染色质
增强子
生物
相互作用体
计算生物学
发起人
平铺阵列
核糖核酸
非编码RNA
遗传学
长非编码RNA
嘉雅宠物
抄写(语言学)
转录因子
DNA
基因
染色质重塑
基因表达
转录组
哲学
语言学
作者
Xiao Li,Bing Zhou,Liang Chen,Lan‐Tao Gou,Hairi Li,Xiang‐Dong Fu
摘要
The RNAs bound to the genome and their binding sites are detected with GRID-seq. Higher eukaryotic genomes are bound by a large number of coding and non-coding RNAs, but approaches to comprehensively map the identity and binding sites of these RNAs are lacking. Here we report a method to capture in situ global RNA interactions with DNA by deep sequencing (GRID-seq), which enables the comprehensive identification of the entire repertoire of chromatin-interacting RNAs and their respective binding sites. In human, mouse, and Drosophila cells, we detected a large set of tissue-specific coding and non-coding RNAs that are bound to active promoters and enhancers, especially super-enhancers. Assuming that most mRNA–chromatin interactions indicate the physical proximity of a promoter and an enhancer, we constructed a three-dimensional global connectivity map of promoters and enhancers, revealing transcription-activity-linked genomic interactions in the nucleus.
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