Identifying chromatin features that regulate gene expression distribution

Abstract Gene expression variability, differences in the number of mRNA per cell across a population of cells, is ubiquitous across diverse organisms with broad impacts on cellular phenotypes. The role of chromatin in regulating average gene expression has been extensively studied. However, what asp...

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Autores principales:	Thanutra Zhang, Robert Foreman, Roy Wollman
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/83e4bca66a19494ab91ec682b35b09aa
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spelling	oai:doaj.org-article:83e4bca66a19494ab91ec682b35b09aa2021-12-02T12:33:54ZIdentifying chromatin features that regulate gene expression distribution10.1038/s41598-020-77638-22045-2322https://doaj.org/article/83e4bca66a19494ab91ec682b35b09aa2020-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-77638-2https://doaj.org/toc/2045-2322Abstract Gene expression variability, differences in the number of mRNA per cell across a population of cells, is ubiquitous across diverse organisms with broad impacts on cellular phenotypes. The role of chromatin in regulating average gene expression has been extensively studied. However, what aspects of the chromatin contribute to gene expression variability is still underexplored. Here we addressed this problem by leveraging chromatin diversity and using a systematic investigation of randomly integrated expression reporters to identify what aspects of chromatin microenvironment contribute to gene expression variability. Using DNA barcoding and split-pool decoding, we created a large library of isogenic reporter clones and identified reporter integration sites in a massive and parallel manner. By mapping our measurements of reporter expression at different genomic loci with multiple epigenetic profiles including the enrichment of transcription factors and the distance to different chromatin states, we identified new factors that impact the regulation of gene expression distributions.Thanutra ZhangRobert ForemanRoy WollmanNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-13 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Thanutra Zhang Robert Foreman Roy Wollman Identifying chromatin features that regulate gene expression distribution
description	Abstract Gene expression variability, differences in the number of mRNA per cell across a population of cells, is ubiquitous across diverse organisms with broad impacts on cellular phenotypes. The role of chromatin in regulating average gene expression has been extensively studied. However, what aspects of the chromatin contribute to gene expression variability is still underexplored. Here we addressed this problem by leveraging chromatin diversity and using a systematic investigation of randomly integrated expression reporters to identify what aspects of chromatin microenvironment contribute to gene expression variability. Using DNA barcoding and split-pool decoding, we created a large library of isogenic reporter clones and identified reporter integration sites in a massive and parallel manner. By mapping our measurements of reporter expression at different genomic loci with multiple epigenetic profiles including the enrichment of transcription factors and the distance to different chromatin states, we identified new factors that impact the regulation of gene expression distributions.
format	article
author	Thanutra Zhang Robert Foreman Roy Wollman
author_facet	Thanutra Zhang Robert Foreman Roy Wollman
author_sort	Thanutra Zhang
title	Identifying chromatin features that regulate gene expression distribution
title_short	Identifying chromatin features that regulate gene expression distribution
title_full	Identifying chromatin features that regulate gene expression distribution
title_fullStr	Identifying chromatin features that regulate gene expression distribution
title_full_unstemmed	Identifying chromatin features that regulate gene expression distribution
title_sort	identifying chromatin features that regulate gene expression distribution
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/83e4bca66a19494ab91ec682b35b09aa
work_keys_str_mv	AT thanutrazhang identifyingchromatinfeaturesthatregulategeneexpressiondistribution AT robertforeman identifyingchromatinfeaturesthatregulategeneexpressiondistribution AT roywollman identifyingchromatinfeaturesthatregulategeneexpressiondistribution
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Identifying chromatin features that regulate gene expression distribution

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