Fig. 3

Hypermethylation within partially methylated domains (PMDs) in high grade serous ovarian cancers is driven by soloWCGWs: A Illustration of PMD-masking strategy prior to calling differentially methylated regions. PMDs were identified as described in methods, and then those genomic regions were masked out of subsequent analyses. B Most PMDs detected across the cohort were unique to a single tumor, with only 2% of PMDs observed in more than 30 tumors; C Principal components (PC) analysis identifies a large proportion of the variance between tumors was due to methylation at soloWCGW sites within PMDs. Masking the genome for common PMDs and ovcaPMDs removed much of the variance; D Pairwise comparison for all possible tumor pairs. The strong correlation between PMD soloWCGW difference and pairwise Euclidean distance was lost after masking PMDs