Fig. 2
Methylation and ASM effects in the AHRR amplicon. Top panel. Mean methylation signal is shown in red (smokers) and blue (non-smokers) curves. Shaded areas of respective colour represent standard error. The symbols above the curves signify the reference CpG cg05575921 (star symbol) or important CpGs, selected by the Boruta algorithm (circles). Empty circles relate to the “boruta” model and black to the “boruta.adjusted” model. The size of a circle corresponds to the Boruta importance parameter. Bottom panel. Negative log10-transformed p-levels of “two-tailed” t test of different covariates (Benjamini-Hochberg adjusted) for the individual CpGs are portrayed. The p-levels are shown on the same genomic scale as in the top panel. Vertical dotted red lines on both panels indicate the location of the CpG-SNPs