CLTFBS

A database of common livestock transcription factor binding sites

What is CLTFBS?

CLTFBS is a database for the calculation results of six common livestock transcription factor binding sites of pigs, cows, horses, sheep (goats, sheep) and dogs. The database contains the information of transcription factor binding sites, transcription factors and corresponding target genes of six livestock. Queries can be made by entering the species name, gene name, and transcription factor binding site id.

When should CLTFBS be used?

The CLTFBS database may be used in the following situations:
1. Hope to build a relevant regulatory network through data;
2. Persons interested in transcription factors critical to the development and progression of livestock diseases and zoonoses;
3. People who are interested in the study of the co-regulation of transcription factor binding sites;
4. Individuals who wish to perform large-scale or in-depth computer analysis of cis-controlling elements in livestock.

References

  1. Timothy L. Bailey and Charles Elkan, Fitting a mixture model by expectation maximization to discover motifs in biopolymers, Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology. 1994, 28-36, AAAI Press.
  2. imothy L. Bailey and Philip Machanick, Inferring direct DNA binding from ChIP-seq, Nucleic Acids Research, 40:e128, 2012.
  3. Charles E. Grant, Timothy L. Bailey, and William Stafford Noble, FIMO: Scanning for occurrences of a given motif, Bioinformatics, 27(7):1017-1018, 2011.
  4. Shobhit Gupta, JA Stamatoyannopolous, Timothy Bailey and William Stafford Noble, Quantifying similarity between motifs, Genome Biology, 8(2):R24, 2007.