Fig. 3

Overall DNA methylation levels according to cell pseudo-time. a Levels of overall CpG methylation and CpG methylation relative to gene structure. b For each group, the relation between overall CpG methylation and stem cell pseudo-time is provided. c Levels of overall non-CpG methylation and non-CpG methylation relative to gene structure. d For each group, the relation between overall non-CpG methylation and stem cell pseudo-time is provided. For (a,c), genic regions were split into 120 non-overlapping windows to determine methylation levels. Each region was divided into 12 small windows for methylation analysis. Percent values represent the pseudo-times of the cells: groups I to V represent the degrees of cell pluripotency, with group I having the shortest pseudo-time (pluripotency-high) and group V the longest (pluripotency-low). For (b,d), the m and cv values represent mean methylation levels and coefficients of variation, respectively