Determinants of nucleosome organization in primary human cells

Nucleosomes are the basic packaging units of chromatin, modulating accessibility of regulatory proteins to DNA and thus influencing eukaryotic gene regulation. Elaborate chromatin remodeling mechanisms have evolved that govern nucleosome organization at promoters, regulatory elements, and other func...

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Main Authors:	Valouev, Anton, Johnson, Steven M., Boyd, Scott D., Smith, Cheryl L., Fire, Andrew Z., Sidow, Arend
Format:	Online
Language:	English
Published:	2011
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3212987/

id	pubmed-3212987
recordtype	oai_dc
spelling	pubmed-32129872011-12-23 Determinants of nucleosome organization in primary human cells Valouev, Anton Johnson, Steven M. Boyd, Scott D. Smith, Cheryl L. Fire, Andrew Z. Sidow, Arend Article Nucleosomes are the basic packaging units of chromatin, modulating accessibility of regulatory proteins to DNA and thus influencing eukaryotic gene regulation. Elaborate chromatin remodeling mechanisms have evolved that govern nucleosome organization at promoters, regulatory elements, and other functional regions in the genome1. Analyses of chromatin landscape have uncovered a variety of mechanisms, including DNA sequence preferences, that can influence nucleosome positions2–4. To identify major determinants of nucleosome organization in the human genome, we utilized deep sequencing to map nucleosome positions in three primary human cell types and in vitro. A majority of the genome exhibited substantial flexibility of nucleosome positions while a small fraction showed reproducibly positioned nucleosomes. Certain sites that position in vitro can anchor the formation of nucleosomal arrays that have cell type-specific spacing in vivo. Our results unveil an interplay of sequence-based nucleosome preferences and non-nucleosomal factors in determining nucleosome organization within mammalian cells. 2011-05-22 /pmc/articles/PMC3212987/ /pubmed/21602827 http://dx.doi.org/10.1038/nature10002 Text en http://www.nature.com/authors/editorial_policies/license.html#terms Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Valouev, Anton Johnson, Steven M. Boyd, Scott D. Smith, Cheryl L. Fire, Andrew Z. Sidow, Arend
spellingShingle	Valouev, Anton Johnson, Steven M. Boyd, Scott D. Smith, Cheryl L. Fire, Andrew Z. Sidow, Arend Determinants of nucleosome organization in primary human cells
author_facet	Valouev, Anton Johnson, Steven M. Boyd, Scott D. Smith, Cheryl L. Fire, Andrew Z. Sidow, Arend
author_sort	Valouev, Anton
title	Determinants of nucleosome organization in primary human cells
title_short	Determinants of nucleosome organization in primary human cells
title_full	Determinants of nucleosome organization in primary human cells
title_fullStr	Determinants of nucleosome organization in primary human cells
title_full_unstemmed	Determinants of nucleosome organization in primary human cells
title_sort	determinants of nucleosome organization in primary human cells
description	Nucleosomes are the basic packaging units of chromatin, modulating accessibility of regulatory proteins to DNA and thus influencing eukaryotic gene regulation. Elaborate chromatin remodeling mechanisms have evolved that govern nucleosome organization at promoters, regulatory elements, and other functional regions in the genome1. Analyses of chromatin landscape have uncovered a variety of mechanisms, including DNA sequence preferences, that can influence nucleosome positions2–4. To identify major determinants of nucleosome organization in the human genome, we utilized deep sequencing to map nucleosome positions in three primary human cell types and in vitro. A majority of the genome exhibited substantial flexibility of nucleosome positions while a small fraction showed reproducibly positioned nucleosomes. Certain sites that position in vitro can anchor the formation of nucleosomal arrays that have cell type-specific spacing in vivo. Our results unveil an interplay of sequence-based nucleosome preferences and non-nucleosomal factors in determining nucleosome organization within mammalian cells.
publishDate	2011
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3212987/
_version_	1611486715265941504

Determinants of nucleosome organization in primary human cells

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