Fig. 4: Trajectory analysis from MDIM to M1 and M2 macrophages.

a Left panel shows a UMAP plot of RNA velocity of macrophage subpopulations. Arrow direction and length indicate qualitative and quantitative changes, respectively. The right panel shows box-plots of ranges (horizontal line), interquartile ranges (boxes), and medians (vertical lines) of arrow length using randomly subsampled cells (1/10 of total cells) included in each cluster in the left panel. b Pseudotime trajectory initiated from monocyte-derived infiltrating macrophages (MDIM) toward M1 macrophages (M1 route). c Left panel shows relative expression patterns of representative genes in the M1 route plotted along the pseudo time. The color indicates the relative gene expression calculated by Monocle 2. The right panel shows bar plots of the combined scores in the top-five enrichment analysis of the TRRUST database for transcription factor analysis, and representative GO biological pathways in clusters 1–4, as defined in the left panel. d Pseudotime trajectory initiated from MDIM toward M2 macrophages (M2 route). e Left panel shows relative expression patterns of representative genes in the M2 route plotted along the pseudo time. The right panel shows bar plots of combined scores in the top-five enrichment analysis of the TRRUST database for transcription factor analysis, and the representative GO biological pathways in clusters 1–4, as defined in the left panel. Source data are provided as a Source Data file.