Table 2.
Application of PAGE to different Affymetrix probe level analysis methods
| MAS5 | MBEI | RMA | ||||||
| Gene Set | Z score | p-value | Gene Set | Z score | p-value | Gene Set | Z score | p-value |
| Inflammatory Response Pathway | 7.5051 | <1.0E-12 | Inflammatory Responses | 7.5195 | 5.51E-14 | Inflammatory Responses | 7.3487 | 2.00E-13 |
| Eicosanoid Synthesis | 6.5925 | <1.0E-12 | Eicosanoid Synthesis | 3.8957 | 9.79E-05 | Eicosanoid Synthesis | 4.1557 | 3.24E-05 |
| Complement Activation Classical | 3.0382 | 0.0024 | Complement Activation | 3.5487 | 0.0004 | TGF-β Signaling Pathway | 3.0438 | 0.0023 |
| Nucleotide Metabolism | 2.0536 | 0.0400 | Nucleotide Metabolism | 2.4207 | 0.0155 | Complement Activation Classical | 2.9402 | 0.0033 |
| TGF-β Signaling Pathway | 1.9758 | 0.0482 | TGF-β Signaling Pathway | 2.2379 | 0.0250 | Nucleotide Metabolism | 2.5867 | 0.0097 |
| MAPK Cascade | -2.2529 | 0.0243 | Glutamate Metabolism | -1.7249 | 0.0846 | GPCRs Class A Rhodopsin-like | -1.9907 | 0.0465 |
| Translation Factors | -2.3124 | 0.0208 | MAPK Cascade | -1.8685 | 0.0617 | MAPK Cascade | -2.1306 | 0.0331 |
| Krebs-TCA Cycle | -3.2551 | 0.0011 | Proteasome Degradation | -1.9605 | 0.0499 | Krebs-TCA Cycle | -2.6076 | 0.0091 |
| Glycogen Metabolism | -3.3488 | 0.0008 | Krebs-TCA Cycle | -2.1182 | 0.0342 | Proteasome Degradation | -2.7822 | 0.0054 |
| Proteasome Degradation | -3.7468 | 0.0002 | Glycogen Metabolism | -2.8330 | 0.0046 | Glycogen Metabolism | -2.9328 | 0.0034 |
| Fatty Acid Degradation | -3.8286 | 0.0001 | Fatty Acid Degradation | -2.8570 | 0.0043 | Fatty Acid Degradation | -3.4024 | 0.0007 |
| Nuclear Receptors | -4.2579 | 2.06E-05 | Nuclear Receptors | -3.4686 | 0.0005 | Nuclear Receptors | -4.1600 | 3.18E-05 |
| Electron Transport Chain | -6.3789 | 1.78E-10 | Electron Transport Chain | -4.2009 | 2.66E-05 | Electron Transport Chain | -5.1177 | 3.09E-07 |