{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,6,26]],"date-time":"2023-06-26T15:40:24Z","timestamp":1687794024121},"reference-count":21,"publisher":"Oxford University Press (OUP)","issue":"13","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Life Sciences have emerged as a key domain in the Linked Data community because of the diversity of data semantics and formats available through a great variety of databases and web technologies. Thus, it has been used as the perfect domain for applications in the web of data. Unfortunately, bioinformaticians are not exploiting the full potential of this already available technology, and experts in Life Sciences have real problems to discover, understand and devise how to take advantage of these interlinked (integrated) data.<\/jats:p>\n               <jats:p>Results: In this article, we present Bioqueries, a wiki-based portal that is aimed at community building around biological Linked Data. This tool has been designed to aid bioinformaticians in developing SPARQL queries to access biological databases exposed as Linked Data, and also to help biologists gain a deeper insight into the potential use of this technology. This public space offers several services and a collaborative infrastructure to stimulate the consumption of biological Linked Data and, therefore, contribute to implementing the benefits of the web of data in this domain. Bioqueries currently contains 215 query entries grouped by database and theme, 230 registered users and 44 end points that contain biological Resource Description Framework information.<\/jats:p>\n               <jats:p>Availability: The Bioqueries portal is freely accessible at http:\/\/bioqueries.uma.es.<\/jats:p>\n               <jats:p>Contact: \u00a0jfam@lcc.uma.es<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt192","type":"journal-article","created":{"date-parts":[[2013,4,26]],"date-time":"2013-04-26T01:21:15Z","timestamp":1366939275000},"page":"1663-1670","source":"Crossref","is-referenced-by-count":8,"title":["Sharing and executing linked data queries in a collaborative environment"],"prefix":"10.1093","volume":"29","author":[{"given":"Mar\u00eda Jes\u00fas","family":"Garc\u00eda Godoy","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Esteban","family":"L\u00f3pez-Camacho","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ismael","family":"Navas-Delgado","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jos\u00e9 F.","family":"Aldana-Montes","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2013,4,25]]},"reference":[{"key":"2023062614230407500_btt192-B1","doi-asserted-by":"crossref","first-page":"706","DOI":"10.1016\/j.jbi.2008.03.004","article-title":"Bio2RDF: towards a mashup to build bioinformatics knowledge systems","volume":"41","author":"Belleau","year":"2008","journal-title":"J. Biomed. Inform."},{"key":"2023062614230407500_btt192-B2","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1093\/nar\/gkn723","article-title":"GenBank","volume":"37","author":"Benson","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B3","doi-asserted-by":"crossref","first-page":"D267","DOI":"10.1093\/nar\/gkh061","article-title":"The unified medical language system (UMLS): integrating biomedical terminology","volume":"32","author":"Bodenreider","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B4","article-title":"SUS: a quick and dirty usability scale","volume-title":"Usability Evaluation in Industry","author":"Brooke","year":"1996"},{"key":"2023062614230407500_btt192-B5","doi-asserted-by":"crossref","first-page":"685","DOI":"10.1093\/nar\/gkq1039","article-title":"Pathway commons, a web resource for biological pathway data","volume":"39","author":"Cerami","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B6","doi-asserted-by":"crossref","first-page":"1061","DOI":"10.1038\/nature09534","article-title":"A map of human genome variation from population-scale sequencing","volume":"467","author":"Durbin","year":"2010","journal-title":"Nature"},{"key":"2023062614230407500_btt192-B7","author":"Heim","year":"2009"},{"key":"2023062614230407500_btt192-B8","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1093\/nar\/30.1.163","article-title":"Pharmgkb: the pharmacogenetics knowledge base","volume":"30","author":"Hewett","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B9","doi-asserted-by":"crossref","first-page":"1047","DOI":"10.1038\/ng.f.217","article-title":"A wiki for the life sciences where authorship matters","volume":"40","author":"Hoffmann","year":"2008","journal-title":"Nat. Genet."},{"key":"2023062614230407500_btt192-B10","doi-asserted-by":"crossref","first-page":"e175","DOI":"10.1371\/journal.pbio.0060175","article-title":"A gene wiki for community annotation of gene function","volume":"6","author":"Huss","year":"2008","journal-title":"PLoS Biol."},{"key":"2023062614230407500_btt192-B11","doi-asserted-by":"crossref","first-page":"D633","DOI":"10.1093\/nar\/gkp760","article-title":"The gene wiki: community intelligence applied to human gene annotation","volume":"38","author":"Huss","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B12","doi-asserted-by":"crossref","first-page":"1301","DOI":"10.1093\/nar\/gkr1074","article-title":"Wikipathways: building research communities on biological pathways","volume":"40","author":"Kelder","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B13","doi-asserted-by":"crossref","first-page":"55","DOI":"10.1109\/MIC.2002.1067737","article-title":"Jena: a semantic Web toolkit","volume":"6","author":"McBride","year":"2002","journal-title":"IEEE Internet Comput."},{"key":"2023062614230407500_btt192-B14","doi-asserted-by":"crossref","first-page":"1270","DOI":"10.1093\/nar\/gkr880","article-title":"Ecoliwiki: a wiki-based community resource for Escherichia coli","volume":"40","author":"McIntosh","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"2023062614230407500_btt192-B15","article-title":"Expanding the pathway and interaction knowledge in linked life data","volume-title":"International Semantic Web Challenge","author":"Momtchev","year":"2009"},{"key":"2023062614230407500_btt192-B16","doi-asserted-by":"crossref","first-page":"R89","DOI":"10.1186\/gb-2008-9-5-r89","article-title":"Calling on a million minds for community annotation in WikiProteins","volume":"9","author":"Mons","year":"2008","journal-title":"Genome Biol."},{"key":"2023062614230407500_btt192-B17","article-title":"UniProt in RDF: tackling data integration and distributed annotation with the semantic web","author":"Redaschi,N. and UniProt Consortium","year":"2009","journal-title":"Nat. Precedings"},{"key":"2023062614230407500_btt192-B18","doi-asserted-by":"crossref","first-page":"102","DOI":"10.1186\/gb-2007-8-1-102","article-title":"Genome re-annotation: a wiki solution?","volume":"8","author":"Salzberg","year":"2007","journal-title":"Genome Biol."},{"key":"2023062614230407500_btt192-B19","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1186\/1758-2946-3-19","article-title":"Linked open drug data for pharmaceutical research and development","volume":"3","author":"Samwald","year":"2011","journal-title":"J. Cheminform."},{"key":"2023062614230407500_btt192-B20","author":"Tullis","year":"2004"},{"key":"2023062614230407500_btt192-B21","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1038\/455022a","article-title":"Big Data: wikiomics","volume":"455","author":"Waldrop","year":"2008","journal-title":"Nature"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/29\/13\/1663\/50702472\/bioinformatics_29_13_1663.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/29\/13\/1663\/50702472\/bioinformatics_29_13_1663.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,6,26]],"date-time":"2023-06-26T15:22:25Z","timestamp":1687792945000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/29\/13\/1663\/184929"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,4,25]]},"references-count":21,"journal-issue":{"issue":"13","published-print":{"date-parts":[[2013,7,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btt192","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2013,7]]},"published":{"date-parts":[[2013,4,25]]}}}