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Public Library of Science, PLoS ONE, 2(5), p. e9129, 2010

DOI: 10.1371/journal.pone.0009129

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High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences

Journal article published in 2010 by Desiree Tillo, Noam Kaplan, Irene K. Moore, Yvonne Fondufe-Mittendorf, Andrea J. Gossett, Yair Field ORCID, Jason D. Lieb, Jonathan Widom, Eran Segal, Timothy R. Hughes
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Active eukaryotic regulatory sites are characterized by open chromatin, and yeast promoters and transcription factor binding sites (TFBSs) typically have low intrinsic nucleosome occupancy. Here, we show that in contrast to yeast, DNA at human promoters, enhancers, and TFBSs generally encodes high intrinsic nucleosome occupancy. In most cases we examined, these elements also have high experimentally measured nucleosome occupancy in vivo. These regions typically have high G+C content, which correlates positively with intrinsic nucleosome occupancy, and are depleted for nucleosome-excluding poly-A sequences. We propose that high nucleosome preference is directly encoded at regulatory sequences in the human genome to restrict access to regulatory information that will ultimately be utilized in only a subset of differentiated cells.