Fig. 4

a Examples of multivariate single MDA-MB-231 TNBC cell phenotypic data depicted in t-distributed stochastic neighbor embedding (t-SNE) plots based on 728 quantitative features per cell capturing cell morphology, cell–cell contact levels, and per marker intensity features (levels, localization, textures) for DNA marker DAPI, F-actin marker phalloidin, and a third indicated epithelial or mesenchymal (EM) state marker (Vimentin or p-SMAD2 or b-catenin or E-cadherin). Color-coding reflects treatment condition (as indicated), with cell number (n) also shown. b Equivalent t-SNE plots color-coded by mean intensity per cell (expression level) of the indicated EM state marker. c Representative confocal image regions (inverted for signal visibility) of each EM state marker in each treatment condition, and matched confocal images of phalloidin (green) and DAPI (blue) labelling with cell body (yellow) and nuclear (magenta) segmentation boundaries shown. All scale bars 10 mm. d Radar plot contrasting average phenotypic signatures for all cells in each treatment condition (color coded as in a, c) across all [11] EM state marker intensities and [2] basic cell morphology features (Area, Roundness)