Fig. 3

Characterisation and reproducibility of methylation values of samples profiled on the EPICv2 array. Density plots of the methylation β-value of prostate tumour tissue samples for a) all probes, and probes separated by b) Infinium Design type (Type I or II) and c) probe category Retained, Reinstated or New. d) Multidimensional scaling plot of all samples across the 10,000 most variable positions. e) Correlation matrix of LNCaP (n = 3) and PrEC (n = 3) technical replicates. Correlation between pairs of f) PrEC and g) LNCaP technical replicates (with Pearson correlation coefficient and p-value)