报告题目：Hierarchical Deciphering Chromatin Interactions: From Mathematical Modeling to Biological Discoveries

报告人：Chen Yong，Center for Systems Biology, School of Natural Sciences and Mathematics, The University of Texas at Dallas, Richardson, TX 75080, USA

时间：9:00–10:30, Tuesday, October 18

地点：B1032 Zhixin Building

摘要：Defining chromatin interaction frequencies and topological domains is a great challenge for the annotations of genome structures and functional regulations. We designed a novel computational method, called CITD, for de novo prediction of the chromatin interaction map by using Wavelet Transformation technology and integrating histone modification data. We used the public epigenomic data from human fibroblast IMR90 cell and embryonic stem cell (H1) to develop and test CITD, which can not only successfully reconstruct the chromatin interaction frequencies discovered by the Hi-C technology, but also provide additional novel details of chromosomal organizations. We predicted the chromatin interaction frequencies, topological domains and their states (e.g., active or repressive) for 98 additional cell types from Roadmap Epigenomics and ENCODE projects. We also designed a CRISPR affinity purification in situ of regulatory elements (CAPTURE) approach to unbiasedly identify locus-specific chromatin-regulating proteins, RNAs and long-range DNA interactions. We employed a Bayesian Mixture Model for denoising and achieved high-resolution of molecular interactions at a single genomic locus. Our studies improved the understanding of spatial principles underlying the chromosomal organization at different scales and different cell types (diseases), and highlighted several challenging problems in modeling/controlling the dynamic system of nuclear organization.