Figure 1.
Stratification of the population using SNP PSFs.
a) Relative weights of three SNP PSFs in the subjects. X axis represents the individual subjects, while Y axis shows the SNP weights. b) The top SNP's allelic distribution. Note: there is only one Asian subject.
Table 1.
PSFs and their differences in ethnic groups.
Figure 2.
Distribution of the methylation PSF in population.
a) Relative weights of the PSF in the subjects. X axis represents the individual subjects, while Y axis shows the SNP weights b) PM20D1 methylation β values in the subjects sorted by ethnic groups. The mean and standard deviation of PM20D1 methylation values for each ethnic group are also plotted, with no standard deviation for the one Asian subject.
Figure 3.
The association of SNPs and DNA methylation.
a) rs16891982 positively correlates with the methylation level of PM20D1; minor allele A is associated with lower methylation β values of PM20D1. b) rs12913832 negatively correlates with the methylation level of SLC44A4, i.e. minor allele A is associated with higher methylation β values of SLC44A4.
Table 2.
Methylation sites associated with the PSF SNPs.
Figure 4.
Biological network linking SNP PSF genes with methylation PSF genes.
Nineteen gene products encoding various proteins are one node away from ID2, mostly connected via a transcription factor. Among these are the 3 genes in the SNP PSF (HERC2, CTNNA2 and SLC45A2) and 16 genes in the methylation PSF.
Table 3.
Demographic information.