Discover context-specific combinatorial transcription factor interactions by integrating diverse ChIP-Seq data sets.

ABSTRACT: Combinatorial interactions among transcription factors (TFs) are critical for integrating diverse intrinsic and extrinsic signals, fine-tuning regulatory output and increasing the robustness and plasticity of regulatory systems. Current knowledge about combinatorial regulation is rather limited due to the lack of suitable experimental technologies and bioinformatics tools. The rapid accumulation of ChIP-Seq data has provided genome-wide occupancy maps for a large number of TFs and chromatin modification marks for identifying enhancers without knowing individual TF binding sites. Integration of the two data types has not been researched extensively, resulting in underused data and missed opportunities. We describe a novel method for discovering frequent combinatorial occupancy patterns by m

SUBMITTER: Teng L 

PROVIDER: S-EPMC3936738 | biostudies-literature | 2014 Feb

REPOSITORIES: biostudies-literature