TRACTOR_DB -- A database of regulatory networks in gamma-proteobacterial genomes
What you can do:
Search for computationally predicted transcription factors binding sites in gamma-proteobacterial genomes.
Highlights:
- This is a relational database that contains computational predictions of new members of 74 regulons in 17 gamma-proteobacterial genomes.
- These predictions were based on a comparative genomics approach regarding which several proof-of-principle articles for large regulons have been published.
- 2007 Update:
- Fourteen new gamma-proteobacterial genomes were added to the prediction pipeline, increasing the number of organisms included in the database from 16 to 30. The original prediction approach, based on the representation of binding sites through statistical models was complemented by a new approach that uses known E. coli regulatory sites as the basis for a pattern matching search of regulatory sites.
Keywords:
- transcription factor binding sites
- putative transcription factor binding sites
- regulons
- DNA-binding sites
- promoter analysis
- promoter elements
- regulatory elements
- gamma-proteobacterial genomes
- Escherichia coli K12 transcription factor binding sites
- Haemophilus influenzae transcription factor binding sites
- Salmonella typhi transcription factor binding sites
- Salmonella typhimurium transcription factor binding sites
- Shewanella oneidensis transcription factor binding sites
- Shigella flexneri transcription factor binding sites
- Vibrio cholerae transcription factor binding sites
- Yersinia pestis transcription factor binding sites
- Buchnera aphidicola transcription factor binding sites
- Pseudomonas aeruginosa transcription factor binding sites
- Pseudomonas putida transcription factor binding sites
- Pseudomonas syringae transcription factor binding sites
- Vibrio parahemolyticus transcription factor binding sites
- Vibrio vulnificus transcription factor binding sites
- Xanthomonas axonopodis transcription factor binding sites
- Xanthomonas campestris transcription factor binding sites
- Xylella fastidiosa transcription factor binding sites
Literature & Tutorials:
PubMed Link: TRACTOR_DB
PubMed Link of 2007 update: Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes
PubMed Link of 2007 update: Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes
This record last updated: 03-27-2007