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The landscape of viral associations in human cancers

Here, as part of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, for which whole-genome and—for a subset—whole-transcriptome sequencing data from 2,658 cancers across 38 tumor types was aggregated, we systematically investigated potential viral pathogens using a consensus approach that...

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Main Authors: Zapatka, Marc (Author) , Borozan, Ivan (Author) , Brewer, Daniel S. (Author) , ̇Iskar, Murat (Author) , Grundhoff, Adam (Author) , Alawi, Malik (Author) , Desai, Nikita (Author) , Sültmann, Holger (Author) , Moch, Holger (Author) , Cooper, Colin S. (Author) , Eils, Roland (Author) , Ferretti, Vincent (Author) , Lichter, Peter (Author)
Format: Article (Journal)
Language:English
Published: 05 February 2020
In: Nature genetics
Year: 2020, Volume: 52, Issue: 3, Pages: 320-330
ISSN:1546-1718
DOI:10.1038/s41588-019-0558-9
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1038/s41588-019-0558-9
Verlag, lizenzpflichtig, Volltext: https://www.nature.com/articles/s41588-019-0558-9
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Author Notes:Marc Zapatka, Ivan Borozan, Daniel S. Brewer, Murat Iskar, Adam Grundhoff, Malik Alawi, Nikita Desai, Holger Sültmann, Holger Moch, Colin S. Cooper, Roland Eils, Vincent Ferretti, Peter Lichter
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Summary:Here, as part of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, for which whole-genome and—for a subset—whole-transcriptome sequencing data from 2,658 cancers across 38 tumor types was aggregated, we systematically investigated potential viral pathogens using a consensus approach that integrated three independent pipelines. Viruses were detected in 382 genome and 68 transcriptome datasets. We found a high prevalence of known tumor-associated viruses such as Epstein-Barr virus (EBV), hepatitis B virus (HBV) and human papilloma virus (HPV; for example, HPV16 or HPV18). The study revealed significant exclusivity of HPV and driver mutations in head-and-neck cancer and the association of HPV with APOBEC mutational signatures, which suggests that impaired antiviral defense is a driving force in cervical, bladder and head-and-neck carcinoma. For HBV, HPV16, HPV18 and adeno-associated virus-2 (AAV2), viral integration was associated with local variations in genomic copy numbers. Integrations at the TERT promoter were associated with high telomerase expression evidently activating this tumor-driving process. High levels of endogenous retrovirus (ERV1) expression were linked to a worse survival outcome in patients with kidney cancer.
Item Description:Gesehen am 14.01.2025
Physical Description:Online Resource
ISSN:1546-1718
DOI:10.1038/s41588-019-0558-9

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