Fig. 3
From: Comprehensive evaluation of the Infinium human MethylationEPIC v2 BeadChip
EPICv2 reveals DNA methylation variation in wild type cell lines and cell line models of epigenetic modifiers. A EPICv2-WGBS correlation between the same and different cell lines. B Comparison of EPICv2-measured DNA methylation level with whole genome bisulfite sequencing (WGBS) on GM12878, LNCaP and K562. C Comparison of EPICv2 accuracy on cell line DNA of known titrated methylation fractions. D Correlation of EPICv2 probes with known DNA methylation level in titration experiment. E Distribution of probes by correlation with titrated fraction. F Functional analysis of poorly correlated probes. G Drop of global DNA methylation levels in HCT116-derived cell lines with mutated or deleted DNMTs and/or SETD2. H Enrichment of CpGs that retain DNA methylation in DKO1 cells. I Sequence context of loss of DNA methylation in DNMT1KO cells, stratified by common partially methylated domains (PMDs) vs. common highly methylated domains (HMDs), and CpGs flanked by A/T (W) or G/C (S)