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Fig. 2 | Clinical Epigenetics

Fig. 2

From: DNA methylation alterations in iPSC- and hESC-derived neurons: potential implications for neurological disease modeling

Fig. 2

Genome-wide DNA methylation analysis. a Pairwise correlation plots (Pearson correlation, genome-wide DNA methylation analysis) of hESC- and iPSC-derived NSC and neurons display high correlation coefficients (black: hES-NSC vs. iPS-NSC, blue: hES-Neurons vs. iPS-Neurons) and minimal interclonal variance (orange: comparison of iPS-NSC clone 1, clone 2, and clone 3; red: comparison of iPS-Neurons clone 1, clone 2, and clone 3). b Number of differentially hypo- and hypermethylated CpGs (DMCG) in iPS-Neurons compared to hES-Neurons. iPSC-derived neurons demonstrate slightly more hyper- than hypomethylated DMCG compared to hESC-derived neurons. c Annotation of hypo- and hypermethylated DMCG in terms of gene regulatory regions (intergenic gene regions, 1st exon, 3′ and 5′ untranslated region (UTR), gene body, promoter areas: transcription start sites (TSS) 1500 and 200; upper pie charts), and CpG islands (CpG islands and flanking regions before (N_Shelf, N_Shore) and after (S_Shelf, S_Shore) CpG islands; lower pie charts) in comparison to the overall distribution of markers on the whole 450 K array (left pie charts), respectively. d, e Interclonal variation of DNA methylation is pronounced at CpGs with intermediate methylation levels in iPS-Neurons (d) and -NSC (e), respectively. f Variation of DMCG is highly correlated between iPS-NSC and iPS-Neurons. SD, standard deviation

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