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Table 1 Comparison of overlapping gene sets generated by GSEA and GSEA-AF

From: Appearance frequency modulated gene set enrichment testing

Methods

Overlap Gene Sets

(FDR < 0.05)

Cancer Related

Gene Sets

Name of Gene Sets

GSEA

7

3

Proteasome, Cell cycle, Biosynthesis of steroids

GSEA-AF

9

4

Proteasome, Cell cycle, Biosynthesis of steroids, Oxidative phosphorylation

  1. The ranked list generated by GSEA was ranked by NES. Only gene sets with q-value less than 0.05 were considered.