Fig. 9

Isolating erroneously corrected and batch-effect susceptible probes via Log-variance ratio and mean β shift. For all probes in the a EpiSCOPE and b BFiN datasets, the change in variance after batch correction (expressed as log-variance ratio) relative to the degree of batch correction (expressed as mean β shift) was plotted. The same data were then highlighted for clustered probes which were modal in distribution. These modal probes were in turn subdivided into probes which were modal and associated with imprinting, a single nucleotide polymorphism at the measured CpG site, cellular component and batch-effect. The vertical lines are plotted at LVR of 0.584 and − 0.584 and the horizontal line at a mean β shift of 0.01