Large-scale determination and characterization of cell type-specific regulatory elements in the human genome

doi:10.1093/jmcb/mjx058

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	Large-scale determination and characterization of cell type-specific regulatory elements in the human genome
	Wang, Can 1,2; Zhang, Shihua 1,2; Zhang Shihua
刊名	JOURNAL OF MOLECULAR CELL BIOLOGY
	2017-12-01
卷号	9 期号:6 页码:463-476
关键词	epigenomics histone modification cell type-specific regulatory elements bioinformatics
ISSN号	1674-2788
DOI	10.1093/jmcb/mjx058
英文摘要	Histone modifications have been widely elucidated to play vital roles in gene regulation and cell identity. The Roadmap Epigenomics Consortium generated a reference catalog of several key histone modifications across >100s of human cell types and tissues. Decoding these epigenomes into functional regulatory elements is a challenging task in computational biology. To this end, we adopted a differential chromatin modification analysis framework to comprehensively determine and characterize cell type-specific regulatory elements (CSREs) and their histone modification codes in the human epigenomes of five histone modifications across 127 tissues or cell types. The CSREs show significant relevance with cell type-specific biological functions and diseases and cell identity. Clustering of CSREs with their specificity signals reveals distinct histone codes, demonstrating the diversity of functional roles of CSREs within the same cell or tissue. Last but not least, dynamics of CSREs from close cell types or tissues can give a detailed view of developmental processes such as normal tissue development and cancer occurrence.
资助项目	National Natural Science Foundation of China[61422309] ; National Natural Science Foundation of China[61379092] ; National Natural Science Foundation of China[61621003] ; National Natural Science Foundation of China[11661141019] ; Strategic Priority Research Program of the Chinese Academy of Sciences (CAS)[XDB13040600] ; CAS Frontier Science Research Key Project for Top Young Scientist[QYZDB-SSW-SYS008] ; National Natural Science Foundation of China[61422309] ; National Natural Science Foundation of China[61379092] ; National Natural Science Foundation of China[61621003] ; National Natural Science Foundation of China[11661141019] ; Strategic Priority Research Program of the Chinese Academy of Sciences (CAS)[XDB13040600] ; CAS Frontier Science Research Key Project for Top Young Scientist[QYZDB-SSW-SYS008]
WOS研究方向	Cell Biology
语种	英语
出版者	OXFORD UNIV PRESS
WOS记录号	WOS:000425284600004
内容类型	期刊论文
源URL	[http://ir.amss.ac.cn/handle/2S8OKBNM/29661]
专题	应用数学研究所
通讯作者	Zhang, Shihua
作者单位	1.Chinese Acad Sci, Acad Math & Syst Sci, RCSDS, NCMIS,CEMS, Beijing 100190, Peoples R China 2.Univ Chinese Acad Sci, Sch Math Sci, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Wang, Can,Zhang, Shihua,Zhang Shihua. Large-scale determination and characterization of cell type-specific regulatory elements in the human genome[J]. JOURNAL OF MOLECULAR CELL BIOLOGY,2017,9(6):463-476.
APA	Wang, Can,Zhang, Shihua,&Zhang Shihua.(2017).Large-scale determination and characterization of cell type-specific regulatory elements in the human genome.JOURNAL OF MOLECULAR CELL BIOLOGY,9(6),463-476.
MLA	Wang, Can,et al."Large-scale determination and characterization of cell type-specific regulatory elements in the human genome".JOURNAL OF MOLECULAR CELL BIOLOGY 9.6(2017):463-476.