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Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

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Rheinbay_2020_Nature_Non_coding_CC.pdf (14.28Mb)
Date
06/02/2020
Author
PCAWG Drivers and Functional Interpretation Working Group
PCAWG Structural Variation Working Group
PCAWG Consortium
Keywords
RC0254 Neoplasms. Tumors. Oncology (including Cancer)
QA75 Electronic computers. Computer science
3rd-DAS
SDG 3 - Good Health and Well-being
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Abstract
The discovery of drivers of cancer has traditionally focused on protein-coding genes1,2,3,4. Here we present analyses of driver point mutations and structural variants in non-coding regions across 2,658 genomes from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium5 of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). For point mutations, we developed a statistically rigorous strategy for combining significance levels from multiple methods of driver discovery that overcomes the limitations of individual methods. For structural variants, we present two methods of driver discovery, and identify regions that are significantly affected by recurrent breakpoints and recurrent somatic juxtapositions. Our analyses confirm previously reported drivers6,7, raise doubts about others and identify novel candidates, including point mutations in the 5′ region of TP53, in the 3′ untranslated regions of NFKBIZ and TOB1, focal deletions in BRD4 and rearrangements in the loci of AKR1C genes. We show that although point mutations and structural variants that drive cancer are less frequent in non-coding genes and regulatory sequences than in protein-coding genes, additional examples of these drivers will be found as more cancer genomes become available.
Citation
PCAWG Drivers and Functional Interpretation Working Group , PCAWG Structural Variation Working Group & PCAWG Consortium 2020 , ' Analyses of non-coding somatic drivers in 2,658 cancer whole genomes ' , Nature , vol. 578 , no. 7793 , pp. 102-111 . https://doi.org/10.1038/s41586-020-1965-x
Publication
Nature
Status
Peer reviewed
DOI
https://doi.org/10.1038/s41586-020-1965-x
ISSN
0028-0836
Type
Journal article
Rights
Copyright © The Author(s) 2020. 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. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
Collections
  • University of St Andrews Research
URI
http://hdl.handle.net/10023/19565

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