Fig. 5
Comparing CCLE breast cancer cell lines with patient-derived organoids using gene expression data. a Pair-wise comparison of subtype-specific TC analysis results. In the lower-left plots, each dot is an established organoid, with the two axis representing transcriptome similarity of the organoid with MET500 breast cancer samples of the two intersecting subtypes. The upper-right shaded values are the corresponding pair-wise spearman rank correlation values of each pair. b Boxplot of transcriptome similarity (with MET500 breast cancer samples of different subtypes) of CCLE breast cancer cell lines and organoids. P-values are computed with the two-sided Wilcoxon rank-sum test. In each box, the central line represents the median value and the bounds represent the 25th and 75th percentiles (interquartile range). The whiskers encompass 1.5 times the interquartile range. c For each subtype, the most-correlated organoid has significantly higher expression correlation with MET500 breast cancer samples of that subtype than the most-correlated cell line. P-values are computed with the two-sided Wilcoxon rank-sum test. In each box, the central line represents the median value and the bounds represent the 25th and 75th percentiles (interquartile range). The whiskers encompass 1.5 times the interquartile range. Source data are provided as a Source Data file
