The landscape of viral associations in human cancers

Academic Article

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.
  • Published In

  • Nature Genetics  Journal
  • Digital Object Identifier (doi)

    Pubmed Id

  • 9353154
  • Author List

  • Zapatka M; Borozan I; Brewer DS; Iskar M; Grundhoff A; Alawi M; Desai N; Sültmann H; Moch H; Cooper CS
  • Start Page

  • 320
  • End Page

  • 330
  • Volume

  • 52
  • Issue

  • 3