Fig. 1.

Results from spatialGE analysis of a melanoma stage IIIc using spatial transcriptomics [Patient 1, Sample 2 (Thrane et al., 2018)]. (A) Quilt plot showing log-expression at each spot for immune gene CD74, with squares and crosses indicating tumor and stromal spot classifications respectively. (B) Transcriptomic surface of CD74 expression allows for a clearer visualization of the tissue heterogeneity, with squares indicating tumor compartment. (C) The inferred abundance of B cells in the tissue can be visualized by the predicted surface. (D) Scatter plots showing the relationships between spatial statistics calculated for CD74 and the survival of patients in months from Thrane et al. (2018). The colored arrows provide a guide for the interpretation of the spatial statistics. The dot with a border indicates the tissue section from Patient 1 featured in the other panels in Figure 1. (E) Tumor/stroma assignments and spatially informed clusters with STclust (using a spatial weight of 0.025) are shown. Cluster 1 and cluster 2 represent tumor and stroma regions of the tissue, respectively.  Cluster 3 likely correspond to spots showing immune activity given the topological match with CD74 (B) and B cell scores (C)