Figure 7.
Depiction of Associations between the Genotype and DNA Methylation
(A) Depiction of the mQTL for the CpG site cg01889448 and rs1063355 in HLA-DQB1 (p = 10−29). Three genotypes of rs1063355 are 1/1 in red (n = 21), 1/2 in green (n = 57), and 2/2 in blue (n = 30). The lines in the bar graph indicate the median, and the bars (whiskers) represent the minimum and maximum of the data after the removal of the outliers.
(B) The relationship between the strength of association and the distance of the SNP from the CpG site. Only significant cis-SNPs associations are plotted (FDR < 0.05). The distance of SNPs from the CpG sites in base pairs is on the x axis and the −log10 p values of SNP association with DNA methylation. Plotting p values against the distance of SNPs from each CpG site showed that the highest associations were with the SNPs located close to CpG site.