Fig. 3
Differential effects of BRAFV600E or KRASG12V on gene expression and intestinal cell hierarchies. All panels: t-SNE visualisations and clustering of organoid single-cell transcriptomes clustered with k-means, 24 h after induction of FLUC control, BRAFV600E or KRASG12V transgenes. a Colour code for six k-means clusters, and inferred differentiation trajectories starting at cluster 1 shown as grey overlay. b Colour code for transgene and CD44 positivity, as inferred from flow cytometry. CD44 positivity was used to direct cell selection, and thus relative fractions of CD44-high and -low cells are not representative. For CD44 status of the cell populations, see Supplementary Fig. 2. c Mapping of cell- and pathway-specific differentiation signatures. Numbers of signature genes detected are given per single-cell transcriptome
