Fig. 2: SCM regions match histopathological features and reflect treatment-dependent shifts in gene expression. | Nature Communications

Fig. 2: SCM regions match histopathological features and reflect treatment-dependent shifts in gene expression.

From: Single cell and spatial transcriptomics highlight the interaction of club-like cells with immunosuppressive myeloid cells in prostate cancer

Fig. 2

a Histopathology classes and SCM regions of five representative samples from the validation cohort. Grade X and Grade Y are cancer spots with indecisive grading (see Methods). PNI: perineural invasion; L.e. stroma: lymphocyte-enriched stroma. Scale bar is 1 mm. b Percentage of SCM regions in each histopathology category in the validation cohort. Values are shown for each region with the highest percentage. c Scaled gene expression in SCM regions grouped by ADT exposure. d Sample-specific SCM region fractions divided according to sample category: BPH: Benign prostatic hyperplasia (n = 4); TRNA: Treatment-naïve prostate cancer (n = 17); NEADT: Neoadjuvant-treated prostate cancer (n = 22); CRPC: Castration-resistant prostate cancer (n = 5). A Kruskal-Wallis test p-value is displayed for each category, while asterisks indicate two-sided Wilcoxon rank-sum test significance level; *p < 0.05; **p < 0.01; ***p < 0.001. Boxes span the interquartile range (IQR) and whiskers extend to points that lie within 1.5 IQRs of the lower and upper quartile. Center line is drawn at the median.

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