Fig. 2: Characterization of disease related SMC lineage transition cell trajectories.
From: Vascular smooth muscle cell state trajectories mediate molecular mechanisms of coronary disease risk
A Force directed layout (FLE) representation of lineage traced SMC showing clustered cell phenotypes. B FLE embedding of lineage traced SMC split by weeks on high fat diet. C Cluster proportions of lineage traced cells split by week. D Sankey plot of Waddington optimal transport (WOT) predicted transition probability from SMC to FMC and CMC populations. Band thickness indicates relative transition probability from starting to end cell states. E FLE embedding of SMC lineage transition cell states with arrows representing WOT predicted movement of cells during phenotypic transition. F Illustrated representation of WOT predicted movement of cells during phenotypic transition. Created in BioRender. Li, D. (https://BioRender.com/22if1p3). G Transcription factor enrichment for cells fated to become each cluster-type calculated by WOT based on week 5 to week 12 transition. H CellRank2 derived predicted sustained cell states. I Optimal transport derived growth rates by cell state. J Pseudotime distribution of cells by week. K, L CellRank2 summarized expression trends across pseudotime (right) showing a representative activating gene cluster towards FMC-1 or FMC-2, TFs within this gene cluster (middle), and GO enrichment of cluster genes (left) for key genes.
