Differential motif enrichment analysis of paired ChIP-seq experiments.

ABSTRACT:

Background

Motif enrichment analysis of transcription factor ChIP-seq data can help identify transcription factors that cooperate or compete. Previously, little attention has been given to comparative motif enrichment analysis of pairs of ChIP-seq experiments, where the binding of the same transcription factor is assayed under different conditions. Such comparative analysis could potentially identify the distinct regulatory partners/competitors of the assayed transcription factor under different conditions or at different stages of development.

Results

We describe a new methodology for identifying sequence motifs that are differentially enriched in one set of DNA or RNA sequences relative to another set, and apply it to paired ChIP-seq experiments. We show that, using paired

SUBMITTER: Lesluyes T 

PROVIDER: S-EPMC4167127 | biostudies-literature | 2014 Sep

REPOSITORIES: biostudies-literature