Figure 3: Characterization of ASM and AIM regions.
From: Intermediate DNA methylation is a conserved signature of genome regulation
(a) A novel ASM region in exon 1 of PTCHD3 validated by clonal bisulfite sequencing. Height for all tracks shows a signal range from 0 to 50 reads. (b) Scatter plots showing separation of ASM and AIM SNPs in imprinting control regions (ICRs) and in all IM regions based on allelic preference in MeDIP-seq and MRE-seq reads. Bar graphs showing relative proportions of ASM and AIM SNPs, and proportions of whole ASM and AIM IM regions based on the presence of >1 ASM or AIM SNP per region. (c) Comparison of methylation array levels between CpGs in ICRs, ASM and AIM. A value of 0 is unmethylated, and a value of 1 is fully methylated. (d) Comparison of allelic preference between histone modifications, unmethylated DNA (MRE-seq, top panel) and methylated DNA (MeDIP-seq, bottom panel) at ASM SNPs from fetal brain, in which the heterozygous genotype was verified by whole-genome sequencing. A positive correlation indicates that signals are on the same allele, whereas negative correlation indicates that signals are on opposite alleles.
