Core promoter structure and genomic context reflect histone 3 lysine 9 acetylation patterns.

ABSTRACT:

Background

Histone modifications play an important role in gene regulation. Acetylation of histone 3 lysine 9 (H3K9ac) is generally associated with transcription initiation and unfolded chromatin, thereby positively influencing gene expression. Deep sequencing of the 5' ends of gene transcripts using DeepCAGE delivers detailed information about the architecture and expression level of gene promoters. The combination of H3K9ac ChIP-chip and DeepCAGE in a myeloid leukemia cell line (THP-1) allowed us to study the spatial distribution of H3K9ac around promoters using a novel clustering approach. The promoter classes were analyzed for association with relevant genomic sequence features.

Results

We performed a clustering of 4,481 promoters according to their surrounding H3K9ac si

SUBMITTER: Kratz A 

PROVIDER: S-EPMC2867832 | biostudies-literature | 2010 Apr

REPOSITORIES: biostudies-literature