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Fig. 3 | Genome Biology

Fig. 3

From: Pharmacogenomic analysis of patient-derived tumor cells in gynecologic cancers

Fig. 3

Pharmacogenomic landscape of epithelial ovarian cancer. a Mutational landscape of epithelial ovarian cancers. All mutations with an allele frequency of > 5% and depth of > 20 reads are shown. Genomic variations, including single nucleotide variants (SNVs), frameshift insertions/deletions, in-frame insertions/deletions, and non-sense mutations, are shown. Frequency of each genomic alteration within the whole cohort is shown on the left column. b Network-based enrichment map analysis of gene set enrichment results. Gene sets are organized as a network, where each gene set is a node and edges represent genes overlapping between the sets. Related gene sets are laid out as network clusters. c Volcano plot representation of ovarian cancer type-specific drug response, with fold-change drug comparison (x-axis) and its significance (y-axis). Each circle represents a single tumor type-drug interaction, and the size is proportional to the cohort size of respective tumor. d Drug response assessments of VEGFR (left panel) and PI3K-AKT-mTOR (left panel) inhibitors in serous and clear cell carcinomas. Box plots span from the first to third quartiles, and the whiskers represent the 1.5 interquartile range. e, f In vivo drug response assessments of cediranib (e) and PI3K inhibitor (f) in serous and clear cell carcinomas, respectively. Violin plots represent the overall tumor weights of the PDX models from respective groups. Horizontal lines within the violin plots represent 0.25, 0.50, and 0.75 quantiles. P values in cf: two-sided Wilcoxon’s rank-sum test

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