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The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells

The genes POU5F1 and SOX2 are critical for pluripotency and reprogramming, yet the chromosomal organization around these genes remains poorly understood. We assayed long-range chromosomal interactions on putative enhancers of POU5F1 and SOX2 genes in human embryonic stem cells (hESCs) using 4C-Seq t...

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Autores principales: Gao, Fan, Wei, Zong, An, Woojin, Wang, Kai, Lu, Wange
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070749/
https://www.ncbi.nlm.nih.gov/pubmed/23549118
http://dx.doi.org/10.1038/srep01588
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author Gao, Fan
Wei, Zong
An, Woojin
Wang, Kai
Lu, Wange
author_facet Gao, Fan
Wei, Zong
An, Woojin
Wang, Kai
Lu, Wange
author_sort Gao, Fan
collection PubMed
description The genes POU5F1 and SOX2 are critical for pluripotency and reprogramming, yet the chromosomal organization around these genes remains poorly understood. We assayed long-range chromosomal interactions on putative enhancers of POU5F1 and SOX2 genes in human embryonic stem cells (hESCs) using 4C-Seq technique. We discovered that their frequent interacting regions mainly overlap with early DNA replication domains. The interactomes are associated with active histone marks and enriched with 5-hydroxymethylcytosine sites. In hESCs, genes within the interactomes have elevated expression. Additionally, some genes associated with the POU5F1 enhancer contribute to pluripotency. Binding sites for multiple DNA binding proteins, including ATF3, CTCF, GABPA, JUND, NANOG, RAD21 and YY1, are enriched in both interactomes. The RARG locus, frequently interacting with the POU5F1 locus, has abundant RAD21 binding sites co-localized with other protein binding sites. Thus the interactomes of these two pluripotency genes could be an important part of the regulatory network in hESCs.
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spelling pubmed-40707492014-06-26 The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells Gao, Fan Wei, Zong An, Woojin Wang, Kai Lu, Wange Sci Rep Article The genes POU5F1 and SOX2 are critical for pluripotency and reprogramming, yet the chromosomal organization around these genes remains poorly understood. We assayed long-range chromosomal interactions on putative enhancers of POU5F1 and SOX2 genes in human embryonic stem cells (hESCs) using 4C-Seq technique. We discovered that their frequent interacting regions mainly overlap with early DNA replication domains. The interactomes are associated with active histone marks and enriched with 5-hydroxymethylcytosine sites. In hESCs, genes within the interactomes have elevated expression. Additionally, some genes associated with the POU5F1 enhancer contribute to pluripotency. Binding sites for multiple DNA binding proteins, including ATF3, CTCF, GABPA, JUND, NANOG, RAD21 and YY1, are enriched in both interactomes. The RARG locus, frequently interacting with the POU5F1 locus, has abundant RAD21 binding sites co-localized with other protein binding sites. Thus the interactomes of these two pluripotency genes could be an important part of the regulatory network in hESCs. Nature Publishing Group 2013-04-03 /pmc/articles/PMC4070749/ /pubmed/23549118 http://dx.doi.org/10.1038/srep01588 Text en Copyright © 2013, Macmillan Publishers Limited. All rights reserved http://creativecommons.org/licenses/by-nc-nd/3.0/ This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported License. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-nd/3.0/
spellingShingle Article
Gao, Fan
Wei, Zong
An, Woojin
Wang, Kai
Lu, Wange
The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title_full The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title_fullStr The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title_full_unstemmed The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title_short The interactomes of POU5F1 and SOX2 enhancers in human embryonic stem cells
title_sort interactomes of pou5f1 and sox2 enhancers in human embryonic stem cells
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4070749/
https://www.ncbi.nlm.nih.gov/pubmed/23549118
http://dx.doi.org/10.1038/srep01588
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