Identifying positioned nucleosomes with epigenetic marks in human from ChIP-Seq.

ABSTRACT:

Background

In vivo positioning and covalent modifications of nucleosomes play an important role in epigenetic regulation, but genome-wide studies of positioned nucleosomes and their modifications in human still remain limited.

Results

This paper describes a novel computational framework to efficiently identify positioned nucleosomes and their histone modification profiles from nucleosome-resolution histone modification ChIP-Seq data. We applied the algorithm to histone methylation ChIP-Seq data in human CD4+ T cells and identified over 438,000 positioned nucleosomes, which appear predominantly at functionally important regions such as genes, promoters, DNase I hypersensitive regions, and transcription factor binding sites. Our analysis shows the identified nucleosomes play a

SUBMITTER: Zhang Y 

PROVIDER: S-EPMC2596141 | biostudies-literature | 2008 Nov

REPOSITORIES: biostudies-literature