Additional file 3.

Figure S2. The activity of siRNAs targeting SNP sites in the HD model. (A) The target sites and nucleotide sequences of the siRNAs directed at rs1065745 SNP in the HTT gene. The nucleotides in the antisense strand that directly interact at the SNP site and additional mismatches with the target sequence are marked in bold. The mismatches introduced into the siRNA duplex are in gray boxes. RNA is in lowercase; DNA is in uppercase. (B) The RT-PCR analysis of the HTT expression at the transcript level in the HD fibroblasts (GM04208) at 72 h after transfection with 50 nM siRNAs. (C) The RT-PCR analysis of the HTT transcript level in the HD fibroblasts at 72 h after transfection with 2, 10, 50 or 200 nM siRNA G16. (D) The western blot analysis for the experiment described in (C). C - the reference bar indicates the HTT expression levels in the cells transfected with control siRNA. In the graphs, the signal intensities were normalized to GAPDH mRNA level and compared using a one-sample t-test. The error bars represent the standard deviations. The P-value is indicated by asterisks (* p < 0.001; ** 0.001 < p < 0.05).

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Fiszer et al. BMC Molecular Biology 2012 13:6   doi:10.1186/1471-2199-13-6