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Fig. 5 | BMC Cancer

Fig. 5

From: An improved sequencing-based strategy to estimate locus-specific DNA methylation

Fig. 5

CGI methylation of E-cad promoter. a Schematic representation of the region within E-cad promoter spanning from −115 to +54 nucleotides, relative to the transcription start site (+1). Vertical lines represent each individual CpG and arrows indicate the location of primers. b E-cadherin promoter PCR of bisulfite treated DNA obtained from MDA-MB-231. Lane M, 100 bp size marker. NTC, no template control. c Representative sequencing chromatogram of 6 CpG (highlighted by gray arrows; left panel) and of the reverse sequence of Tail2 of the Tail1-Ecad-F/Tail2-E-Cad-R amplicon (right panel). C and T used to calculate the NF are highlighted by black and white arrows, respectively. d The graph reports the methylation percentages of each CpG (from −89 to +29) obtained from the cloning-based method (22 clones sequenced, white columns), BSP (black columns) and NBSP (gray columns). BSP and NBSP were performed on three MDA-MB-231 samples. Bars correspond to standard deviation

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