Dissecting nucleosome free regions by a segmental semi-Markov model.

ABSTRACT:

Background

Nucleosome free regions (NFRs) play important roles in diverse biological processes including gene regulation. A genome-wide quantitative portrait of each individual NFR, with their starting and ending positions, lengths, and degrees of nucleosome depletion is critical for revealing the heterogeneity of gene regulation and chromatin organization. By averaging nucleosome occupancy levels, previous studies have identified the presence of NFRs in the promoter regions across many genes. However, evaluation of the quantitative characteristics of individual NFRs requires an NFR calling method.

Methodology

In this study, we propose a statistical method to identify the patterns of NFRs from a genome-wide measurement of nucleosome occupancy. This method is based on an appr

SUBMITTER: Sun W 

PROVIDER: S-EPMC2648986 | biostudies-literature | 2009

REPOSITORIES: biostudies-literature