Extended Data Fig. 2: A comprehensive assessment of the immune landscape in pLGG, as Related to Fig. 1.

a. Distribution of all cell populations as a percentage of all cells identified in the TME, ranked by brain/tumor type (n = 120). NK: Natural killer cells; DN T: Double negative T cells; Mono: monocytes; DCs: Dendritic cells; MG: Microglia; BMDM: Bone marrow-derived macrophages. b. Proportion of brain/tumor cells positive for the various marks (MAP2, SOX10, SOX2, GFAP, Olig2, Ki67) (n = 120 samples). Data are presented as mean, all points plotted. c, d. The myeloid and lymphoid compartments, presented as a percentage of all cells in the TME, were distributed based on tumor subtype (A) and sex (B) (n = 118). Data are presented as mean, with all samples plotted. PA: Pilocytic astrocytoma, GG: Ganglioglioma, DC: Dendritic cells, Mo: Monocyte, Bc: B cells, DN T: Double-negative T cells, NK: Natural killer cells. e. Endothelial cell populations as a percentage of all cells in the TME by tumor subtype (n = 120). Data is presented as mean, with samples plotted. p = 0.0728. f. Samples were split in groups based on poor (below average) or rich (above average) infiltration of T-helper cells (Th) in the TME (n = 120). Subsequently, myeloid populations were plotted based on T cell infiltration. Data are presented as the mean, all samples are plotted, statistical analysis by two-sided Mann-Whitney test. * p values = 0.004764; 0.009136; 0.00187 (left to right). g. Individual cell populations as a percentage of all cells in the TME by genomic alteration. BRAF-fusion n = 95, BRAF-mutation n = 10, Other mutations n = 10. Data are represented as mean. DC: Dendritic cells, Mo: Monocyte, Bc: B cells, DN T: Double-negative T cells, NK: Natural killer cells, Cl Mo: Classical monocyte, Non-Cl Mo: Non-classical monocyte, Int Mo: Intermediate monocyte. h. Individual cell populations as a percentage of all cells in the TME by age groups. 0-3 y n = 27, 4-12 n = 73, 13+ n = 20. Data are represented as mean.

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