Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

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• dc.contributor.author Akdemir, Kadir C.
• dc.contributor.author Le, Victoria T.
• dc.contributor.author Chandran, Sahaana
• dc.contributor.author Li, Yilong
• dc.contributor.author Verhaak, Roel G.
• dc.contributor.author Beroukhim, Rameen
• dc.contributor.author Campbell, Peter J.
• dc.contributor.author Chin, Linda
• dc.contributor.author PCAWG Structural Variation Working Group
• dc.contributor.author Dixon, Jesse R.
• dc.contributor.author Futreal, P. Andrew
• dc.contributor.author PCAWG Consortium
• dc.contributor.author Ossowski, Stephan
• dc.date.accessioned 2020-04-27T10:21:34Z
• dc.date.available 2020-04-27T10:21:34Z
• dc.date.issued 2020
• dc.description.abstract Chromatin is folded into successive layers to organize linear DNA. Genes within the same topologically associating domains (TADs) demonstrate similar expression and histone-modification profiles, and boundaries separating different domains have important roles in reinforcing the stability of these features. Indeed, domain disruptions in human cancers can lead to misregulation of gene expression. However, the frequency of domain disruptions in human cancers remains unclear. Here, as part of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA), which aggregated whole-genome sequencing data from 2,658 cancers across 38 tumor types, we analyzed 288,457 somatic structural variations (SVs) to understand the distributions and effects of SVs across TADs. Notably, SVs can lead to the fusion of discrete TADs, and complex rearrangements markedly change chromatin folding maps in the cancer genomes. Notably, only 14% of the boundary deletions resulted in a change in expression in nearby genes of more than twofold.
• dc.description.sponsorship This work was supported by a Cancer Prevention Research Institute of Texas award (R1205), the Welch Foundation’s Robert A. Welch Distinguished Chair Award (G-0040 to P.A.F.) and the Emerson Collective Cancer Research Fund (to K.C.A.). J.R.D. is supported by an NIH Director’s Early Independence Award (DP5OD023071)
• dc.format.mimetype application/pdf
• dc.identifier.citation Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R et al. Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. Nat Genet. 2020 Mar; 52(3): 294-305. DOI: 10.1038/s41588-019-0564-y
• dc.identifier.doi http://dx.doi.org/10.1038/s41588-019-0564-y
• dc.identifier.issn 1061-4036
• dc.identifier.uri http://hdl.handle.net/10230/44339
• dc.language.iso eng
• dc.publisher Nature Research
• dc.relation.ispartof Nature Genetics. 2020 Mar;52(3):294-305
• dc.rights © Kadir C. Akdemir et al. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.other Genètica
• dc.subject.other Cromatina
• dc.subject.other Reordenament genètic
• dc.subject.other Genoma humà
• dc.subject.other Tumors
• dc.title Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion