| Literature DB >> 29203764 |
Pengze Wu1, Tingting Li1, Ruifeng Li1, Lumeng Jia1, Ping Zhu1, Yifang Liu2, Qing Chen1, Daiwei Tang2, Yuezhou Yu1, Cheng Li3,4.
Abstract
The Hi-C method is widely used to study the functional roles of the three-dimensional (3D) architecture of genomes. Here, we integrate Hi-C, whole-genome sequencing (WGS) and RNA-seq to study the 3D genome architecture of multiple myeloma (MM) and how it associates with genomic variation and gene expression. Our results show that Hi-C interaction matrices are biased by copy number variations (CNVs) and can be used to detect CNVs. Also, combining Hi-C and WGS data can improve the detection of translocations. We find that CNV breakpoints significantly overlap with topologically associating domain (TAD) boundaries. Compared to normal B cells, the numbers of TADs increases by 25% in MM, the average size of TADs is smaller, and about 20% of genomic regions switch their chromatin A/B compartment types. In summary, we report a 3D genome interaction map of aneuploid MM cells and reveal the relationship among CNVs, translocations, 3D genome reorganization, and gene expression regulation.Entities:
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Year: 2017 PMID： 29203764 PMCID： PMC5715138 DOI： 10.1038/s41467-017-01793-w
Source DB: PubMed Journal: Nat Commun ISSN： 2041-1723 Impact factor: 14.919