Scott M Langevin1,2, Damaris Kuhnell1, Liang Niu3, Jacek Biesiada3, Yuet-Kin Leung2,4, Ranjan Deka1, Aimin Chen1, Mario Medvedovic2,3, Karl T Kelsey5,6, Susan Kasper2,4, Xiang Zhang2,4. 1. Division of Epidemiology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA. 2. Cincinnati Cancer Center, Cincinnati, OH 45267, USA. 3. Division of Biostatistics & Bioinformatics, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA. 4. Division of Environmental Genetics & Molecular Toxicology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA. 5. Department of Epidemiology, Brown University School of Public Health, Providence, RI 02912, USA. 6. Department of Pathology & Laboratory Medicine, Alpert Medical School, Brown University, Providence, RI 02912, USA.
Abstract
Aim: The goal of this study was to comprehensively interrogate and map DNA methylation across 16 CpG-dense regions previously associated with oral and pharyngeal squamous cell carcinoma (OPSCC). Materials & methods: Targeted multiplex bisulfite amplicon sequencing was performed on four OPSCC cell lines and primary non-neoplastic oral epithelial cells. Real-time quantitative polymerase chain reaction (RT-qPCR) was performed for a subset of associated genes. Results: There was clear differential methylation between one or more OPSCC cell lines and control cells for the majority of CpG-dense regions. Conclusion: Targeted multiplex bisulfite amplicon sequencing allowed us to efficiently map methylation across the entire region of interest with a high degree of sensitivity and helps shed light on novel differentially methylated regions that may have value as biomarkers of OPSCC.
Aim: The goal of this study was to comprehensively interrogate and map DNA methylation across 16 CpG-dense regions previously associated with oral and pharyngeal squamous cell carcinoma (OPSCC). Materials & methods: Targeted multiplex bisulfite amplicon sequencing was performed on four OPSCC cell lines and primary non-neoplastic oral epithelial cells. Real-time quantitative polymerase chain reaction (RT-qPCR) was performed for a subset of associated genes. Results: There was clear differential methylation between one or more OPSCC cell lines and control cells for the majority of CpG-dense regions. Conclusion: Targeted multiplex bisulfite amplicon sequencing allowed us to efficiently map methylation across the entire region of interest with a high degree of sensitivity and helps shed light on novel differentially methylated regions that may have value as biomarkers of OPSCC.
Entities:
Keywords:
BSAS; DNA methylation; HNSCC; epigenetics; head and neck cancer
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