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Fig. 5 | Genome Medicine

Fig. 5

From: Landscape of genomic alterations in high-grade serous ovarian cancer from exceptional long- and short-term survivors

Fig. 5

Inference of tumor microenvironment in exceptional short- and long-term survivors of HGSOC. a Heat-map of TCGA/Verhaak HGSOC gene-expression subtype scores for 29 fresh-frozen preserved primary tumor tissues in our study group (long-term survival = 13, short-term survival = 16). The display order of tumors is determined by unsupervised hierarchical clustering the z-score normalized HGSOC gene-expression subtype score profiles. Mutations in DNA damage repair genes (BRCA1, BRCA2, and MLH1) and survival groups are annotated in color tracks above the heatmap. Annotation colors are shown in the legend. b Comparison of enrichment of cellular components within the tumor immune microenvironment between long-term and short-term survivors with or without mutations in BRCA1 and BRCA2. Enrichment of selected immune cellular components is inferred from available RNA-seq gene-expression profiles and publicly available cell-type-specific gene sets by ssGSEA. Boxplots for each group, long-term with BRCA1/2 mutation (n = 8, dark-grey), long-term without BRCA1/2 mutation (n = 5, medium-grey), and short-term without BRCA1/2 mutation (n = 16, light-grey), show the summary statics. Statistical significance is tested by non-parametric 2-sided Wilcoxon rank test for non-paired data between long-term surviving BRCA1/2 mutated group (n = 8) to all BRCA1/2 not-mutated group (n = 21), and between long- (n = 13) to short- (n = 16) term survivors. p values are multiple-testing corrected (false discovery rate) and q values are presented. q values ≤ 0.1 are high-lighted in red

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