Extended Data Fig. 4: Gene expression signatures and pathway analysis of AT0s, distal-BCs and SCGB3A2-CCs.
From: Human distal lung maps and lineage hierarchies reveal a bipotent progenitor
a. Volcano plot shows differential gene expression between TRB-SC and AT0s. b. Volcano plot shows differential gene expression between AT2 and AT0s. c. Immunostaining for ACTA2 (green), SFTPB (red) and SCGB3A2 (grey) (left and top right) showing rare AT0s found in alveolar septae in healthy lungs. Immunostaining for SFTPB (green), SFTPC (red) and SCGB3A2 (grey) (bottom right) showing alveolar sacs. blue (DAPI) indicates nuclei. Scale bar: 50 and 20 µm. d. UMAP plot and immunostaining for SOX2 (green), SFTPC (red) show the expression of SOX2 in AT0s near respiratory bronchioles. Scale bar: 50 µm. Inset: individual channels of regions indicated by a black box. e. Violin plots show expression patterns of genes encoding indicated transcription factors in TRB-SC, AT0, and AT2s. f. Heat map shows expression of indicated genes in deuterosomal, ciliated, SCGB3A2-CC and TRB-SC cell populations. (Scale shows z-score). g. Volcano plot shows differential gene expression between SCGB3A2-CC and deuterosomal cell populations. h. Quantification of SCGB3A2-CC cell type across the airway zones. Data are presented as mean ± SEM (n = 4 for zones-1, 2 and 4; n = 3 for zone-3). i. Heat map shows expression of indicated genes in basal, distal-BC-1 and distal-BC-2 cell populations. (rows were hierarchically clustered and scale shows z-score). j. Violin plot shows the expression of indicated genes in basal cell populations. k. Violin plot demonstrates the expression of indicated genes in different basal cell populations. l. Quantification of distal basal cell types across the airway zones. Data are presented as mean ± SEM (n = 4 for zone-1, n = 5 for zone-2, n = 3 for zone-3 and n = 4 for zone-4). m. Volcano plot shows differential gene expression between IPF basaloid (from Habermann et al.,) and distal-BC-2 cell populations. n and o. UMAPs show the expression of TP63, SFTPB and FOXJ1 and SCGB3A2 in distal, intermediate and proximal airway cells profiled in Deprez et al.
