Figure 7

Exemplar profiles of a hypermethylated differentially methylated region (hyper-DMR) for CDH8 and a hypomethylated DMR (hypo-DMR) for MEI1. Comparison of DMR profiles obtained from formalin-fixed, paraffin wax-embedded (FFPE) head and neck squamous cell cancers (HNSCCs), fresh-frozen (FF) HNSCCs, and HNSCC cell lines. The profiles clearly show the increasing power to detect methylation variable positions and differentially methylated regions (DMRs) is dependent on cell-type purity (cell line > laser-capture microdissected FFPE > FF). Feature annotation is as provided by BeadChip, and methylation values are color-coded accordingly: TSS1500, orange (1500 bp to 200 bp upstream of the transcription start site (TSS)); TSS200, red (200 bp upstream of the TSS); 5' untranslated region (UTR), yellow; gene body, blue; CpG islands, black; CpG shores, grey; and CpG shelves, light grey.