Fig. 6: Transcriptomic analysis of HD HSPCs after RNA-mediated base editing and RNP-mediated Cas9 treatment. | Nature Communications

Fig. 6: Transcriptomic analysis of HD HSPCs after RNA-mediated base editing and RNP-mediated Cas9 treatment.

From: Base-editing-mediated dissection of a γ-globin cis-regulatory element for the therapeutic reactivation of fetal hemoglobin expression

Fig. 6

a RNA-seq analysis was performed 48 h after transfection. Mean-difference plots show differentially expressed genes of edited samples over control samples. Genes that are not statistically significant (false discovery rate [FDR] > 0.05) differentially expressed are depicted by black dots. Genes that are statistically significant (FDR < 0.05) upregulated or downregulated are depicted by red and blue dots, respectively. The enzyme used and the profile generated are indicated on top of each plot. b Expression of statistically significant (FDR < 0.05) upregulated or downregulated genes, as measured by the log2-fold change of FPKM of edited samples over control samples. Data are expressed as mean ± SEM (n = 3 biologically independent experiments, 3 donors). c Strip plots showing the variant allele frequency of A > G mutations or C > T mutations in RNA observed in HSPCs obtained from three different HD. The total number of mutations are indicated above each sample. Source data are provided as a Source Data file.

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