Integrative analysis of C. elegans modENCODE ChIP-seq data sets to infer gene regulatory interactions.

ABSTRACT: The C. elegans modENCODE Consortium has defined in vivo binding sites for a large array of transcription factors by ChIP-seq. In this article, we present examples that illustrate how this compendium of ChIP-seq data can drive biological insights not possible with analysis of individual factors. First, we analyze the number of independent factors bound to the same locus, termed transcription factor complexity, and find that low-complexity sites are more likely to respond to altered expression of a single bound transcription factor. Next, we show that comparison of binding sites for the same factor across developmental stages can reveal insight into the regulatory network of that factor, as we find that the transcription factor UNC-62 has distinct binding profiles at different stages due to

SUBMITTER: Van Nostrand EL 

PROVIDER: S-EPMC3668362 | biostudies-literature | 2013 Jun

REPOSITORIES: biostudies-literature