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Table 2 Comparison of overlapping gene sets generated by GSEA and GSEA-AF

From: THINK Back: KNowledge-based Interpretation of High Throughput data

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 Normalized Enrichment Score (NES). Only gene sets with qvalue less than 0.05 were considered.