DAC-induced changes in expression and methylation. (A-B) Change in log2 expression versus change in mean methylation value at promoter-associated CpGs between DAC and mock-treated samples. The mean methylation value was calculated using all promoter CpGs annotated for each RefSeq transcript. A representative case (721214, panel A) is shown, as well as the case with profound DAC-induced hypomethylation (775109, panel B). (C) Heatmap representation showing probes with consistent expression changes (fold-change > 1.5 and FDR < 0.05) across all 18 AML samples. (D-E) Change in log2 expression versus change in mean methylation value at promoter-associated CpGs between decitabine and mock-treated samples at a selected group of transcripts. (D) Black points represent 7 genes (TKTL1, H19, COL14A1, PGF, DAZL, PNMA5, and AB128832) up-regulated by DAC treatment (each point represents a single transcript in a single AML sample). Also shown are CDKN2B and CDH1, 2 genes commonly reported to be regulated by methylation in AML cells. (E) Points represent individual transcripts (SCARB1, RSRC1, CYTH4, WDR87, SIPA1L3, MEGF6, CCDC62, ELF2, NCL, and SNORA75) with the promoter CpGs that have largest DAC-induced change in methylation.