High resolution genome wide binding event finding and motif discovery reveals transcription factor spatial binding constraints.

ABSTRACT: An essential component of genome function is the syntax of genomic regulatory elements that determine how diverse transcription factors interact to orchestrate a program of regulatory control. A precise characterization of in vivo spacing constraints between key transcription factors would reveal key aspects of this genomic regulatory language. To discover novel transcription factor spatial binding constraints in vivo, we developed a new integrative computational method, genome wide event finding and motif discovery (GEM). GEM resolves ChIP data into explanatory motifs and binding events at high spatial resolution by linking binding event discovery and motif discovery with positional priors in the context of a generative probabilistic model of ChIP data and genome sequence. GEM analysis of

SUBMITTER: Guo Y 

PROVIDER: S-EPMC3415389 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature