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3D genome of multiple myeloma reveals spatial genome disorganization associated with copy number variations

Wu, Pengze ; Li, Tingting ; Li, Ruifeng ; Jia, Lumeng ; Zhu, Ping ; Liu, Yifang ; Chen, Qing ; Tang, Daiwei ; Yu, Yuezhou ; Li, Cheng

Nature communications, 2017-12, Vol.8 (1), p.1937-11, Article 1937 [Periódico revisado por pares]

England: Nature Publishing Group

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  • Título:
    3D genome of multiple myeloma reveals spatial genome disorganization associated with copy number variations
  • Autor: Wu, Pengze ; Li, Tingting ; Li, Ruifeng ; Jia, Lumeng ; Zhu, Ping ; Liu, Yifang ; Chen, Qing ; Tang, Daiwei ; Yu, Yuezhou ; Li, Cheng
  • Assuntos: Architecture ; Breakpoints ; Chromatin ; Copy number ; Gene expression ; Gene sequencing ; Genomes ; Lymphocytes B ; Multiple myeloma ; Ribonucleic acid ; RNA ; Translocation ; Variation
  • É parte de: Nature communications, 2017-12, Vol.8 (1), p.1937-11, Article 1937
  • Notas: ObjectType-Article-1
    SourceType-Scholarly Journals-1
    ObjectType-Feature-2
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  • Descrição: 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.
  • Editor: England: Nature Publishing Group
  • Idioma: Inglês
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  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

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