Figure 1From: Methylation status of individual CpG sites within Alu elements in the human genome and Alu hypomethylation in gastric carcinomas Illustration of the genomic organization (A), methylation, and deamination (B) of CpG sites within Alu. The 17 CpG sites are marked with the capital letters (A-Q) above the Alu consensus sequence (Ref. [15]) and highlighted in the colour pink. The arrowed-line point to the recognition sequence (including the sites H and J) of restriction enzyme Cac8I; Rectangles, primer matching sequences; The arrowed-boxes, primer F-1, F-2, and R-1 were used to amplify the bisulfite-converted templates, and F-w and R-w were used to amplify the templates without bisulfite treatment. The primer F-2 and R-1 were the same as described (Ref. [14]). The sites A-B-C were included within the probe sequence of MethyLight (Ref. [15]). The sites H-I-J were the target CpGs in pyrosequencing assay and the site P was the target CpG in MboI-COBRA (Ref. [14]). The site M was the target CpG used for quantification of unmethylated Alu (Ref. [16]). The capital letter T in the colour pink was resulted from evolutionary deamination of cytosine. The underlined CpG and TpA represent the methylated CpG site and antisense-deaminated CpG site, respectively.Back to article page