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. Author manuscript; available in PMC: 2021 Jun 1.
Published in final edited form as: Breast Cancer Res Treat. 2020 Apr 13;181(2):309–322. doi: 10.1007/s10549-020-05630-5

Figure 6.

Figure 6

Gene set enrichment comparison of primary tumors with and without lymphovascular invasion (LVI). a Examples of enrichment plots obtained with the classical gene set enrichment analysis (GSEA) method for mSigDb Hallmark gene sets for the TCGA-BRCA cohort. NES, normalized enrichment score. b Pie charts show the categories of mSigDb Reactome gene sets for which significant enrichment was observed in LVI-positive compared to -negative tumors in analysis with GSEA method for TCGA-BRCA and validation cohorts. c Ridgeline plots of gene set variation analysis (GSVA) scores of LVI-positive and -negative tumors for the mSigDb Hallmark gene sets are shown for the five sets with highest absolute fold-change values in LVI-positive vs. -negative comparison. EMT, epithelial mesenchymal transition. d Pie charts show the categories of mSigDb Reactome gene sets for which significant enrichment was observed in LVI-positive compared to -negative tumors in analysis with GSVA method for TCGA-BRCA and validation cohorts.