Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining.

ABSTRACT:

Background

Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Although some cis-regulatory elements have been well studied, the combinations of transcription factors that regulate normal expression levels for the vast majority of the 20,000 genes in the human genome are unknown. We hypothesized that it should be possible to discover transcription factor combinations that regulate gene expression in concert by identifying over-represented combinations of sequence motifs that occur together in the genome. In order to detect combinations of transcription factor binding motifs, we developed a data mining approach based on the use of association rules, which are typically used in

SUBMITTER: Morgan XC 

PROVIDER: S-EPMC2211755 | biostudies-literature | 2007 Nov

REPOSITORIES: biostudies-literature