{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,6]],"date-time":"2026-01-06T01:54:39Z","timestamp":1767664479241},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"suppl_1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,1]]},"DOI":"10.1093\/nar\/gkl800","type":"journal-article","created":{"date-parts":[[2006,11,7]],"date-time":"2006-11-07T01:19:36Z","timestamp":1162862376000},"page":"D132-D136","source":"Crossref","is-referenced-by-count":23,"title":["Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes"],"prefix":"10.1093","volume":"35","author":[{"given":"Abel Gonz\u00e1lez","family":"P\u00e9rez","sequence":"first","affiliation":[]},{"given":"Vladimir Espinosa","family":"Angarica","sequence":"additional","affiliation":[]},{"given":"Ana Tereza R.","family":"Vasconcelos","sequence":"additional","affiliation":[]},{"given":"Julio","family":"Collado-Vides","sequence":"additional","affiliation":[]}],"member":"286","published-online":{"date-parts":[[2006,11,6]]},"reference":[{"key":"key\n\t\t\t\t20170522210935_b1","doi-asserted-by":"crossref","first-page":"0013.1","DOI":"10.1186\/gb-2002-3-3-research0013","article-title":"Evaluation of thresholds for the detection of binding sites for regulatory proteins in Escherichia coli K12 DNA","volume":"3","author":"Ben\u00edtez-Bell\u00f3n","year":"2002","journal-title":"Genome Biol."},{"key":"key\n\t\t\t\t20170522210935_b2","doi-asserted-by":"crossref","first-page":"739","DOI":"10.1101\/gr.6902","article-title":"Discovery of regulatory elements by a computational method for phylogenetic footprinting","volume":"12","author":"Blanchette","year":"2002","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t20170522210935_b3","doi-asserted-by":"crossref","first-page":"774","DOI":"10.1093\/nar\/29.3.774","article-title":"Phylogenetic footprinting of TF binding sites in proteobacterial genomes","volume":"29","author":"McCue","year":"2001","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b4","doi-asserted-by":"crossref","first-page":"5549","DOI":"10.1093\/nar\/gkf669","article-title":"Discovery of novel transcription factor binding sites by statistical overrepresentation","volume":"30","author":"Sinha","year":"2002","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b5","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1101\/gr.149301","article-title":"Comparative Genomics Approach to Prediction of New Members of Regulons","volume":"11","author":"Tan","year":"2001","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t20170522210935_b6","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1101\/gr.3069205","article-title":"Making connections between novel transcription factors and their DNA motifs","volume":"15","author":"Tan","year":"2004","journal-title":"Genome Res."},{"key":"key\n\t\t\t\t20170522210935_b7","doi-asserted-by":"crossref","first-page":"D98","DOI":"10.1093\/nar\/gki054","article-title":"TRACTOR_DB: a Database of Regulatory Networks in Gamma-Proteobacterial Genomes","volume":"33","author":"Gonz\u00e1lez","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b8","doi-asserted-by":"crossref","first-page":"5849","DOI":"10.1073\/pnas.95.11.5849","article-title":"Measuring genome evolution","volume":"95","author":"Huynen","year":"1998","journal-title":"PNAS"},{"key":"key\n\t\t\t\t20170522210935_b9","doi-asserted-by":"crossref","first-page":"S329","DOI":"10.1093\/bioinformatics\/18.suppl_1.S329","article-title":"A powerful non-homology method for the prediction of operons in prokaryotes","volume":"18","author":"Moreno-Hagelsieb","year":"2002","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20170522210935_b10","doi-asserted-by":"crossref","first-page":"D394","DOI":"10.1093\/nar\/gkj156","article-title":"RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions","volume":"34","author":"Salgado","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b11","first-page":"0020","article-title":"Complementing computationally predicted regulatory sites in Tractor_DB using a pattern matching approach","volume":"5","author":"Hern\u00e1ndez","year":"2004","journal-title":"In Silico Biol."},{"key":"key\n\t\t\t\t20170522210935_b12","doi-asserted-by":"crossref","first-page":"2404","DOI":"10.1073\/pnas.0308628100","article-title":"Evolutionary comparisons suggest many novel cAMP response protein binding sites in Escherichia coli","volume":"101","author":"Brown","year":"2004","journal-title":"PNAS"},{"key":"key\n\t\t\t\t20170522210935_b13","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1093\/bioinformatics\/15.7.563","article-title":"Identifying DNA and protein patterns with statistically significant alignments of multiple sequences","volume":"15","author":"Hertz","year":"1999","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20170522210935_b14","doi-asserted-by":"crossref","first-page":"D334","DOI":"10.1093\/nar\/gki108","article-title":"EcoCyc: a comprehensive database resource for Escherichia coli","volume":"33","author":"Keseler","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b15","doi-asserted-by":"crossref","first-page":"research0013.1","DOI":"10.1186\/gb-2001-2-4-research0013","article-title":"Conservation of the binding site for the arginine repressor in all bacterial lineages","volume":"2","author":"Makarova","year":"2001","journal-title":"Genome Biol."},{"key":"key\n\t\t\t\t20170522210935_b16","doi-asserted-by":"crossref","first-page":"9912","DOI":"10.1073\/pnas.1733691100","article-title":"Comparative genomics of bacterial zinc regulons: Enhanced ion transport, pathogenesis, and rearrangement of ribosomal proteins","volume":"100","author":"Panina","year":"2003","journal-title":"PNAS"},{"key":"key\n\t\t\t\t20170522210935_b17","doi-asserted-by":"crossref","first-page":"5195","DOI":"10.1093\/nar\/29.24.5195","article-title":"Comparative analysis of FUR regulons in gamma-proteobacteria","volume":"29","author":"Panina","year":"2001","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b18","doi-asserted-by":"crossref","first-page":"6617","DOI":"10.1093\/nar\/gkh996","article-title":"Differences in LexA regulon structure among Proteobacteria through in vivo assisted comparative genomics","volume":"32","author":"Erill","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20170522210935_b19","doi-asserted-by":"crossref","first-page":"2225","DOI":"10.1093\/bioinformatics\/btg303","article-title":"In silico analysis reveals substantial variability in the gene contents of the gamma proteobacteria LexA-regulon","volume":"19","author":"Erill","year":"2003","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20170522210935_b20","doi-asserted-by":"crossref","first-page":"184","DOI":"10.1016\/j.jmb.2005.09.037","article-title":"Comparative studies of transcriptional regulation mechanisms in a group of eight gamma-proteobacterial genomes","volume":"354","author":"Espinosa","year":"2005","journal-title":"J. Mol. Biol."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/35\/suppl_1\/D132\/17422464\/gkl800.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,8]],"date-time":"2024-02-08T04:59:28Z","timestamp":1707368368000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article-lookup\/doi\/10.1093\/nar\/gkl800"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2006,11,6]]},"references-count":20,"journal-issue":{"issue":"suppl_1","published-online":{"date-parts":[[2006,11,6]]},"published-print":{"date-parts":[[2007,1]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkl800","relation":{},"ISSN":["1362-4962","0305-1048"],"issn-type":[{"value":"1362-4962","type":"electronic"},{"value":"0305-1048","type":"print"}],"subject":[],"published":{"date-parts":[[2006,11,6]]}}}