Fig. 3: Genome-scale measurement of methylation kinetics.
a Outline of the SureSelect strategy (above) and a browser screenshot of raw read counts, DHS signal (blue), bait design regions (gold), and CpG methylation level measured prior to induced deletion (black dots). b Percentage of reads in libraries mapping to bait regions. Bars represent bait region boundary extension by 0, 100, or 200 bp, respectively. Error bars represent two standard deviations from the mean of three replicates. c Hierarchical clustering of methylation levels for all samples measured. Annotation column and row depicts days post transduction and wild-type samples. PCC is the Pearson correlation coefficient. d Decay of methylation over time for 2.1 million CpGs. Color scale is as in Fig. 1e, dark red representing 100% methylated CpGs and dark blue representing 0% methylation. Traces to the right represent average profiles of CpGs with similar steady states (noted above panels) but different decay kinetics. CpGs with steady states of 20, 50, and 80% (±2%) were separated into decile bins based on kde and average profiles from these bins are shown.
