IDR2D 可识别可重现的基因组相互作用。

Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, 32 Vassar Street, Cambridge, MA 02139, USA.

Department of Biological Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA.

Nucleic Acids Res. 2020 Apr 6;48(6):e31. doi: 10.1093/nar/gkaa030.

Chromatin interaction data from protocols such as ChIA-PET, HiChIP and Hi-C provide valuable insights into genome organization and gene regulation, but can include spurious interactions that do not reflect underlying genome biology. We introduce an extension of the Irreproducible Discovery Rate (IDR) method called IDR2D that identifies replicable interactions shared by chromatin interaction experiments. IDR2D provides a principled set of interactions and eliminates artifacts from single experiments. The method is available as a Bioconductor package for the R community, as well as an online service at https://idr2d.mit.edu.

来自 ChIA-PET、HiChIP 和 Hi-C 等实验方案的染色质互作数据为基因组结构和基因调控提供了有价值的见解，但其中可能包含并不反映潜在基因组生物学的虚假互作。我们引入了一种可重复性发现率（IDR）方法的扩展，称为 IDR2D，它可以识别染色质互作实验中共享的可复制互作。IDR2D 提供了一组经过原理验证的互作，并从单个实验中消除了伪影。该方法作为 R 社区的 Bioconductor 包提供，并且在 https://idr2d.mit.edu 上提供在线服务。