Trac-looping 可测量基因组结构和染色质可及性。
Trac-looping measures genome structure and chromatin accessibility.
机构信息
Laboratory of Epigenome Biology, Systems Biology Center, National Heart, Lung and Blood Institute, NIH, Bethesda, MD, USA.
Department of Biology, South University of Science and Technology of China, Shenzhen, China.
出版信息
Nat Methods. 2018 Sep;15(9):741-747. doi: 10.1038/s41592-018-0107-y. Epub 2018 Aug 27.
Abstract
Long-range chromatin interactions play critical roles in genome organization and regulation of transcription. We now report transposase-mediated analysis of chromatin looping (Trac-looping) for simultaneous detection of multiscale genome-wide chromatin interactions among regulatory elements and chromatin accessibility. With this technique, a bivalent oligonucleotide linker is inserted between two interacting regions such that the chromatin interactions are captured without prior chromatin fragmentation and proximity-based ligation. Application of Trac-looping to human CD4 T cells revealed substantial reorganization of enhancer-promoter interactions associated with changes in gene expression after T cell receptor stimulation.
摘要
长程染色质相互作用在基因组组织和转录调控中发挥着关键作用。我们现在报告了转座酶介导的染色质环化分析（Trac-looping），用于同时检测调控元件和染色质可及性之间的多尺度全基因组染色质相互作用。通过这项技术，将一个双价寡核苷酸接头插入两个相互作用的区域之间，使得染色质相互作用在不预先进行染色质片段化和基于邻近性的连接的情况下被捕获。将 Trac-looping 应用于人类 CD4 T 细胞，揭示了 T 细胞受体刺激后基因表达变化相关的增强子-启动子相互作用的大量重排。
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