Reference : TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomes.
Scientific journals : Article
Life sciences : Biochemistry, biophysics & molecular biology
http://hdl.handle.net/10993/16688
TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomes.
English
Gonzalez, Abel D. [National Bioinformatics Center, Industria y San José, Capitolio Nacional, CP. 10200, Habana Vieja, Habana, Cuba]
Espinosa Angarica, Vladimir mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) >]
Vasconcelos, Ana T. [National Laboratory for Scientific Computing, Avenue Getulio Vargas 333, Quitandinha, CEP 25651-075, Petropolis, Rio de Janeiro, Brazil]
Perez-Rueda, Ernesto [Depto. de Ingenierìa Celular y Biocatálisis, IBT-UNAM, Cuernavaca, Morelos, Mexico]
Collado-Vides, Julio [Center of Genomics, UNAM, AP 565-A Cuernavaca, CP. 62100, Morelos, Mexico]
2005
Nucleic acids research
33
Database issue
D98-102
Yes (verified by ORBilu)
International
0305-1048
1362-4962
England
[en] TF-binding-sites prediction ; regulatory network ; regulon ; gamma-proteobacteria
[en] Experimental data on the Escherichia coli transcriptional regulatory system has been used in the past years to predict new regulatory elements (promoters, transcription factors (TFs), TFs' binding sites and operons) within its genome. As more genomes of gamma-proteobacteria are being sequenced, the prediction of these elements in a growing number of organisms has become more feasible, as a step towards the study of how different bacteria respond to environmental changes at the level of transcriptional regulation. In this work, we present TRACTOR_DB (TRAnscription FaCTORs' predicted binding sites in prokaryotic genomes), a relational database that contains computational predictions of new members of 74 regulons in 17 gamma-proteobacterial genomes. For these predictions we used a comparative genomics approach regarding which several proof-of-principle articles for large regulons have been published. TRACTOR_DB may be currently accessed at http://www.bioinfo.cu/Tractor_DB, http://www.tractor.lncc.br/ or at http://www.cifn.unam.mx/Computational_Genomics/tractorDB. Contact Email id is tractor@cifn.unam.mx.
Researchers ; Students
http://hdl.handle.net/10993/16688
10.1093/nar/gki054
http://nar.oxfordjournals.org/content/33/suppl_1/D98.long

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