Fig. 4

Study design and scRNA-seq analysis of sham, RIR, DMHCA-treated murine retinal cells. a Experimental design for scRNA-seq. Retinal samples were collected from sham mice, RIR mice, and DMHCA-treated RIR mice. Each sample was collected from three mice. The gene expression data of the samples were obtained via scRNA sequencing for subsequent single-cell analysis. b UMAP clustering of pooled retinal cells coloured according to clusters. c Dot plot showing the expression of specific marker genes in each cell type. d Bar charts showing proportions of each cell type across the three samples derived from scRNA-seq data. e Cell ratio of immune to total retinal cells in the three samples. f Dot plot showing the DEGs between the RIR vs. sham comparison group. Red, blue, and grey dots indicate the up-regulated, downregulated, and unchanged DEGs, respectively. g Representative GO and KEGG pathway analyses of DEGs of retinal cells in the RIR vs. sham comparison group. Red and blue bars indicate up- and downregulated DEGs, respectively. h Violin plot of inflammatory response scores for each sample and cell type. Within each violin plot, middle lines indicate median values, and the line ranges from the 25th to the 75th percentile. Significance was calculated using a two-sided Wilcoxon test as implemented using the function "compare_means" with default parameters; ****P < 0.0001