Figure 2

Differential DNA methylome between CD133- and CD133+ liver cancer cells. a. Huh7 and HepG2 cells were FACS sorted using CD133 antibody. Gates used to select negative and positive fractions are depicted in the upper panels. Duplicates of each fraction were used for HM450 bead array DNA methylation analyses. b. Median methylation (and distribution) for all differentially methylated loci (P < 0.001) distinguishing CD133- versus CD133+ in both cell lines. c. Significant loci were distributed according to CpG island relationship as Island, north shore, south shore, north shelf, south shelf, and “Open sea”, and are represented in the upper pie chart. The lower pie chart represents the distribution of significant loci in relation to annotated genes (within 200 or 1500 bp from the TSS, first exon, 3′ or 5′ UTRs, and gene body). d. AVG_Beta values obtained from the bead array assay were plotted for one significant CpG site within the CD133(PROM1) promoter. The difference in methylation between CD133- and CD133+ cells (delta_Beta) is indicated for each cell line.