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Cited by 382

The DOI matches its Crossref record; 68 of the 68 references it cites were found in a registry or an index.

The landscape of viral associations in human cancers

Open access
Zapatka, Marc, Borozan, Ivan, Brewer, Daniel S., Iskar, Murat, Grundhoff, Adam, Alawi, Malik, Desai, Nikita, Sültmann, Holger, Moch, Holger, PCAWG Pathogens, Alawi, Malik, Borozan, Ivan, Brewer, Daniel S., Cooper, Colin S., Desai, Nikita, Eils, Roland, Ferretti, Vincent, Grundhoff, Adam, Iskar, Murat, Kleinheinz, Kortine, Lichter, Peter, Nakagawa, Hidewaki, Ojesina, Akinyemi I., Pedamallu, Chandra Sekhar, Schlesner, Matthias, Su, Xiaoping, Zapatka, Marc, Cooper, Colin S., Eils, Roland, Ferretti, Vincent, Lichter, Peter, PCAWG Consortium, Aaltonen, Lauri A., Abascal, Federico, Abeshouse, Adam, Aburatani, Hiroyuki, Adams, David J., Agrawal, Nishant, Ahn, Keun Soo, Ahn, Sung-Min, Aikata, Hiroshi, Akbani, Rehan, Akdemir, Kadir C., Al-Ahmadie, Hikmat, Al-Sedairy, Sultan T., Al-Shahrour, Fatima, Alawi, Malik, Albert, Monique, Aldape, Kenneth, Alexandrov, Ludmil B., Ally, Adrian, Alsop, Kathryn, Alvarez, Eva G., Amary, Fernanda, Amin, Samirkumar B., Aminou, Brice, Ammerpohl, Ole, Anderson, Matthew J., Ang, Yeng, Antonello, Davide, Anur, Pavana, Aparicio, Samuel, Appelbaum, Elizabeth L., Arai, Yasuhito, Aretz, Axel, Arihiro, Koji, Ariizumi, Shun-ichi, Armenia, Joshua, Arnould, Laurent, Asa, Sylvia, Assenov, Yassen, Atwal, Gurnit, Aukema, Sietse, Auman, J. 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M., van de Vijver, Marc J., van’t Veer, L., von Mering, Christian·2020·Nature Genetics
DOI 10.1038/s41588-019-0558-9
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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.

