Journal article
High-throughput sequencing-based investigation of viruses in human cancers by multi-enrichment approach
University of Copenhagen1
Aalborg University Hospital2
Bioinformatics, Department of Health Technology, Technical University of Denmark3
Integrative Systems Biology, Bioinformatics, Department of Health Technology, Technical University of Denmark4
Technical University of Denmark5
Statens Serum Institut6
Department of Health Technology, Technical University of Denmark7
Copenhagen University Hospital Herlev and Gentofte8
Bispebjerg University Hospital9
University Hospital Herlev10
National Institute of Oncology11
Semmelweis University12
Aalborg University13
Aarhus University Hospital14
...and 4 moreViruses and other infectious agents cause more than 15% of human cancer cases. High-throughput sequencing-based studies of virus-cancer associations have mainly focused on cancer transcriptome data. Here we applied a diverse selection of pre-sequencing enrichment methods targeting all major viral groups, to characterise the viruses present in 197 samples from 18 sample types of cancerous origin.
Using high-throughput sequencing we generated 710 datasets constituting 57 billion sequencing reads. Detailed in silico investigation of the viral content, including exclusion of viral artefacts, from de novo assembled contigs and individual sequencing reads yielded a map of the viruses detected. Our data reveals a virome dominated by papillomaviruses, anelloviruses, herpesviruses, and parvoviruses.
More than half of the included samples contained one or more viruses, however, no link between specific viruses and cancer types were found. Our study sheds light on viral presence in cancers and provides highly relevant virome data for future reference.
Language: | English |
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Publisher: | Oxford University Press |
Year: | 2019 |
Pages: | 1312-1324 |
ISSN: | 15376613 and 00221899 |
Types: | Journal article |
DOI: | 10.1093/infdis/jiz318 |
ORCIDs: | 0000-0002-1177-9756 , 0000-0002-4765-2087 , 0000-0001-6800-4233 , 0000-0002-3768-9185 , 0000-0002-7081-6748 , 0000-0003-0316-5866 , 0000-0003-2727-1903 , 0000-0002-3081-3702 , 0000-0002-1890-2702 and Izarzugaza, Jose M. G. |