Fig. 4: Integrative analysis of differential abundance in MTB infection.

A Neighborhood graph projected on the UMAP plot displaying cell cluster relationships by differential abundance in infected and bystander populations. Neighbors with significant Log₂ Fold Change (LFC) depletion rates are in red, showing cells reduced during infection, while late-infection enriched neighbors are in blue (FDR < 0.1). B Horizontal scatter plot showing changes in macrophage subset abundance over time, with color-coded data points for statistical significance and change in direction: Blue for early infection increase (FDR < 0.1), Orange for late infection increase (FDR < 0.1), and Light Gray for no significant change. UMAP visualizations of macrophage subpopulations in infected (C) and bystander (D) cells across different timepoints of infection. The percentages of AMs and IMs within the total macrophage population at each timepoint are labeled on the plot. Source data are provided as a Source Data file.