Genome-wide CGI methylation analysis of hESC lines.

<p>(A) Table showing the number of methylated CGIs (Me-CGI) in each hESC line, and for adult somatic tissues (Illingworth et al., 2008), the percentage of methylated CGIs (% Me-CGI), number of methylated gene-associated CGIs (Me-GA-CGI) and the percentage of methylated CGIs that are gene-associated (% Me-GA-CGI). Me-CGIs are given in the supplementary file <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0131102#pone.0131102.s018" target="_blank">S1 Table</a>. (B) Venn Diagram shows heterogeneity of hESC CGI methylation. 1111 CGIs are methylated in all 4 lines. (C-G) Genome maps depicting locations of various CGI groups: (C) Me-CGIs in hESC lines (red, gene-associated; green, not gene-associated). (D) 201 GA-CGIs methylated in hESCs but unmethylated in somatic tissues. (E) 98 GA-CGIs unmethylated in hESCs but methylated in somatic tissues. (F) hESC-expressed genes whose associated CGIs are hESC-methylated and unmethylated in somatic tissues. (G) hESC-expressed genes whose associated CGIs are hESC-unmethylated and methylated in somatic tissues. Autosomes ordered 1–22, 23 = X, 24 = Y.