Figure 3

Methylation of CGIs (orphan CGIs or regular CGIs) might influence the expression of putative ESTs or mRNAs. (A) UCSC scheme of CGIs and the nearby putative ESTs or mRNAs analyzed in this study. (B) DNA methylation changes in PC cell lines after treatment with 5-aza-dc. The GAPDH-BSP product serves as a quality and quantity control for the bisulfite-converted DNA templates. (C) EST expression after 5-aza-dc treatment determined by RT-qPCR. GAPDH mRNA expression was the loading control. (D) Quantitative analysis of DNA methylation by methylation sensitive restriction enzyme-based qPCR (MSRE-qPCR) in eight PC and five PN samples. The box is defined by 25% and 75% quantiles. The methylation levels in the PC and PN samples were compared by one-way analysis of variance (ANOVA), and the P values are indicated. 5-AZ, 5-aza-2′-deoxycytidine; DMSO, dimethyl sulfoxide; EST, expressed sequence tag; N, negative control; P, positive control; PC, pancreatic cancer; PN, PN, adjacent non-tumor tissue.