Fig. 10 | Nature Communications

Fig. 10

From: Obligatory and facilitative allelic variation in the DNA methylome within common disease-associated loci

Fig. 10

Significant Illumina 450k probes. a Number of 450k CpG probes within the GWAS LD block regions that show significant results for genetic effects as captured by haplotype-tagging lead SNP. Separated into all probes within the entire region (n = 157,473), and if probes pruned for those with SNPs within 10 bp (SNP_10bp_removed, n = 152,313) and 50 bp (SNP_50bp_removed, n = 132,221), respectively. Nominally significant results are shown in yellow and Bonferroni significant in red. b Observed p-values for CpG probes excluding those with common SNPs to 50 bp (in purple), versus results with the permutation of observed Genotype proportions (allelic count) (in green). This shows significant enrichment for low p-values in the observed data (empirical p < 0.01)

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