Deletion Hotspots in AMACR Promoter CpG Island Are cis-Regulatory Elements Controlling the Gene Expression in the Colon
Figure 3
Bisulfite sequencing analysis of iLCM.
The results were summarized from the status of 4302 CG sites from a total of 239 alleles in the entire set of 55 microdissected samples. A: Cluster analyses of the deletion and methylation to establish clusters of CG sites based on the entire sequencing data set. The average linkage was employed for hierarchical clustering (sites 1–18). The absolute number of co-occurrences of different CG deletions was used as the similarity measure. The higher the number of clones with two specific CG deletions, the closer they are in the dendrogram. The hotspots were restricted to CG3, 10, and 12-16. B: Typical bisulfite sequencing results of AMACR CGI with deletions highlighted in grey. The sequences of AMACR promoter variants have been deposited in Genbank and are described in Materials and Methods.