Extended Data Fig. 2: PAK4 expression analysis with immune infiltration and overlap with S100 and β-catenin staining.

a, Comparison of exclusion up Jerby-Arnon score expression (P = 3.28e-05) between tumour biopsies within the upper (n = 15) and lower (n = 15) quartile of PAK4 expression. b, PAK4 correlation with Jerby-Arnon score expression (n = 60) (R = 0.65, P = 1.78e-08). Exclusion up Jerby-Arnon was obtained based on the geometric mean of the 302 gene from Jerby-Arnon et al. c, CD8A (R = -0.39, P = 6.07e-05), TNF (R = -0.49, P = 1.89e-07), GZMA (R = -0.45, P = 2.47e-06), PRF1 (R = -0.28, P = 4e-03) and the different immune populations assessed using MCP-Counter: T cells (R = -0.39, P = 4.41e-05), CD8 T cells (R = -0.36, P = 1.71e-04), cytotoxic lymphocytes (R = -0.28, P = 4.9e-03) and dendritic cells (R = -0.57, P = 3.95e-10). n= 99 for all plots. d, Quantification of PAK4 positive cells out of S100 total positive cells. PT0158_tx2 and PT0112_tx are two biopsies with low T cell infiltration and high PAK4 expression while PT0294_tx2 and PT0349_tx have low PAK4 and high T cell infiltrate as determined by RNAseq. e, Quantification of PAK4 positive cells out of β-catenin total positive cells. From top to bottom box-plots define the maximum, 3rd quartile, median, 1st quartile and minimum values a. P values obtained using two-sided Welch’s t-test a. Correlations were calculated applying Pearson’s correlation coefficient test b, c