{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,13]],"date-time":"2025-06-13T10:03:12Z","timestamp":1749808992717},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"14","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,7,15]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Summary: Here we present a computational protocol to analyze the promoter regions of a given set of co-expressed genes, and its implementation through the use of Web services technologies. This protocol aims to cluster a set of co-regulated genes in subsets of genes showing similar configurations of transcription factor binding sites. All the steps of this protocol have been developed as web services that are compliant with BioMoby specifications.<\/jats:p><jats:p>Availability: {http:\/\/genome.imim.es\/cgi-bin\/moby\/GeneClustering_DataSubmission.cgi}<\/jats:p><jats:p>Contact: \u00a0arnaud.kerhornou@crg.es<\/jats:p><jats:p>Supplementary information: Supplementary data are available at {http:\/\/genome.imim.es\/webservices\/}<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm252","type":"journal-article","created":{"date-parts":[[2007,5,13]],"date-time":"2007-05-13T00:28:37Z","timestamp":1179016117000},"page":"1831-1833","source":"Crossref","is-referenced-by-count":11,"title":["BioMoby web services to support clustering of co-regulated genes based on similarity of promoter configurations"],"prefix":"10.1093","volume":"23","author":[{"given":"Arnaud","family":"Kerhornou","sequence":"first","affiliation":[{"name":"1 Centre de Regulacio Genomica, 2Research Group in Biomedical Informatics, Institut Municipal d'Investigaci\u00f3 M\u00e8dica and Universitat Pompeu Fabra, Pg. Maritim de la Barceloneta, 08003 Barcelona, Catalonia, Spain and 3EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"},{"name":"1 Centre de Regulacio Genomica, 2Research Group in Biomedical Informatics, Institut Municipal d'Investigaci\u00f3 M\u00e8dica and Universitat Pompeu Fabra, Pg. Maritim de la Barceloneta, 08003 Barcelona, Catalonia, Spain and 3EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"},{"name":"1 Centre de Regulacio Genomica, 2Research Group in Biomedical Informatics, Institut Municipal d'Investigaci\u00f3 M\u00e8dica and Universitat Pompeu Fabra, Pg. Maritim de la Barceloneta, 08003 Barcelona, Catalonia, Spain and 3EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Roderic","family":"Guig\u00f3","sequence":"additional","affiliation":[{"name":"1 Centre de Regulacio Genomica, 2Research Group in Biomedical Informatics, Institut Municipal d'Investigaci\u00f3 M\u00e8dica and Universitat Pompeu Fabra, Pg. Maritim de la Barceloneta, 08003 Barcelona, Catalonia, Spain and 3EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"},{"name":"1 Centre de Regulacio Genomica, 2Research Group in Biomedical Informatics, Institut Municipal d'Investigaci\u00f3 M\u00e8dica and Universitat Pompeu Fabra, Pg. Maritim de la Barceloneta, 08003 Barcelona, Catalonia, Spain and 3EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2007,5,12]]},"reference":[{"key":"2023041105232394200_","doi-asserted-by":"crossref","first-page":"743","DOI":"10.1093\/bioinformatics\/16.8.743","article-title":"gff2ps: visualizing genomic annotations","volume":"16","author":"Abril","year":"2000","journal-title":"Bioinformatics"},{"key":"2023041105232394200_","doi-asserted-by":"crossref","first-page":"D556","DOI":"10.1093\/nar\/gkj133","article-title":"Ensembl 2006","volume":"34","author":"Birney","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"2023041105232394200_","doi-asserted-by":"crossref","first-page":"e49","DOI":"10.1371\/journal.pcbi.0020049","article-title":"Transcription factor map alignment of promoter regions","volume":"2","author":"Blanco","year":"2006","journal-title":"PLoS Comput. 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