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Integrated virus-host methylome analysis in head and neck squamous cell carcinoma

Wilson, GA, Lechner, M, and H Carén, A Köferle, Butcher, LM, Feber, A, Fenton, TR, Jay, A, Boshoff, C, Beck, S (2013) Integrated virus-host methylome analysis in head and neck squamous cell carcinoma. Epigenetics, 8 (9). pp. 953-961. ISSN 1559-2294. (doi:10.4161/epi.25614) (Access to this publication is currently restricted. You may be able to access a copy if URLs are provided) (KAR id:61510)

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http://dx.doi.org/10.4161/epi.25614

Abstract

One in six cancers worldwide is caused by infection and human papillomavirus (HPV) is one of the main culprits. To better understand the dynamics of HPV integration and its effect on both the viral and host methylomes, we conducted whole-genome DNA methylation analysis using MeDIP-seq of HPV+ and HPV- head and neck squamous cell carcinoma (HNSCC). We determined the viral subtype to be HPV-16 in all cases and show that HPV-16 integrates into the host genome at multiple random sites and that this process predominantly involves the transcriptional repressor gene (E2) in the viral genome. Comparative analysis identified 453 (FDR ? 0.01) differentially methylated regions (DMRs) in the HPV+ host methylome. Bioinformatics characterization of these DMRs confirmed the previously reported cadherin genes to be affected but also revealed new targets for HPV-mediated methylation changes at regions not covered by array-based platforms, including the recently identified super-enhancers.

Item Type: Article
DOI/Identification number: 10.4161/epi.25614
Additional information: © 2013 Landes Bioscience. under the Creative Commons Attribution-NonCommercial 3.0 Unported License (http://creativecommons.org/licenses/by-nc/3.0).
Uncontrolled keywords: DNA methylation, Epigenome, Head and neck squamous cell cancer (HNSCC), Human papillomavirus (HPV), Methylome
Divisions: Divisions > Division of Natural Sciences > Biosciences
Depositing User: Tim Fenton
Date Deposited: 23 May 2017 11:54 UTC
Last Modified: 16 Nov 2021 10:24 UTC
Resource URI: https://kar.kent.ac.uk/id/eprint/61510 (The current URI for this page, for reference purposes)

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