Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes

Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes

A fraction of mammalian CTCF binding sites fall within transposable elements (TEs) but their contribution to the evolution of 3D chromatin structure is unknown. Here the authors investigate the effect of TE-driven CTCF binding site expansions on chromatin looping in humans and mice, and provide evid...

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Main Authors: Adam G. Diehl, Ningxin Ouyang, Alan P. Boyle
Format: Article
Language:English
Published: Nature Publishing Group 2020-04-01
Series:Nature Communications
Online Access:https://doi.org/10.1038/s41467-020-15520-5
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spelling doaj-92a43e8e744343bfb98662cec180788a2021-05-11T08:21:02ZengNature Publishing GroupNature Communications2041-17232020-04-0111111810.1038/s41467-020-15520-5Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomesAdam G. Diehl0Ningxin Ouyang1Alan P. Boyle2Department of Computational Medicine and Bioinformatics, University of MichiganDepartment of Computational Medicine and Bioinformatics, University of MichiganDepartment of Computational Medicine and Bioinformatics, University of MichiganA fraction of mammalian CTCF binding sites fall within transposable elements (TEs) but their contribution to the evolution of 3D chromatin structure is unknown. Here the authors investigate the effect of TE-driven CTCF binding site expansions on chromatin looping in humans and mice, and provide evidence that TEs contribute to cell-specific and species-specific chromatin looping diversity and variable gene regulation in mammalian genomes.https://doi.org/10.1038/s41467-020-15520-5
collection DOAJ
language English
format Article
sources DOAJ
author Adam G. Diehl
Ningxin Ouyang
Alan P. Boyle
spellingShingle Adam G. Diehl
Ningxin Ouyang
Alan P. Boyle
Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
Nature Communications
author_facet Adam G. Diehl
Ningxin Ouyang
Alan P. Boyle
author_sort Adam G. Diehl
title Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
title_short Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
title_full Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
title_fullStr Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
title_full_unstemmed Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
title_sort transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes
publisher Nature Publishing Group
series Nature Communications
issn 2041-1723
publishDate 2020-04-01
description A fraction of mammalian CTCF binding sites fall within transposable elements (TEs) but their contribution to the evolution of 3D chromatin structure is unknown. Here the authors investigate the effect of TE-driven CTCF binding site expansions on chromatin looping in humans and mice, and provide evidence that TEs contribute to cell-specific and species-specific chromatin looping diversity and variable gene regulation in mammalian genomes.
url https://doi.org/10.1038/s41467-020-15520-5
work_keys_str_mv AT adamgdiehl transposableelementscontributetocellandspeciesspecificchromatinloopingandgeneregulationinmammaliangenomes
AT ningxinouyang transposableelementscontributetocellandspeciesspecificchromatinloopingandgeneregulationinmammaliangenomes
AT alanpboyle transposableelementscontributetocellandspeciesspecificchromatinloopingandgeneregulationinmammaliangenomes
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