Extended Data Fig. 6: 5hmC and 5mC profiling in DZ+PGCLCs.

(a) Venn diagrams showing the overlap of DMRs for hyper 5hmC and hypo 5mC in d8 DZ⁺PGCLCs compared to 4i ES cells. Number of DMRs are indicated. *p-value = e-104768 for the fisher’s extract test, two-tailed. The data represents an integration of two biological replicates. (b) Pie chart presents the distribution of genomic features for DMRs. The data represents an integration of two biological replicates. (c) Bar plots showing the methylation levels of different genomic features (CGI, n = 25612; TSS-2 ~ 0 kb, n = 26418; Exon, n = 207932; Intron, n = 149208; Intergenic, n = 17061). Two biological replicates of each cell type are shown. (d) Dot plot showing the expression changes (d8 DZ⁺PGCLCs-4i ES cells) of marker genes for migratory/mitotic PGCs which have DMRT1 peaks with (n = 9 genes) or without (n = 29 genes) DMRs for hyper 5hmC in their intronic regions. The mean value is indicated by a red bar in the dot plot. The data represents an integration of two biological replicates. (e) DMRT1 C&R peaks, bulk RNA-seq, 5hmC and 5mC at PIWIL2 and DNAJA4 locus.