Extended Data Fig. 1: Methylation depleted sequences.
From: The correlation between CpG methylation and gene expression is driven by sequence variants
Lines on the y-axis represent unmethylated haplotypes found in different individuals that overlap in position, with chromosomal position on the x axis. (a) For each such ‘cluster of overlapping unmethylated haplotypes’, as shown here, we look for the most frequently occurring unmethylated haplotype, shown in red. This ‘dominant’ form is then taken as the representative for the cluster of unmethylated haplotypes, which then enables comparison in 5-mCpG haplotype rates over the same coordinates (those of the representative) across all individuals in the cohort. (b) An example cluster where two (or more) representatives were found which we identify, and measure separately as distinct entities. chr, chromasome.
