Extended Data Fig. 6: Flow cytometry Gating strategy used to identify epithelial and immune cells.

A, B) Example of flow gating strategy to determine frequency of lung (A) alveolar macrophages, interstitial macrophages, neutrophils, dendritic cells and (B) epithelial cells both tdTomato positive and negative. All samples were first gated to exclude debris and doublets, followed by live cell discrimination. C) Representative picture from a tdTomato mouse treated with control PBS for 3 weeks using sort strategy to enrich for for AT2 cells defined in Major et al. ⁶¹ and both alveolar and interstitial macrophages defined in Choi et al. ²².