Analysis of nucleosome positioning determined by DNA helix curvature in the human genome.

ABSTRACT:

Background

Nucleosome positioning has an important role in gene regulation. However, dynamic positioning in vivo casts doubt on the reliability of predictions based on DNA sequence characteristics. What role does sequence-dependent positioning play? In this paper, using a curvature profile model, nucleosomes are predicted in the human genome and patterns of nucleosomes near some key sites are investigated.

Results

Curvature profiling revealed that in the vicinity of a transcription start site, there is also a nucleosome-free region. Near transcription factor binding sites, curvature profiling showed a trough, indicating nucleosome depletion. The trough of the curvature profile corresponds well to the high binding scores of transcription factors. Moreover, our analysis sugges

SUBMITTER: Liu H 

PROVIDER: S-EPMC3037905 | biostudies-literature | 2011 Jan

REPOSITORIES: biostudies-literature