ZipSeq analysis of mixed-population tumors. (A) Feature plots overlaid on UMAP representation for Csfr1, marking macrophage clusters, and a marker gene for each cluster of the tumor analyzed by ZipSeq in Fig. 6. (B) Heatmap showing relative average expression of the 20 most strongly enriched genes for each cluster versus all others for tumor analyzed in Fig. 6. (C) Violin plots showing relative average expression of Mrc1 (CD206) and Arg1 in Fig. 6. (D–K) ZipSeq analysis of a second mixed-population tumor. (D–E) UMAP representation of zipcode-labeled cells with (D) cluster overlay and (E) zipcode identity overlay. n = 4,186 cells, n_YFP = 1,015, n_RFP = 2,011, and n_Mixed = 1,160. (F) Heatmap showing the 20 most enriched genes in each cluster. Marker gene(s) for each cluster are labeled on the left of the heatmap. (G) Feature plots overlaid on UMAP representation for a gene marking macrophage clusters (Csf1r) and a marker gene of each cluster. (H) Abundance of cells belonging to the T cell cluster, calculated as percentage of total immune cells in each region. (I) Abundance of cells belonging to seven macrophage clusters (clusters 1, 2, 3, 4, 6, 7, and 14), calculated as percentage of total immune cells in each region. (J) Percentage of cells belonging to the neutrophil cluster (cluster 15) in each region and pathway analysis showing gene families enriched in the neutrophil cluster. (K) Percentage of cells belonging to the inflammatory monocyte cluster (cluster 5) and pathway analysis of genes enriched in the monocyte cluster. (L) Violin plots showing relative average expression of Mrc1 (CD206) and Arg1. A total of two tumors were analyzed by ZipSeq. ILC,  innate lymphoid cell.