Fig. 5

Significant differences in methylation and expression by BRCA1/2 mutation carrier status: A 135 differentially methylated regions (DMRs) were identified in tumors from BRCA1/2 carriers compared to non-carriers with a trend towards hypermethylation in tumors from non-carrier; 101 regions hypermethylated in tumors from BRCA1/2 non-carriers compared to only 34 regions hypermethylated tumors from mutation carriers; B Principal components analysis using genome-wide CpG methylation level after PMD masking shows a trend towards differences in tumors based on BRCA1/2 carrier status; C Principal components analysis of gene expression data shows a trend towards clustering of tumors based on BRCA1/2 carrier status D Volcano plot of differentially expressed genes comparing tumors from BRCA1/2 carriers vs non-carriers. Significantly up-regulated genes in tumors from BRCA1/2 carriers are colored orange (Padj < 0.05), significantly down-regulated genes are colored purple; E KEGG gene set enrichment analysis for up-(orange) and down-(purple) differentially expressed genes in tumors from BRCA1/2 carriers vs non-carriers; F Individual genes where methylation levels within hypermethylated regions in tumors from BRCA1/2 non-carriers were correlated with gene expression (P-value < 0.005); NAGLU, CDK2AP1, FGF18