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	Characterizing the strand-specific distribution of non-CpG methylation in human pluripotent cells
	Guo, Weilong ; Chung, Wen-Yu ; Qian, Minping ; Pellegrini, Matteo ; Zhang, Michael Q.
	2014
关键词	DNA METHYLATION STEM-CELLS HUMAN GENOME EVOLUTION PATTERNS 5-HYDROXYMETHYLCYTOSINE ARABIDOPSIS ASYMMETRIES LANDSCAPE METHYLOME
英文摘要	DNA methylation is an important defense and regulatory mechanism. In mammals, most DNA methylation occurs at CpG sites, and asymmetric non-CpG methylation has only been detected at appreciable levels in a few cell types. We are the first to systematically study the strand-specific distribution of non-CpG methylation. With the divide-and compare strategy, we show that CHG and CHH methylation are not intrinsically different in human embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs). We also find that non-CpG methylation is skewed between the two strands in introns, especially at intron boundaries and in highly expressed genes. Controlling for the proximal sequences of non-CpG sites, we show that the skew of non-CpG methylation in introns is mainly guided by sequence skew. By studying subgroups of transposable elements, we also found that non-CpG methylation is distributed in a strand-specific manner in both short interspersed nuclear elements (SINE) and long interspersed nuclear elements (LINE), but not in long terminal repeats (LTR). Finally, we show that on the antisense strand of Alus, a non-CpG site just downstream of the A-box is highly methylated. Together, the divide-and-compare strategy leads us to identify regions with strand-specific distributions of non-CpG methylation in humans.; Biochemistry & Molecular Biology; SCI(E); 3; ARTICLE; matteop@mcdb.ucla.edu; michael.zhang@utdallas.edu; 5; 3009-3016; 42
语种	英语
出处	SCI
出版者	核酸研究
内容类型	其他
源URL	[http://hdl.handle.net/20.500.11897/389791]
专题	数学科学学院
推荐引用方式 GB/T 7714	Guo, Weilong,Chung, Wen-Yu,Qian, Minping,et al. Characterizing the strand-specific distribution of non-CpG methylation in human pluripotent cells. 2014-01-01.

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