Extended Data Fig. 1: Phenotypic and functional characterization of 10 melanoma cultures.
From: Robust gene expression programs underlie recurrent cell states and phenotype switching in melanoma
a, Nine patient-derived MM lines and the cell line A375 were multiplexed into a single 10x Chromium lane, followed by computational demultiplexing using SNPs. b, Pie charts representing the fraction of cells within each cell cycle phase, shown for each baseline melanoma culture. c, t-SNE displaying the cells clustering according to their cell line origin (left). Each culture has a subpopulation of cells with high cell cycle activity, shown in a t-SNE plot coloured according to G2M checkpoint gene signature activity (Hallmark; middle). t-SNE coloured according to TFAP2A and TFAP2B expression shows that all MM lines express TFAP2A whereas the A375 cell line expresses TFAP2B (right). d, The heat map shows the activity of gene signatures (rows) in each cell (columns), measured by AUCell. Unsupervised hierarchical clustering demonstrates that two groups are formed based on contrasting activity of melanocytic and pigmentation-related signatures vs. mesenchymal-like (de-differentiated, neural crest-like, immune-like) and resistance-related signatures. n=4,322.
