FIGURE 5 from Whole-genome CpG-resolution DNA Methylation Profiling of HNSCC Reveals Distinct Mechanisms of Carcinogenesis for Fine-scale HPV+ Cancer Subtypes
Year: 2023
Type: other
Abstract: The IMU subtype displays hypermethylation in regions hypermethylated in tumor versus normal; KRT displays hypomethylation in regions hypomethylated in tumor versus normal. Heat maps show the IMU versus KRT DMRs that are hypomethylated (A) or hypermethylated (B) in TCGA HNSC samples compared to TCGA normal samples. Metadata for our patients is displayed above. C, PC analysis of regions hypermethylated in TCGA tumor versus normal for IMU and KRT subtypes. Dashed lines represent average of normal or tumor samples from TCGA. D, PC analysis of regions hypomethylated in TCGA tumor versus normal for IMU and KRT subtypes. Dashed lines represent average of normal or tumor samples from TCGA. E, Methylation levels at the 100-bp sites marked with the gene symbols of the 11 neoplasm-associated genes found in subclusters 1 and 2 (Fig. 5B). The asterisk indicates significantly repressed expression of that gene in the KRT subtype. In the case multiple sites mapped to a single gene, methylation levels were aggregated and the genomic annotation that appeared most often was used as the annotation in this panel. Note that the HPV(+) methylation levels come from our WGBS data, while TCGA data show methylation levels measured by a set of probes from the Infinium HumanMethylation450 BeadChip by Illumina.
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
OpenAlex ID: W4386284192