Fig. 8: VIA predicts cell cycle progression based on single-cell biophysical morphology.
From: Generalized and scalable trajectory inference in single-cell omics data with VIA
a FACED high-throughput imaging flow cytometry of MDA-MB231 and MCF7 cells, followed by image reconstruction and biophysical feature extraction. See “Methods” detailed experimental workflow. b Randomly sampled quantitative phase images (QPI) and fluorescence images (FL) of MCF7 cells and (d) MDA-MB231 cells. c Single-cell UMAP embedding colored by the known cell-cycle phase (left), given by DNA-labeled fluorescence images. VIA inferred cluster-graph topology, nodes colored by pseudotime (mid) and UMAP colored by VIA pseudotime for MCF7. d-e VIA analysis repeated for MDA-MB231 cells. f Unsupervised image-feature-trends of global and local biophysical textures against VIA pseudotime for MCF7 and (g) MDA-MB231 cells (see Supplementary Table 6 for feature definitions). Cell cycle pseudotime boundaries are defined here as the intersection of the pseudotime probability density functions of each cell cycle stage (annotated based on fluorescence intensity).
