1. Epigenomic landscape study reveals molecular subtypes and EBV-associated regulatory epigenome reprogramming in nasopharyngeal carcinomaResearch in context
- Author
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Larry Ka-Yue Chow, Dittman Lai-Shun Chung, Lihua Tao, Kui Fat Chan, Stewart Yuk Tung, Roger Kai Cheong Ngan, Wai Tong Ng, Anne Wing-Mui Lee, Chun Chung Yau, Dora Lai-Wan Kwong, Victor Ho-Fun Lee, Ka-On Lam, Jiayan Liu, Honglin Chen, Wei Dai, and Maria Li Lung
- Subjects
Epstein-Barr virus ,Nasopharyngeal carcinoma ,Host-virus interaction ,Whole-genome bisulfite sequencing ,Chromatin accessibility ,Tumor microenvironment ,Medicine ,Medicine (General) ,R5-920 - Abstract
Summary: Background: Epstein-Barr virus (EBV) latent infection is associated with genome-wide epigenomic changes in several malignancies, but its role in epigenetic dysregulation remains unclear in nasopharyngeal carcinoma (NPC). Methods: To investigate EBV-associated epigenetic dysregulation, we performed a multi-omics study by integrating whole-genome bisulfite sequencing (WGBS), assay for transposase-accessible chromatin using sequencing (ATAC-Seq), whole-exome sequencing (WES), and single-cell RNA sequencing (scRNA-Seq) data. Findings: In addition to the known global DNA hypermethylated subtype, we discovered a novel subtype with global hypomethylation in EBV + NPC. The consistent EBV-specific differentially methylated regions (EBV-DMRs) in the human genome were identified from both subtypes and associated with loss of CTCF binding (P
- Published
- 2022
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