Fig. 3: Spatial immune cell network.

A Visualization of the Euclidean distance computed for each cell pair. B Visualization of the quantitative lymphocyte cellular (upper) and phenotypic (lower) network. Arrows in the cellular network represents individual computed comparisons, and in the phenotypic network the immunophenotypes compared between (non-)interacting immune cells. C Spearman correlation of interacting immune cell pairs between IT and PT regions. D Panel of comparisons of the cellular interaction frequency by intratumoral (IT), peritumoral (PT), and healthy (H) tissues. E Comparison of immunophenotypes by immune contexture (H, IT, PT) and interactive immune cell pair. Immunophenotypes are reported for the first immune cell by order. The fold-change (FC) has been calculated as the 10-fold logarithmic immunophenotype expression difference between interacting and non-interacting cells. For instance, “PT T-NK” represents immunophenotypes calculated for T cells interacting with NK cells in peritumoral renal tissue, and the red circle visualizes higher proportion of TIM3 expression in interacting vs. non-interacting T cells. F Digital staining for visualizing the location of TIM3+ T cells in PT and healthy renal tissue. IT tissues have been omitted for clarification. G Comparison of immunophenotypes by immune topography and interactive immune cell pair. The FC represents the 10-fold logarithmic immunophenotype expression difference between interacting and non-interacting cells. Immunophenotypes are reported for the first immune cell by order. H Digital staining for visualizing the location of CD45RO+ T cells and NK cells in immune hot and excluded renal tissues. I Spearman correlation matrix of intratumoral (IT) and peritumoral (PT) T-cell subsets. J Spearman correlation matrix between the proportion (rows) of IT and PT cytotoxic (Tc) and helper T cells (Th) and proportions of cell interactions (columns). The color scaling represents the correlation coefficient (red positive, blue negative). p-values have been adjusted with Benjamin & Hochberg correction. Only significant correlations (adjusted p-value < 0.05) are color-labeled. Significance: ***p < 0.001, **p < 0.01, *p < 0.05.