Fig. 2

A distinct transcriptome profile induced by a single KRAS (G13C) in iPSC-HPCs. a Schematic representation of the transcriptome analysis using an RNA-sequencing method. The HPC samples derived from an isogenic iPSC pair were subjected to the analysis as pre-expansion materials (PRE). After 7-day culture, the entire population was treated as a post-expansion sample. Sample names are based on the cytokine conditions (SF: Selective, or STF3: Standard). The pair samples from both patients were used (C1-1/R1-2 and C2-1/R2-1). Overall, the 12 samples in total were subjected to the RNA-sequencing analysis. b Scatter plots of transformed expression values (EdgeR) generated using the iDEP program (with the 16,498 genes available after filtering). The six patterns of each pair of control (WT) and mutant (Mut) are demonstrated. c A heatmap showing a clustering pattern. The pattern stays virtually the same, with varied numbers of most variable genes (1000–5000) included for the analysis. Note that the profiles are highly similar between genotypes (WT vs. Mut) in PRE samples for both patients, whereas they become more distinct in post-expansion samples. Notably, the clustering occurs preferentially within the same genetic background (i.e., each patient), supporting the importance of using isogenic pairs for comparative studies