Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression

It is currently unclear how quantitative changes in chromatin loop propensity contribute to differential gene regulation. Here, the authors use phased Hi-C, RNA-seq, and ChIP-seq to show that subtle changes in loop propensity associate with differential gene regulation across cell types and haplotyp...

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Main Authors:	William W. Greenwald, He Li, Paola Benaglio, David Jakubosky, Hiroko Matsui, Anthony Schmitt, Siddarth Selvaraj, Matteo D’Antonio, Agnieszka D’Antonio-Chronowska, Erin N. Smith, Kelly A. Frazer
Format:	Article
Language:	English
Published:	Nature Publishing Group 2019-03-01
Series:	Nature Communications
Online Access:	https://doi.org/10.1038/s41467-019-08940-5

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spelling	doaj-f72b1213a233451aa67b2d6cb89c60be2021-05-11T12:11:36ZengNature Publishing GroupNature Communications2041-17232019-03-0110111710.1038/s41467-019-08940-5Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expressionWilliam W. Greenwald0He Li1Paola Benaglio2David Jakubosky3Hiroko Matsui4Anthony Schmitt5Siddarth Selvaraj6Matteo D’Antonio7Agnieszka D’Antonio-Chronowska8Erin N. Smith9Kelly A. Frazer10Bioinformatics and Systems Biology Graduate Program, University of California, San DiegoInstitute for Genomic Medicine, University of California, San DiegoDepartment of Pediatrics and Rady Children’s Hospital, University of California, San DiegoBiomedical Sciences Graduate Program, University of California, San DiegoInstitute for Genomic Medicine, University of California, San DiegoArima GenomicsArima GenomicsInstitute for Genomic Medicine, University of California, San DiegoInstitute for Genomic Medicine, University of California, San DiegoDepartment of Pediatrics and Rady Children’s Hospital, University of California, San DiegoInstitute for Genomic Medicine, University of California, San DiegoIt is currently unclear how quantitative changes in chromatin loop propensity contribute to differential gene regulation. Here, the authors use phased Hi-C, RNA-seq, and ChIP-seq to show that subtle changes in loop propensity associate with differential gene regulation across cell types and haplotypes.https://doi.org/10.1038/s41467-019-08940-5
collection	DOAJ
language	English
format	Article
sources	DOAJ
author	William W. Greenwald He Li Paola Benaglio David Jakubosky Hiroko Matsui Anthony Schmitt Siddarth Selvaraj Matteo D’Antonio Agnieszka D’Antonio-Chronowska Erin N. Smith Kelly A. Frazer
spellingShingle	William W. Greenwald He Li Paola Benaglio David Jakubosky Hiroko Matsui Anthony Schmitt Siddarth Selvaraj Matteo D’Antonio Agnieszka D’Antonio-Chronowska Erin N. Smith Kelly A. Frazer Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression Nature Communications
author_facet	William W. Greenwald He Li Paola Benaglio David Jakubosky Hiroko Matsui Anthony Schmitt Siddarth Selvaraj Matteo D’Antonio Agnieszka D’Antonio-Chronowska Erin N. Smith Kelly A. Frazer
author_sort	William W. Greenwald
title	Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
title_short	Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
title_full	Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
title_fullStr	Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
title_full_unstemmed	Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
title_sort	subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression
publisher	Nature Publishing Group
series	Nature Communications
issn	2041-1723
publishDate	2019-03-01
description	It is currently unclear how quantitative changes in chromatin loop propensity contribute to differential gene regulation. Here, the authors use phased Hi-C, RNA-seq, and ChIP-seq to show that subtle changes in loop propensity associate with differential gene regulation across cell types and haplotypes.
url	https://doi.org/10.1038/s41467-019-08940-5
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Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression

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