Fig. 3: Shared early transcriptional responses induced upon Treg cell depletion in mouse lung adenocarcinoma TME and bleomycin-induced lung inflammation.
a, t-SNE plots (24,592 cells) representing cell populations isolated from the lungs of mice administered with diphtheria toxin (DT) or PBS (Ctrl) for 48 h. Lung injury-induced inflammation was induced in both groups of mice upon bleomycin treatment 21 d before DT/PBS administration. The data represent analysis of three mice per group colored by cell type (left) and condition (middle), and a density of the distribution of cells between conditions (right). b, t-SNE embedding of endothelial cells isolated from Ctrl and DT after bleomycin administration color coded by cell type (left) or experimental condition (middle), and density plots of the distribution of endothelial cells between conditions (right). c, Heat map showing average factor cell score in each cell type for each experimental condition for endothelial cell subsets. The scores were row normalized between 0 and 1. Each row represents a factor, and each column represents an endothelial cell subset in a specific experimental condition. Factors of interest are highlighted by a red box. d, Heat map showing the 72 shared genes specific to activated VEC factor in both lung challenge models (Methods and Supplementary Table 9). Each column represents a cell; cells are ordered based on their factor score (in ascending order from left to right), indicated by the green bar. e, Heat map showing factor cell score across experimental conditions averaged over each myeloid cluster in each experimental condition for bleomycin-administered cells. The rows are factors and columns are clusters for each experimental condition. The clusters are grouped based on the cell type they are associated with. The heat map shows row-normalized scores from 0 to 1. The left color bar shows the average factor cell score. f, Heat maps showing the 54 shared genes between mouse lung tumor and injury-induced inflammation in the Arg1+ macrophage factor (tumor factor 23 corresponding to injury-induced inflammation factor 0; Supplementary Table 10). Each column is a cell; cells are ordered based on their factor score (in ascending order from left to right) indicated by the green bar. The treatment condition for each cell is indicated by gray for PBS and red for DT bars. Select genes of interest are shown.
