期刊
NATURE GENETICS
卷 50, 期 5, 页码 754-+出版社
NATURE PORTFOLIO
DOI: 10.1038/s41588-018-0111-2
关键词
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资金
- National Key Research and Development Project of China [2016YFA0102500, 2017YFD0500303]
- National Natural Science Foundation of China [91440114, 31421064]
- Fundamental Research Funds for the Central Universities [2662014PY001, 2662015PY164]
- Huazhong Agricultural University Scientific & Technological Self-innovation Foundation [52204-13002]
- Huazhong Agricultural University Independent Scientific & Technological Innovation Foundation [2014bs13]
Chromosome conformation capture (3C) technologies can be used to investigate 3D genomic structures. However, high background noise, high costs, and a lack of straightforward noise evaluation in current methods impede the advancement of 3D genomic research. Here we developed a simple digestion-ligation-only Hi-C (DLO Hi-C) technology to explore the 3D landscape of the genome. This method requires only two rounds of digestion and ligation, without the need for biotin labeling and pull-down. Non-ligated DNA was efficiently removed in a cost-effective step by purifying specific linker-ligated DNA fragments. Notably, random ligation could be quickly evaluated in an early quality-control step before sequencing. Moreover, an in situ version of DLO Hi-C using a four-cutter restriction enzyme has been developed. We applied DLO Hi-C to delineate the genomic architecture of THP-1 and K562 cells and uncovered chromosomal translocations. This technology may facilitate investigation of genomic organization, gene regulation, and (meta) genome assembly.
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