Extended Data Fig. 6: Tumor immune microenvironments and macroenvironments across multiple organs.
(a) Summary of characteristics and immune cell features of immune archetypes identified in the RAM tissue cohort. (b) Absolute enrichment scores of 14 immune cell types in the tumor, adjacent normal (AN), and non-adjacent normal (NAN) tissue compartments. Comparisons among organ sites by the Kruskal-Wallis test. Central line of each box, median; top and bottom edges of each box, first and third quartiles; whiskers extend 1.5x the inter-quartile range beyond box edges. TCGA–SKCM labeled as ‘skin’ in the tumor compartment category (n = 344 BRAFMUT or NRASMUT melanoma). Tumor compartment (brain, n = 6; cardio, n = 4; liver, n = 18; lung, n = 17; lymph node, n = 13; spleen, n = 5; soft tissue, n = 10, skin, n = 344). AN (brain, n = 21; cardio, n = 5; liver, n = 17; lung, n = 6; lymph node, n = 6; spleen, n = 5; soft tissue, n = 7). NAN (brain, n = 20; cardio, n = 5; liver, n = 15; lung, n = 5; lymph node, n = 6; spleen, n = 5; soft tissue, n = 10). (c) Quantifications by multiplex immunofluorescence of the ratios of pro-tumorigenic (CD68+CD163+CD206+/−) to anti-tumorigenic (CD68+iNOS+/−CD206−CD163−) TAMs in metastatic tumors to the brain and to indicated visceral organs in two RAM cases.
