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Fig. 2 | BMC Genomics

Fig. 2

From: Controlling for conservation in genome-wide DNA methylation studies

Fig. 2

An observed difference in the mCG/CG rate across a functional boundary is due to a change in conservation rates. A simulation based on the genetic structure of intron-exon junctions of the human genome (maintaining the location of CG sites). Top row: maintaining the original genetic structure (location of CG sites), and simulating a difference of 3.2 % in methylation tendency (Methods). Middle row: maintaining the original genetic structure (location of CG sites), and simulating no difference in methylation by shuffling the methylation values across each matrix row (Methods). Bottom row: simulating no difference in selective pressure or methylation tendency by shuffling all values (both missing and CGs) at each matrix row. Shown are the %mCG/CG site-specific values and histograms of all %mCG/CG values for the different region types

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