Fig.  4

Determination of endogenous WT and MUT HTT allele expression ratios in HD cell lines. a–c Results from ddPCR are presented as a mean WT and MUT HTT transcript allele abundance, calculated based on results from all three HTT assays (HTT_SNP2, HTT_SNP5 and HTT_SNP7), in iPSCs (a), NSCs (b), and neurons (c). These data were analyzed using unpaired t test. d Corresponding results to a–c presented for HTT_SNP2, HTT_SNP5, and HTT_SNP7 assays separately and analyzed with two-way ANOVA with Tukey’s multiple comparison test for identification of any cell type-specific changes. In this graph, only WT allele abundance is presented, the MUT allele abundance equals a remainder to the sum of 100%). e Estimation of the total number (WT + MUT) of endogenous HTT transcripts per diploid genome using HTT_SNP5 assay. Data were analyzed using unpaired t test. For all experiments presented in this figure n=3. Two-tailed p value < 0.05 was considered significant and is depicted in the figure by: *p < 0.05; **p < 0.01; ***p < 0.001; ****p < 0.0001. All data are presented as means ± SD. Individual data values are available in Additional File 13