Table 3.
p value and direction of upregulation of the seven metabolic pathways for tumorigenesis, Gleason grade, and lethal prostate cancer, according to the Gene Set Enrichment Analysis
| Pathway (n genes) | Tumor tissue vs normal tissue (n = 202) | Gleason grade >8 tumors vs Gleason grade 2–7 tumors (n = 404; >8 = 106/2–7 = 298) | Lethal tumors vs. non-lethal tumors (n = 404; L = 113/NL = 291) | |||
|---|---|---|---|---|---|---|
| p value | Expression in tumor tissue | p value | Expression in high Gleason grade (>8) tumors | p value | Expression in lethal tumors | |
| Fatty acid metabolism (n = 39) | 0.70 | ↑ | 0.37 | ↓ | 0.14 | ↓ |
| Glycolysis/gluconeogenesis (n = 62) | 0.18 | ↑ | 0.75 | ↑ | 0.44 | ↓ |
| Pentose phosphate (n = 27) | 0.03 | ↑ | 0.21 | ↑ | 0.73 | ↑ |
| Purine metabolism (n = 157) | 6.0 × 10−3 | ↑ | 0.03 | ↑ | 0.07 | ↑ |
| Pyrimidine metabolism (n = 96) | 2.0 × 10−3 | ↑ | 3.0 × 10−3 | ↑ | 6.0 × 10−3 | ↑ |
| Oxidative phosphorylation (n = 123) | <0.0001 | ↑ | 4.0 × 10−3 | ↑ | 6.0 × 10−3 | ↑ |
| TCA (n = 30) | 0.05 | ↑ | 0.64 | ↑ | 0.76 | ↑ |
For the tumor vs. normal comparison matching is maintained and the GSEA-Preranked procedure is used with gene-based permutation p values; for the other two comparisons, standard GSEA is used with sample-based permutation p values