Fig. 3: Differential expression of genes and pathways related to immune cell and stromal cell activity for responders and non-responders to pembrolizumab. | Nature Communications

Fig. 3: Differential expression of genes and pathways related to immune cell and stromal cell activity for responders and non-responders to pembrolizumab.

From: Gene-expression-based T-Cell-to-Stroma Enrichment (TSE) score predicts response to immune checkpoint inhibitors in urothelial cancer

Fig. 3

a Volcano plot showing genes with up-regulated or down-regulated expression in responders (n = 13) vs. non-responders (n = 28). Genes of which differential expression analysis showed adjusted p < 0.01 and absolute log2 fold change >1 are labeled in red (up-regulated) and blue (down-regulated). Differential expression analysis of transcripts was performed using the Wald test. b Bar diagrams specify the pathways of differentially expressed genes according to the hypergeometric distribution calculated with ReactomePA v1.34.042. Enriched pathways with adjusted p < 0.05, indicated by the vertical dashed line, were considered significant. All significantly up-regulated pathways, and the top ten down-regulated pathways are displayed. In (a) and (b), p values were adjusted using the Benjamini–Hochberg method. Source data are provided as a Source Data file.

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