Fig. 4

Cellograph distinguishes the molecular mechanisms of transdifferentiation and dedifferentiation in myogenesis. A PHATE embeddings of learned latent space annotated according to treatment conditions, clusters, and softmax probabilities of all conditions except for MEFs, defining the in-group variation. B Heatmap of top weighted genes from parameterized gene weight matrix, identifying pertinent genes such as cyclin D1 and CRABP1. C Violin plot of softmax probabilities of cells belonging to the MyoD/day 4 treatment group, showing similarities to the MyoD/day 2 population. D Violin plots of top 20 differentially expressed genes between clusters 1 and 8 and clusters 3 and 9, which define the \(\text {Pax7}^{+}\) cells and MyoD+FRC/day 8 treated cells, respectively. E Compositional plot of predicted cell types partitioned by cluster