Analysis of Co-Associated Transcription Factors via Ordered Adjacency Differences on Motif Distribution.

ABSTRACT: Transcription factors (TFs) binding to specific DNA sequences or motifs, are elementary to the regulation of transcription. The gene is regulated by a combination of TFs in close proximity. Analysis of co-TFs is an important problem in understanding the mechanism of transcriptional regulation. Recently, ChIP-seq in mapping TF provides a large amount of experimental data to analyze co-TFs. Several studies show that if two TFs are co-associated, the relative distance between TFs exhibits a peak-like distribution. In order to analyze co-TFs, we develop a novel method to evaluate the associated situation between TFs. We design an adjacency score based on ordered differences, which can illustrate co-TF binding affinities for motif analysis. For all candidate motifs, we calculate corresponding a

SUBMITTER: Pan G 

PROVIDER: S-EPMC5327392 | biostudies-literature | 2017 Feb

REPOSITORIES: biostudies-literature