Jul 31, 2013

Unique DNA methylation loci distinguish anatomic site and HPV status in head and neck squamous cell carcinoma

Clinical Cancer Research : an Official Journal of the American Association for Cancer Research
Roberto A LlerasT J Belbin

Abstract

We have used a genome-wide approach to identify novel differentially methylated CpG dinucleotides that are seen in different anatomic sites of head and neck squamous cell carcinoma (HNSCC), as well as those that might be related to HPV status in the oropharynx. We conducted genome-wide DNA methylation profiling of primary tumor samples and corresponding adjacent mucosa from 118 HNSCC patients undergoing treatment at Montefiore Medical Center, Bronx, NY, using the Illumina HumanMethylation27 beadchip. For each matched tissue set, we measured differentially methylated CpG loci using a change in methylation level (M-value). When datasets were individually analyzed by anatomic site of the primary tumor, we identified 293 differentially methylated CpG loci in oral cavity squamous cell carcinoma (SCC), 219 differentially methylated CpG loci in laryngeal SCC, and 460 differentially methylated in oropharyngeal SCC. A subset of these differentially methylated CpG loci was common across all anatomic sites of HNSCC. Stratification by HPV status revealed a significantly higher number of differentially methylated CpG loci in HPV+ patients. Novel epigenetic biomarkers derived from clinical HNSCC specimens can be used as molecular classifiers...Continue Reading

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Mentioned in this Paper

Biological Markers
Genome-Wide Association Study
Body Regions
DNA Methylation [PE]
Human Papillomavirus
Classification
TNM Staging System
Protein Methylation
Genome
Stratification

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