Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

被引：2240

作者：

Chen, Xi ^{[2
,3
]}

Xu, Han

Yuan, Ping ^{[2
]}

Fang, Fang ^{[2
,3
]}

Huss, Mikael

Vega, Vinsensius B.

Wong, Eleanor ^{[1
]}

Orlov, Yuriy L. ^{[4
]}

Zhang, Weiwei ^{[2
,3
]}

Jiang, Jianming ^{[2
,3
]}

Loh, Yuin-Han ^{[2
,3
]}

Yeo, Hock Chuan ^{[4
]}

Yeo, Zhen Xuan ^{[4
]}

Narang, Vipin

Govindarajan, Kunde Ramamoorthy

Leong, Bernard

Shahab, Atif

Ruan, Yijun ^{[1
]}

Bourque, Guillaume

Sung, Wing-Kin

Clarke, Neil D. ^{[4
]}

Wei, Chia-Lin ^{[1
]}

Ng, Huck-Hui ^{[2
,3
]}

机构：

[1] Genome Inst Singapore, Genome Technol & Biol Grp, Singapore 138672, Singapore

[2] Genome Inst Singapore, Gene Regulat Lab, Singapore 138672, Singapore

[3] Natl Univ Singapore, Dept Biol Sci, Singapore 117543, Singapore

[4] Genome Inst Singapore, Computat & Syst Biol Grp, Singapore 138672, Singapore

来源：

CELL | 2008年 / 133卷 / 06期

关键词：

D O I：

10.1016/j.cell.2008.04.043

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 [生物化学与分子生物学]; 081704 [应用化学];

摘要：

Transcription factors (TFs) and their specific interactions with targets are crucial for specifying gene-expression programs. To gain insights into the transcriptional regulatory networks in embryonic stem (ES) cells, we use chromatin immunoprecipitation coupled with ultra-high-throughput DNA sequencing (ChIP-seq) to map the locations of 13 sequence-specific TFs (Nanog, Oct4, STAT3, Smad1, Sox2, Zfx, c-Myc, n-Myc, Klf4, Esrrb, Tcfcp2l1, E2f1, and CTCF) and 2 transcription regulators (p300 and Suz12). These factors are known to play different roles in ES-cell biology as components of the LIF and BMP signaling pathways, self-renewal regulators, and key reprogramming factors. Our study provides insights into the integration of the signaling pathways into the ES-cell-specific transcription circuitries. Intriguingly, we find specific genomic regions extensively targeted by different TFs. Collectively, the comprehensive mapping of TF-binding sites identifies important features of the transcriptional regulatory networks that define ES-cell identity.

引用

页码：1106 / 1117

页数：12

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