Genome-wide analysis of transcription factor binding sites and their characteristic DNA structures

[摘要] BackgroundTranscription factors (TF) regulate gene expression by binding DNA regulatory regions. Transcription factor binding sites (TFBSs) are conserved not only in primary DNA sequences but also in DNA structures. However, the global relationship between TFs and their preferred DNA structures remains to be elucidated.ResultsIn this paper, we have developed a computational method to generate a genome-wide landscape of TFs and their characteristic binding DNA structures in Saccharomyces cerevisiae. We revealed DNA structural features for different TFs. The structural conservation shows positional preference in TFBSs. Structural levels of DNA sequences are correlated with TF-DNA binding affinities.ConclusionsWe provided the genome-wide correspondences of TFs to DNA structures. Our findings will have implications in understanding TF regulatory mechanisms.

[发布日期] 2015-01-29

[关键词] Transcription Factor Binding Site;Structural Conservation;Positional Preference;Conservation Rate;Structural Profile