Fig. 5

Application of PACSI on melanoma data. A The UMAP visualization of the melanoma scRNA-seq dataset. B The UMAP visualization of PACSI-identified cells. The red dots are PACSI-identified cells associated with immunotherapy response. C The distribution of PACSI-identified cells by cell types. D Rank for regulons in PACSI-identified cells associated with immunotherapy response based on RSS. E Differential gene expression analysis. The x-axis shows the difference in the percentage of cells expressing the gene between PACSI-identified cells and the others; the y-axis represents the log₂ fold-change. F The top ten enriched Hallmark pathways in the PACSI-identified cells compared to other cells using GSEA. G Box plot shows the enrichment scores of the immunotherapy response signature in the responder and non-responder samples from the independent validation dataset. Two-tailed P value was calculated by Wilcoxon rank-sum test. H Scatterplots of immunotherapy responsive signature scores versus PD-1 and PD-L1 gene expression in bulk gene expression data. Pearson coefficient (r) and associated P value are reported