Additional file 1 of An effective processing pipeline for harmonizing DNA methylation data from Illumina’s 450K and EPIC platforms for epidemiological studies

Additional file 1: Table S1. PC Association with Platform. Principal component analysis was performed across the ssNoob normalized dataset (e.g. both the 450K and EPIC platforms normalized together) with and without batch effect adjustment using Combat. For the first 10 PCs, the percent variance explained and the p-value for representing the association between the PC and platform is reported. Associations with a p-value 0.05) are shown for the C. 450 and D. EPIC platforms. Figure S4. Effect of extra filtering by probe variability on genomic distribution of probes. The proportion of probes on each chromosome is shown in the pre- and post- probe range filtering datasets in red and blue respectively (filtered probes with a Beta range