Figure 5.
Analysis of Transcriptional Responses of Alveolar Type 1 Cells to Nkx2-1 Gene Knockout
(A) Illustration of experimental design and data collection of the KO experiment.54
(B) t-SNE plot of 2,397 and 638 AT1 cells from Nkx2-1 KO mice (red) and WT mice (blue).
(C) Violin plots showing the log-normalized expression levels of selected differentially regulated genes in KO (red) and WT (blue) mice.
(D) Q-Q plot for observed and expected p values of tested genes. Genes (n = 29) with FDR <0.05 are labeled with an asterisk. Inset shows the results of GSEA for genes ranked by their distances in manifold aligned scGRNs.
(E) A representative module that contains the differentially regulated gene Tpt1 in the WT mice. Most parts of the module disappear in the KO mice. The colors, edges, and marks are presented as in Figure 3E.