Epigenetic domains found in mouse embryonic stem cells via a hidden Markov model.

ABSTRACT:

Background

Epigenetics is an important layer of transcriptional control necessary for cell-type specific gene regulation. Recent studies have shown significant epigenetic patterns associated with developmental stages and diseases. However, previous studies have been mostly limited to focal epigenetic patterns, whereas methods for analyzing large-scale organizations are still lacking.

Results

We developed a hidden Markov model (HMM) approach for detecting the types and locations of epigenetic domains from multiple histone modifications. We used this method to analyze a published ChIP-seq dataset of five histone modification marks (H3K4me2, H3K4me3, H3K27me3, H3K9me3, and H3K36me3) in mouse embryonic stem (ES) cells. We identified three types of domains, corresponding to activ

SUBMITTER: Larson JL 

PROVIDER: S-EPMC2992069 | biostudies-literature | 2010 Nov

REPOSITORIES: biostudies-literature