BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions

Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Min-Ping Qian, Michael Q. Zhang () and Yang Chen ()
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Zhengyu Liang: Tsinghua University
Guipeng Li: Tsinghua University
Zejun Wang: Tsinghua University
Mohamed Nadhir Djekidel: Tsinghua University
Yanjian Li: Tsinghua University
Min-Ping Qian: Peking University
Michael Q. Zhang: Tsinghua University
Yang Chen: Tsinghua University

Nature Communications, 2017, vol. 8, issue 1, 1-7

Abstract: Abstract In human cells, DNA is hierarchically organized and assembled with histones and DNA-binding proteins in three dimensions. Chromatin interactions play important roles in genome architecture and gene regulation, including robustness in the developmental stages and flexibility during the cell cycle. Here we propose in situ Hi-C method named Bridge Linker-Hi-C (BL-Hi-C) for capturing structural and regulatory chromatin interactions by restriction enzyme targeting and two-step proximity ligation. This method improves the sensitivity and specificity of active chromatin loop detection and can reveal the regulatory enhancer-promoter architecture better than conventional methods at a lower sequencing depth and with a simpler protocol. We demonstrate its utility with two well-studied developmental loci: the beta-globin and HOXC cluster regions.

Date: 2017
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DOI: 10.1038/s41467-017-01754-3

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