Literature DB >> 34009619

ChIP-Sequencing of TET Proteins.

Kasper D Rasmussen1, Kristian Helin2,3,4.   

Abstract

TET proteins are methylcytosine dioxygenases that interact directly with chromatin to shape the DNA methylation landscape. To increase the understanding of TET protein function in a specific cellular context, it is important to be able to map the interactions between TET proteins and DNA. This ChIP-seq protocol details our procedure to analyze TET2 bound DNA in disuccinimidyl glutarate (DSG) and formaldehyde-crosslinked chromatin but can also be adapted to study other TET enzymes.

Entities:  

Keywords:  ChIP-seq; DNA methylation; DSG; TET1; TET2; TET3

Year:  2021        PMID： 34009619     DOI： 10.1007/978-1-0716-1294-1_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  12 in total

1.  Genome-wide regulation of 5hmC, 5mC, and gene expression by Tet1 hydroxylase in mouse embryonic stem cells.

Authors:  Yufei Xu; Feizhen Wu; Li Tan; Lingchun Kong; Lijun Xiong; Jie Deng; Andrew J Barbera; Lijuan Zheng; Haikuo Zhang; Stephen Huang; Jinrong Min; Thomas Nicholson; Taiping Chen; Guoliang Xu; Yang Shi; Kun Zhang; Yujiang Geno Shi
Journal:  Mol Cell       Date:  2011-04-21       Impact factor: 17.970

2.  TET1 and hydroxymethylcytosine in transcription and DNA methylation fidelity.

Authors:  Kristine Williams; Jesper Christensen; Marianne Terndrup Pedersen; Jens V Johansen; Paul A C Cloos; Juri Rappsilber; Kristian Helin
Journal:  Nature       Date:  2011-04-13       Impact factor: 49.962

3.  Cooperative Action between SALL4A and TET Proteins in Stepwise Oxidation of 5-Methylcytosine.

Authors:  Jun Xiong; Zhuqiang Zhang; Jiayu Chen; Hua Huang; Yali Xu; Xiaojun Ding; Yong Zheng; Ryuichi Nishinakamura; Guo-Liang Xu; Hailin Wang; She Chen; Shaorong Gao; Bing Zhu
Journal:  Mol Cell       Date:  2016-11-10       Impact factor: 17.970

4.  Crystal structure of TET2-DNA complex: insight into TET-mediated 5mC oxidation.

Authors:  Lulu Hu; Ze Li; Jingdong Cheng; Qinhui Rao; Wei Gong; Mengjie Liu; Yujiang Geno Shi; Jiayu Zhu; Ping Wang; Yanhui Xu
Journal:  Cell       Date:  2013-12-05       Impact factor: 41.582

5.  Dual functions of Tet1 in transcriptional regulation in mouse embryonic stem cells.

Authors:  Hao Wu; Ana C D'Alessio; Shinsuke Ito; Kai Xia; Zhibin Wang; Kairong Cui; Keji Zhao; Yi Eve Sun; Yi Zhang
Journal:  Nature       Date:  2011-03-30       Impact factor: 49.962

6.  Structural insight into substrate preference for TET-mediated oxidation.

Authors:  Lulu Hu; Junyan Lu; Jingdong Cheng; Qinhui Rao; Ze Li; Haifeng Hou; Zhiyong Lou; Lei Zhang; Wei Li; Wei Gong; Mengjie Liu; Chang Sun; Xiaotong Yin; Jie Li; Xiangshi Tan; Pengcheng Wang; Yinsheng Wang; Dong Fang; Qiang Cui; Pengyuan Yang; Chuan He; Hualiang Jiang; Cheng Luo; Yanhui Xu
Journal:  Nature       Date:  2015-10-28       Impact factor: 49.962

7.  TET2 coactivates gene expression through demethylation of enhancers.

Authors:  Lu Wang; Patrick A Ozark; Edwin R Smith; Zibo Zhao; Stacy A Marshall; Emily J Rendleman; Andrea Piunti; Caila Ryan; Anna L Whelan; Kathryn A Helmin; Marc Alard Morgan; Lihua Zou; Benjamin D Singer; Ali Shilatifard
Journal:  Sci Adv       Date:  2018-11-07       Impact factor: 14.136

8.  TET2 binding to enhancers facilitates transcription factor recruitment in hematopoietic cells.

Authors:  Kasper D Rasmussen; Ivan Berest; Sandra Keβler; Koutarou Nishimura; Lucía Simón-Carrasco; George S Vassiliou; Marianne T Pedersen; Jesper Christensen; Judith B Zaugg; Kristian Helin
Journal:  Genome Res       Date:  2019-02-22       Impact factor: 9.043

9.  TET2 promotes histone O-GlcNAcylation during gene transcription.

Authors:  Qiang Chen; Yibin Chen; Chunjing Bian; Ryoji Fujiki; Xiaochun Yu
Journal:  Nature       Date:  2012-12-09       Impact factor: 49.962

10.  TET2 and TET3 regulate GlcNAcylation and H3K4 methylation through OGT and SET1/COMPASS.

Authors:  Rachel Deplus; Benjamin Delatte; Marie K Schwinn; Matthieu Defrance; Jacqui Méndez; Nancy Murphy; Mark A Dawson; Michael Volkmar; Pascale Putmans; Emilie Calonne; Alan H Shih; Ross L Levine; Olivier Bernard; Thomas Mercher; Eric Solary; Marjeta Urh; Danette L Daniels; François Fuks
Journal:  EMBO J       Date:  2013-01-25       Impact factor: 11.598
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