The genomic landscape of cohesin-associated chromatin interactions.
The genomic landscape of cohesin-associated chromatin interactions.
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粘着素相关染色质相互作用的基因组景观。
DOI：
10.1101/gr.156570.113
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发表时间：
2013-08
期刊：
影响因子：
7
通讯作者：
Noonan JP
中科院分区：
文献类型：
--
作者：
DeMare LE;Leng J;Cotney J;Reilly SK;Yin J;Sarro R;Noonan JP
粘着蛋白参与建立组织特异性DNA环，将增强子靶向启动子，并且还定位于由绝缘子蛋白CTCF结合的位点，其阻断增强子-启动子通信。然而，还没有在全基因组范围内表征粘着蛋白相关的相互作用。在这里，我们进行了染色质相互作用分析与配对末端标签测序（ChIA-PET）的粘附素亚基SMC 1A在发育中的小鼠肢体。我们确定了2264个SMC 1A相互作用，其中1491个（65%）涉及CTCF共同占据的位点。SMC 1A参与组织特异性增强子-启动子相互作用和划分相关调节输出区域的相互作用。与以前的研究相比，我们还确定了启动子和远端位点之间的相互作用，这些位点维持在多个组织中，但在胚胎干细胞中保持平衡，并在小鼠胚胎中解析为组织特异性激活或抑制的染色质状态。我们的研究结果揭示了基因组中粘着蛋白相关相互作用的多样性，并强调了它们在建立发育调控体系中的作用。
Cohesin is implicated in establishing tissue-specific DNA loops that target enhancers to promoters, and also localizes to sites bound by the insulator protein CTCF, which blocks enhancer-promoter communication. However, cohesin-associated interactions have not been characterized on a genome-wide scale. Here we performed chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) of the cohesin subunit SMC1A in developing mouse limb. We identified 2264 SMC1A interactions, of which 1491 (65%) involved sites co-occupied by CTCF. SMC1A participates in tissue-specific enhancer-promoter interactions and interactions that demarcate regions of correlated regulatory output. In contrast to previous studies, we also identified interactions between promoters and distal sites that are maintained in multiple tissues but are poised in embryonic stem cells and resolve to tissue-specific activated or repressed chromatin states in the mouse embryo. Our results reveal the diversity of cohesin-associated interactions in the genome and highlight their role in establishing the regulatory architecture of development.
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影响因子：
64.8
作者：
Ernst, Jason;Kheradpour, Pouya;Mikkelsen, Tarjei S.;Shoresh, Noam;Ward, Lucas D.;Epstein, Charles B.;Zhang, Xiaolan;Wang, Li;Issner, Robbyn;Coyne, Michael;Ku, Manching;Durham, Timothy;Kellis, Manolis;Bernstein, Bradley E.
通讯作者：
Bernstein, Bradley E.
影响因子：
64.8
作者：
Heintzman, Nathaniel D.;Hon, Gary C.;Hawkins, R. David;Kheradpour, Pouya;Stark, Alexander;Harp, Lindsey F.;Ye, Zhen;Lee, Leonard K.;Stuart, Rhona K.;Ching, Christina W.;Ching, Keith A.;Antosiewicz-Bourget, Jessica E.;Liu, Hui;Zhang, Xinmin;Green, Roland D.;Lobanenkov, Victor V.;Stewart, Ron;Thomson, James A.;Crawford, Gregory E.;Kellis, Manolis;Ren, Bing
通讯作者：
Ren, Bing
影响因子：
14.9
作者：
Dreszer TR;Karolchik D;Zweig AS;Hinrichs AS;Raney BJ;Kuhn RM;Meyer LR;Wong M;Sloan CA;Rosenbloom KR;Roe G;Rhead B;Pohl A;Malladi VS;Li CH;Learned K;Kirkup V;Hsu F;Harte RA;Guruvadoo L;Goldman M;Giardine BM;Fujita PA;Diekhans M;Cline MS;Clawson H;Barber GP;Haussler D;James Kent W
通讯作者：
James Kent W
DOI：
10.1073/pnas.1018279108
发表时间：
2011-05-03
影响因子：
11.1
作者：
Kim, Yoon Jung;Cecchini, Katharine R.;Kim, Tae Hoon
通讯作者：
Kim, Tae Hoon
影响因子：
64.5
作者：
Kim, Tae Hoon;Abdullaev, Ziedulla K.;Ren, Bing
通讯作者：
Ren, Bing