Fig. 3

Calibrated drug response prediction in heterogenous patient-derived cell lines using scRNA-seq data. a PCA plot showing the diversity of single-cell transcriptomic profiles from different patient-derived cell lines. Comparison of observed and predicted cell death percentages for 5 patient-derived cell lines using 8 different drugs (at lower concentrations), based on CaDRReS-Sc analysis at the b cell-level, c cluster-level, and d patient-level. Error bars show 1 standard deviation based on 3 experimental replicates. Note that that cell and cluster-level predictions show a greater correlation with experimental observations than patient-level predictions, highlighting the utility of scRNA-seq data. e–f PCA plots showing varied cell-level response predictions to treatment with Epothilone B and Doxorubicin, highlighting substantial inter- and intra-patient drug response heterogeneity