Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets.

ABSTRACT:

Background

The global effort to annotate the non-coding portion of the human genome relies heavily on chromatin immunoprecipitation data generated with high-throughput DNA sequencing (ChIP-seq). ChIP-seq is generally successful in detailing the segments of the genome bound by the immunoprecipitated transcription factor (TF), however almost all datasets contain genomic regions devoid of the canonical motif for the TF. It remains to be determined if these regions are related to the immunoprecipitated TF or whether, despite the use of controls, there is a portion of peaks that can be attributed to other causes.

Results

Analyses across hundreds of ChIP-seq datasets generated for sequence-specific DNA binding TFs reveal a small set of TF binding profiles for which predicted TF bi

SUBMITTER: Worsley Hunt R 

PROVIDER: S-EPMC4165360 | biostudies-literature | 2014 Jul

REPOSITORIES: biostudies-literature