Fig. 2
Characterisation of EMT+ and EMT- inducible 3D models. A Experimental scheme. Cells first undergo oncogenic transformation with the induction of the HRASG12V oncogene, either in a normal epithelial (EMT-) or EMT (EMT+) background, then single-cell cloning to produce EMT- and EMT+ populations. Untreated and doxorubicin-treated replicates are analysed via single cell RNA sequencing. B EMT- (top) and EMT+ (bottom) spheroids in culture. C UMAP representation and single cell clusters of all cells in EMT- and EMT+ populations (treated & untreated). D Expression of mammary lineage markers EPCAM, MME (CD10), ITGA6 (CD49f) and CD24 in each cluster. E Cellular composition of each replicate. F. Cell-identity-based calculation of the Shannon diversity in each replicate. G Distributions of genetic distances to median profile for individual cells in EMT- and EMT+ models. Boxplots: Black horizontal bar display the median; boxes display the interquartile range (IQR) between first and 3rd quartiles; whiskers extend to either the minimum between highest value and the first quartile + 1.5 times the IQR (top), and the maximum between the lowest value and the first quartile - 1.5 times the IQR (bottom). H Distributions of phenotypic distances to the mean expression profile for individual cells in EMT- and EMT+ populations. NT stands for non-treated, T for treated. Numbers in replicate names indicate the clone identification number in single-cell cloning experiments