Fig. 2: scRNA-seq analysis of H3122 and LR cells.

a Left: Uniform manifold approximation and projection (UMAP) showing Clusters C0–C11 from H3122 and LR cells. Top right: UMAP plot showing scRNA-seq results for H3122 (n = 4835) and LR cells (n = 4566). Bottom right: UMAP plot representing scRNA-seq results based on cell cycle phases. b Top: Proportion of H3122 and LR cells in each cluster. Bottom: Proportion of H3122 and LR cells in each cell cycle phase. (Colors defined in Panel a) c Heatmap of DEGs between H3122 and LR cells. Filtering is based on cutoff values of |Log₂FC| > 0.25 and FDR < 0.001. d Expression ratio of CDA^High, AXL^High, and CDA^High + AXL^High cells in each cluster for H3122 or LR cells. e Expression of CDA, AXL, and DUSP6 assessed by UMAP. f Top: Map of CDA from the UCSC Genome Browser. Bottom left: DNA methylation of CDA in H3122 and LR cells. Pie charts represent the percentage of methylation (black) of the individual infinium human methylation 450 K BeadChip probes cg04087271, cg20619374, and cg06984156 (red lines). Total methylation ratios are indicated under each pie chart. Bottom right: Relative mRNA levels of CDA in H3122 and LR cells. n = 3 independent experiments, mean ± SD, **P < 0.01 (Mann–Whitney U-test). Far right: Bisulfite sequencing of CDA CpG sites (cg04087271, cg20619374, and cg06984156) in H3122 and LR cells. Closed and open circles represent methylated and unmethylated cytosines, respectively. The percentage of methylated cytosines is indicated at the bottom. g Violin plots showing CDA and AXL expression in PC9 cells treated with erlotinib for the indicated times. Data were obtained from GSE134839. h UMAP showing Clusters C0–C9 from PC9 cells treated for 3 days with erlotinib. Data were obtained from GSE149383. i Gene interaction map for interactions between CDA and related genes.