The landscape of viral associations in human cancers

Zapatka, Marc, Borozan, Ivan, Brewer, Daniel ORCID: https://orcid.org/0000-0003-4753-9794, Iskar, Murat, Grundhoff, Adam, Alawi, Malik, Desai, Nikita, Sültmann, Holger, Moch, Holger, Cooper, Colin ORCID: https://orcid.org/0000-0003-2013-8042, Eils, Roland, Ferretti, Vincent and Lichter, Peter (2020) The landscape of viral associations in human cancers. Nature Genetics, 52 (3). 320–330. ISSN 1061-4036

[thumbnail of Supplementary_information] PDF (Supplementary_information)
Restricted to Repository staff only until 31 December 2099.

Request a copy
[thumbnail of Published_Version]
Preview
PDF (Published_Version) - Published Version
Available under License Creative Commons Attribution.

Download (7MB) | Preview
[thumbnail of Accepted_Manuscript]
Preview
PDF (Accepted_Manuscript) - Accepted Version
Download (10MB) | Preview
[thumbnail of Supplementary_data] Microsoft Excel (OpenXML) (Supplementary_data)
Restricted to Repository staff only until 31 December 2099.

Request a copy

Abstract

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 Type: Article
Uncontrolled Keywords: b-virus integration,cell,genomes,hbv integration,hepatocellular-carcinoma,hpv,human-papillomavirus infection,mutagenesis,mutations,rna-seq data,sdg 3 - good health and well-being ,/dk/atira/pure/sustainabledevelopmentgoals/good_health_and_well_being
Faculty \ School: Faculty of Medicine and Health Sciences > Norwich Medical School
Related URLs:
Depositing User: LivePure Connector
Date Deposited: 23 Mar 2020 15:19
Last Modified: 22 Oct 2022 05:30
URI: https://ueaeprints.uea.ac.uk/id/eprint/74601
DOI: 10.1038/s41588-019-0558-9

Actions (login required)

View Item View Item