Fig. 2

Assessment of EPICv2 reproducibility between sample replicates and replicate probes. A Methylation measurement correlations between technical replicates of GM12878, LNCaP, K562, and HCT116 cell lines. B Comparison of Spearman's rank correlation coefficients (rho) between technical and non-technical replicates. C Lower inter-cell line correlation for newly added EPICv2 probes, indicating increased discriminatory power. Arrows represent DNA input from high to low. D Methylation measurement correlation using EPICv1 and EPICv2 on four human cell lines. E Comparison of EPICv1-EPICv2 design switches and probes with identical sequences in both platforms. F Number of loci with multiple probe replication coverage. G Correlations among replicate probes compared to non-replicate probes, emphasizing probe design robustness