Fig. 2

Hypermethylated regions are enriched for specific repetitive elements. (A) Scatterplots comparing regional CG methylation levels (10-kb windows) in E13.5 control and KO female PGCs (n = 254,013). Hypermethylated (ΔCG methylation > 10%, n = 14,395) and hypomethylated (ΔCG methylation <–10%, n = 223) regions are highlighted in red and blue, respectively. (B) Genomic context of the regions hypermethylated in E13.5 KO female PGCs. The proportions of indicated context categories relative to the total size of the hypermethylated regions (143.95 Mb) are shown. The genomic contexts of the whole genome and regions not showing differential methylation (non-DMRs) are also shown for comparison. (C) Scatterplots comparing CG methylations levels of repetitive elements in E13.5 control and KO female PGCs (n = 888). Only those with ≥ 50 genomic copies were analyzed. Hypermethylated elements (n = 32) are highlighted in red, and the top 10 are labelled with their respective rankings. (D) CG methylation levels at the ICRs in E13.5 control and KO female PGCs. The ICRs showing > 1.3-fold increase in CG methylation are marked with actual fold increase values