Extended Data Fig. 9: CITE-Seq protein validation for human and mouse GBM TAMs. | Nature Neuroscience

Extended Data Fig. 9: CITE-Seq protein validation for human and mouse GBM TAMs.

From: Single-cell profiling of myeloid cells in glioblastoma across species and disease stage reveals macrophage competition and specialization

Extended Data Fig. 9: CITE-Seq protein validation for human and mouse GBM TAMs.The alternative text for this image may have been generated using AI.

a, b, RNA-based UMAP plots showing expression of signature genes for Mg-TAM, Monocytes, Transitory Mo-TAMs, Phagocytic/lipid Mo-TAMs, Hypoxic Mo-TAMs, SEPP1+ Mo-TAMs and IFN Mo-TAMs in human (a) and mouse (b) tumors. c, d, Protein-based UMAP plots in which the TAM clusters identified based on RNA-expression are highlighted in human (c) and mouse (d) tumors. e–g, Scatter plots comparing the log10(adjusted P) value of the most significantly up- or downregulated proteins (ADT values) (x-axis) and genes (y-axis) in human GBM Mg-TAMs versus other TAM subsets (e), in human GBM SEPP1high TAMs versus other TAM subsets (f) and in mouse GL261 Mg-TAMs versus other TAM subsets (g). The sign of the log10(adjusted P) corresponds to up- or downregulation of protein/gene combinations. Common up- and downregulated protein/gene combinations are represented in red and blue, respectively. Protein/gene combinations that are only up- or downregulated on the protein level but not on the gene expression level, are represented in green. Genes that are upregulated on the protein level and downregulated on the gene expression level, or vice versa, are represented in pink. P value adjustment was performed using Bonferroni correction. h, Mouse RNA-based UMAP plots showing the expression of the indicated genes and their corresponding cell surface protein markers.

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