Figure S7 from Protumor Macrophage Polarization Mediated by BMP2/4–ACVR1 Signaling Orchestrates an Immunosuppressive Microenvironment during Tumor Initiation

Extended Data Fig.7 Inhibition of the BMP2/4-ACVR1 axis reverses macrophage polarization, related to Figure 5 (A) The expression of representative marker genes superimposed on the t-SNE plots. Each color indicates a subtype of alveolar macrophages. (B) Heatmap showing the expression pattern of the top 10 marker genes for each subtype of alveolar macrophages, determined using Seurat. (C) Depiction of a network for ligand-receptor interactions (LRIs) among different cell types in mouse lungs treated with DOX+LDN. Each node represents a cell type. The size of each node shows the number of LRIs occurring for each given cell type. The width of the edges represents the number of significant LRIs between the two types of cells in mouse lungs treated with DOX+LDN, subtracting the number of LRIs at week 0. (D) The log2 transformed number of trans-ligands (ligand and receptor expressed in different types of cells) of each cell type in the cell–cell communication network in panel A, indicating that macrophages function as central mediators in mouse lungs treated with DOX+LDN. (E) Heatmap showing each KEGG pathway contained which genes. Those pathways and genes were related to Figure 5D. (F) Hierarchical clustering of the expression levels of macrophage-specific chemokines in alveolar macrophages of mouse lungs under indicated treatments. The treatment groups are indicated at the top; the cell types are indicated at the bottom. (G) Heatmap of the average expression of ATM and PTM associated genes in alveolar macrophages in the indicated treatment group. Each column represents a single cell, and each row represents one gene. The expression levels were standardized by taking the z-score within each row. (H) Box plot of ATM/PTM scores (calculated based on marker genes from Li et. al., see STAR Methods in the method section for details) of alveolar macrophages in mouse lungs with indicated treatment.