19T00:13:29Z","timestamp":1221783209000},"page":"2647-2649","source":"Crossref","is-referenced-by-count":8,"title":["A toolkit for capturing and sharing FuGE experiments"],"prefix":"10.1093","volume":"24","author":[{"given":"Khalid","family":"Belhajjame","sequence":"first","affiliation":[{"name":"1 School of Computer Science, University of Manchester, Oxford Road, Manchester and 2Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, L69 7ZJ, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew R.","family":"Jones","sequence":"additional","affiliation":[{"name":"1 School of Computer Science, University of Manchester, Oxford Road, Manchester and 2Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, L69 7ZJ, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Norman W.","family":"Paton","sequence":"additional","affiliation":[{"name":"1 School of Computer Science, University of Manchester, Oxford Road, Manchester and 2Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, L69 7ZJ, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2008,9,17]]},"reference":[{"key":"2023020212225290800_B1","doi-asserted-by":"crossref","first-page":"1127","DOI":"10.1038\/nbt1347","article-title":"The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics","volume":"25","author":"Jones","year":"2007","journal-title":"Nat. Biotechnol."},{"key":"2023020212225290800_B2","article-title":"GelML: Gel Markup Language (Version 1) specification","volume-title":"Proteomics Standards Initiative Recommendation: Final Document, PSI-GEL Working Group","author":"Jones","year":"2007"},{"key":"2023020212225290800_B3","doi-asserted-by":"crossref","first-page":"2463","DOI":"10.1093\/bioinformatics\/bth251","article-title":"Pedro: a configurable data entry tool for XML","volume":"20","author":"Garwood","year":"2004","journal-title":"Bioinformatics"},{"key":"2023020212225290800_B4","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1089\/omi.2008.0019","article-title":"The First RSBI (ISA-TAB) workshop: \u201cCan a Simple Format Work for Complex Studies?\u201d","volume":"12","author":"Sansone","year":"2008","journal-title":"OMICS"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/24\/22\/2647\/49055450\/bioinformatics_24_22_2647.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/24\/22\/2647\/49055450\/bioinformatics_24_22_2647.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T12:23:49Z","timestamp":1675340629000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/24\/22\/2647\/185207"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,9,17]]},"references-count":4,"journal-issue":{"issue":"22","published-print":{"date-parts":[[2008,11,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btn496","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":[[2008,9,17]]}}}