Exonuclease combinations reduce noises in 3D genomics technologies

文献类型： 外文期刊

第一作者： Kong, Siyuan

作者： Kong, Siyuan;Li, Qing;Zhang, Gaolin;Li, Qiujia;Huang, Qitong;Huang, Lei;Peng, Yanling;Zhang, Yubo;Zhang, Hui;Huang, Yinghua;Qin, Baoming

作者机构：

期刊名称：NUCLEIC ACIDS RESEARCH （ 影响因子：16.971； 五年影响因子：15.542 ）

ISSN： 0305-1048

年卷期： 2020 年 48 卷 8 期

页码：

收录情况： SCI

摘要： Chromosome conformation-capture technologies are widely used in 3D genomics; however, experimentally, such methods have high-noise limitations and, therefore, require significant bioinformatics efforts to extract reliable distal interactions. Miscellaneous undesired linear DNAs, present during proximity-ligation, represent a main noise source, which needs to be minimized or eliminated. In this study, different exonuclease combinations were tested to remove linear DNA fragments from a circularized DNA preparation. This method efficiently removed linear DNAs, raised the proportion of annulation and increased the valid-pairs ratio from similar to 40% to similar to 80% for enhanced interaction detection in standard Hi-C. This strategy is applicable for development of various 3D genomics technologies, or optimization of Hi-C sequencing efficiency.

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