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. 2015 Feb 17;43(5):2590–2602. doi: 10.1093/nar/gkv103

Figure 2.

Figure 2.

DNA methylation changes of B-ALLs compared to pre-B cell according to specified regions. (A) Local regression showing methylation difference in DNase HS, stratified by genic location. DNase HS in promoter and 5′-body are more likely to be methylated, while the trend was slight or negligible in main body and downstream regions. (B) Methylation difference in exons and introns in gene main bodies. Exons are less altered while introns, especially the deep portion of long introns, are profoundly demethylated in HD-ALL but not in ETV6-ALL. (C) Genome-wide overview of methylation changes in backbones defined by regions devoid of promoters, 5′-bodies, exons, CGIs, CGI shores, DNase HS, TF-binding sites and enhancer sites. ETV6-ALL demonstrates minimal change when compared with the pre-B cell control. (D) Genome-wide view of methylation changes in backbones of HD-ALL show profound demethylation across the whole genome. Red bars indicate chromosomes with extra copies. (E) Methylation changes of backbones according to location to lamina-associated domain (LAD) show more demethylation of regions inside LADs in HD-ALL. (F) Methylation differences in CGI and DNase HS, stratified by location to LAD show profound de novo methylation of CGI and DNase HS inside LAD.