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High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences
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 i...
Autores principales: | , , , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
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Public Library of Science
2010
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2817738/ https://www.ncbi.nlm.nih.gov/pubmed/20161746 http://dx.doi.org/10.1371/journal.pone.0009129 |
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author | Tillo, Desiree Kaplan, Noam Moore, Irene K. Fondufe-Mittendorf, Yvonne Gossett, Andrea J. Field, Yair Lieb, Jason D. Widom, Jonathan Segal, Eran Hughes, Timothy R. |
author_facet | Tillo, Desiree Kaplan, Noam Moore, Irene K. Fondufe-Mittendorf, Yvonne Gossett, Andrea J. Field, Yair Lieb, Jason D. Widom, Jonathan Segal, Eran Hughes, Timothy R. |
author_sort | Tillo, Desiree |
collection | PubMed |
description | 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. |
format | Text |
id | pubmed-2817738 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2010 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-28177382010-02-17 High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences Tillo, Desiree Kaplan, Noam Moore, Irene K. Fondufe-Mittendorf, Yvonne Gossett, Andrea J. Field, Yair Lieb, Jason D. Widom, Jonathan Segal, Eran Hughes, Timothy R. PLoS One Research Article 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. Public Library of Science 2010-02-09 /pmc/articles/PMC2817738/ /pubmed/20161746 http://dx.doi.org/10.1371/journal.pone.0009129 Text en Tillo et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Tillo, Desiree Kaplan, Noam Moore, Irene K. Fondufe-Mittendorf, Yvonne Gossett, Andrea J. Field, Yair Lieb, Jason D. Widom, Jonathan Segal, Eran Hughes, Timothy R. High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title | High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title_full | High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title_fullStr | High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title_full_unstemmed | High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title_short | High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences |
title_sort | high nucleosome occupancy is encoded at human regulatory sequences |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2817738/ https://www.ncbi.nlm.nih.gov/pubmed/20161746 http://dx.doi.org/10.1371/journal.pone.0009129 |
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