lower transcript abundance in ADS-iPSCs in non-CG mega-DMRs also showed dense CG hypermethylation at the transcriptional start site (Fig. 5f, red circles), a subset of which were consistently hypermethylated at the transcriptional start site in all iPSC lines analysed and associated with aberrant loss of H3K27me3 (Fig. 5f, blue circles, Fig. 4b) providing potential molecular markers for determination of complete reprogramming in iPSC lines. Several of these suppressed genes showing transcriptional start site CG hypermethylation encode proteins that may be pertinent to neural processes: TMEM132D26, FAM19A527, TCERG1L28 and FZD10. Notably, TCERG1L and FAM19A5 were reported to be consistently expressed significantly higher in ES cells compared to iPSCs29 (J.A.T., personal communication).