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Zapatka, M., Borozan, I., Brewer, D. S., Iskar, M., Grundhoff, A., Alawi, M., Desai, N., Sültmann, H., Moch, H., Pathogens, P., Alawi, M., Borozan, I., Brewer, D. S., Cooper, C. S., Desai, N., Eils, R., Ferretti, V., Grundhoff, A., Iskar, M., Kleinheinz, K., Lichter, P., Nakagawa, H., Ojesina, A. I., Pedamallu, C. S., Schlesner, M., Su, X., Zapatka, M., Cooper, C. S., Eils, R., Ferretti, V., Lichter, P., PCAWG Consortium, Aaltonen, L. A., Abascal, F., Abeshouse, A., Aburatani, H., Adams, D. J., Agrawal, N., Ahn, K. S., Ahn, S.-M., Aikata, H., Akbani, R., Akdemir, K. C., Al-Ahmadie, H., Al-Sedairy, S. T., Al-Shahrour, F., Alawi, M., Albert, M., Aldape, K., Alexandrov, L. B., Ally, A., Alsop, K., Alvarez, E. G., Amary, F., Amin, S. B., Aminou, B., Ammerpohl, O., Anderson, M. J., Ang, Y., Antonello, D., Anur, P., Aparicio, S., Appelbaum, E. L., Arai, Y., Aretz, A., Arihiro, K., Ariizumi, S.-I., Armenia, J., Arnould, L., Asa, S., Assenov, Y., Atwal, G., Aukema, S., Auman, J. T., Aure, M. 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M., Lingjærde, O. C., Liu, D., Liu, E. M., Liu, F.-F. F., Liu, F., Liu, J., Liu, X., Livingstone, J., Livitz, D., Livni, N., Lochovsky, L., Loeffler, M., Long, G. V., Lopez-Guillermo, A., Lou, S., Louis, D. N., Lovat, L. B., Lu, Y., Lu, Y.-J., Lu, Y., Luchini, C., Lungu, I., Luo, X., Luxton, H. J., Lynch, A. G., Lype, L., López, C., López-Otín, C., Ma, E. Z., Ma, Y., MacGrogan, G., MacRae, S., Macintyre, G., Madsen, T., Maejima, K., Mafficini, A., Maglinte, D. T., Maitra, A., Majumder, P. P., Malcovati, L., Malikic, S., Malleo, G., Mann, G. J., Mantovani-Löffler, L., Marchal, K., Marchegiani, G., Mardis, E. R., Margolin, A. A., Marin, M. G., Markowetz, F., Markowski, J., Marks, J., Marques-Bonet, T., Marra, M. A., Marsden, L., Martens, J. W. M., Martin, S., Martin-Subero, J. I., Martincorena, I., Martinez-Fundichely, A., Maruvka, Y. E., Mashl, R. J., Massie, C. E., Matthew, T. J., Matthews, L., Mayer, E., Mayes, S., Mayo, M., Mbabaali, F., McCune, K., McDermott, U., McGillivray, P. 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J., Newton, Y., Ng, A. W. T., Ng, A., Nicholson, J., Nicol, D., Nie, Y., Nielsen, G. P., Nielsen, M. M., Nik-Zainal, S., Noble, M. S., Nones, K., Northcott, P. A., Notta, F., O’Connor, B. D., O’Donnell, P., O’Donovan, M., O’Meara, S., O’Neill, B. P., O’Neill, J. R., Ocana, D., Ochoa, A., Oesper, L., Ogden, C., Ohdan, H., Ohi, K., Ohno-Machado, L., Oien, K. A., Ojesina, A. I., Ojima, H., Okusaka, T., Omberg, L., Ong, C. K., Ossowski, S., Ott, G., Ouellette, B. F. F., P’ng, C., Paczkowska, M., Paiella, S., Pairojkul, C., Pajic, M., Pan-Hammarström, Q., Papaemmanuil, E., Papatheodorou, I., Paramasivam, N., Park, J. W., Park, J.-W., Park, K., Park, K., Park, P. J., Parker, J. S., Parsons, S. L., Pass, H., Pasternack, D., Pastore, A., Patch, A.-M., Pauporté, I., Pea, A., Pearson, J. V., Pedamallu, C. S., Pedersen, J. S., Pederzoli, P., Peifer, M., Pennell, N. A., Perou, C. M., Perry, M. D., Petersen, G. M., Peto, M., Petrelli, N., Petryszak, R., Pfister, S. 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Venue
Nature Genetics
Publisher
Springer Science and Business Media LLC
Published
2020-02-05
Volume
52
Issue
3
Pages
320-330
ISSN
  • 1061-4036 (ISSN-L)
  • 1546-1718
DOI
10.1038/s41588-019-0558-9
OpenAlex
W3005400930
Cited by
382
References
68
FWCI
18.34
Type
journal article
Language
en
Open access
hybrid

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

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How to cite

Cite CoChat for the checks on this page, and the paper for its own findings.

This page
CoChat. (2026). Citation check: The landscape of viral associations in human cancers. https://app.cochat.ai/papers/10.1038/s41588-019-0558-9
The paper
Zapatka, M., Borozan, I., Brewer, D. S., Iskar, M., Grundhoff, A., Alawi, M., Desai, N., Sültmann, H., Moch, H., Pathogens, P., Alawi, M., Borozan, I., Brewer, D. S., Cooper, C. S., Desai, N., Eils, R., Ferretti, V., Grundhoff, A., Iskar, M., . . . von Mering, C. (2020). The landscape of viral associations in human cancers. Nature Genetics. https://doi.org/10.1038/s41588-019-0558-9

Data sources

Bibliographic data: Semantic Scholar, OpenAlex, Crossref.

Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).

Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.