CollecTF is a database of transcription factor binding sites in the Bacteria domain.[1]
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| Content | |
|---|---|
| Description | database of experimentally validated TF-binding sites |
| Organisms | bacteria |
| Contact | |
| Authors | Kılıç, et al. (2014) [1] |
| Primary citation | PMID 24234444 |
| Release date | 2013 |
| Access | |
| Data format | FASTA, CSV, ARFF |
| Website | collectf compbio |
| Download URL | [1] |
CollecTF compiles only experimentally validated TF-binding sites. This is accomplished through the manual curation of peer-reviewed literature with a special focus on the experimental process used to identify TF-binding sites.
CollecTF entries are periodically submitted to NCBI for integration into RefSeq complete genome records as link-out features, maximizing the visibility of the data and enriching the annotation of RefSeq files with regulatory information. Seeking to facilitate comparative genomics and machine-learning analyses of regulatory interactions, in its initial release CollecTF provides domain-wide coverage of two TF families (LexA and Fur), as well as extensive representation for a clinically important bacterial family, the Vibrionaceae.
References
edit- ^ a b Kilic, S.; White, E. R.; Sagitova, D. M.; Cornish, J. P.; Erill, I. (14 November 2013). "CollecTF: a database of experimentally validated transcription factor-binding sites in Bacteria". Nucleic Acids Research. 42 (D1): D156 – D160. doi:10.1093/nar/gkt1123. PMC 3965012. PMID 24234444.