Title

H3K4Me2 Reliably Defines Transcription Factor Binding Regions In Different Cells

Keywords

ChIP-seq; H3K4me2; Histone modification; Transcription factor binding regions

Abstract

Histone modification (HM) patterns are widely applied to identify transcription factor binding regions (TFBRs). However, how frequently the TFBRs overlap with genomic regions enriched with certain types of HMs and which HM marker is more effective to pinpoint the TFBRs have not been systematically investigated. To address these problems, we studied 149 transcription factor (TF) ChIP-seq datasets and 33 HM ChIP-seq datasets in three cell lines. We found that on average about 90% of the TFBRs overlap with the H3K4me2-enriched regions. Moreover, the H3K4me2-enriched regions with stronger signals of H3K4me2 enrichment more likely overlap with the TFBRs than those with weaker signals. In addition, we showed that the H3K4me2-enriched regions together with the H3K27ac-enriched regions can greatly reduce false positive predictions of the TFBRs. Our study sheds light on the comprehensive discovery of the TFBRs using the HeK4me-enriched regions, especially when no good antibody to a TF exists. © 2014 .

Publication Date

1-1-2014

Publication Title

Genomics

Volume

103

Issue

2-3

Number of Pages

222-228

Document Type

Article

Personal Identifier

scopus

DOI Link

https://doi.org/10.1016/j.ygeno.2014.02.002

Socpus ID

84898021970 (Scopus)

Source API URL

https://api.elsevier.com/content/abstract/scopus_id/84898021970

This document is currently not available here.

Share

COinS