The DNA methylation landscape of () and adjacent lncRNA in head and neck squamous cell carcinoma.

expression is associated with DNA methylation in head and neck squamous cell carcinomas (HNSCCs). We performed methylation analysis at single CpG site resolution in order to understand epigenetic regulation. CpG methylation analysis of and long non-coding RNA (lncRNA) was performed in n = 528 HNSCCs and n = 50 normal adjacent tissues provided by The Cancer Genome Atlas and in isolated leukocytes. mRNA and lncRNA expression correlated inversely with promoter and positively with gene body CpG methylation. and are co-expressed. Methylation was sequence-contextually associated with human papillomavirus prognosis, mutational load, and immune infiltrates. The significance of and methylation is highly sequence-contextual. might play a role in HNSCC.