Table 2.
Main functional classes at the protein-protein (P-P) level prevailing by the Age Ratio# discriminating criterion.
| Ontology process | Genes with age ratio# < 1 | Genes with age ratio# >1 |
|---|---|---|
| Hypergeometric Probability* | Hypergeometric Probability* | |
| Anti-apoptotic mechanisms | 4.4 × 10−4 | 5.2 × 10−8 |
| Apoptosis induction | 4.1 × 10−2 | 2.6 × 10−4 |
| Platelet activation, blood coagulation | 7.8 × 10−3 | 9.7 × 10−7 |
| NGF signaling | 1.3 × 10−3 | 1.6 × 10−7 |
| Laminin 5 and 2 Complex | 3.0 × 10−6 | |
| Response to hypoxia | 1.9 × 10−2 | 8.5 × 10−6 |
| Kainate selective glutamate receptors | 3.4 × 10−2 | 1.1 × 10−3 |
| Axogenesis, axon guidance | NDAS** | 1.9 × 10−3 |
| Dendritic spines | NDAS | 2.2 × 10−2 |
| Cell aging | NDAS | 4.2 × 10−3 |
| Nitric oxide production | 4.0 × 10−2 | 5.4 × 10−3 |
| Response to nutrients | 2.8 × 10−2 | 7.8 × 10−3 |
| Endothelial cell, vascular development, VEGFR activity | 2.4 × 10−2 | 5.7 × 10−3 |
| Cholesterol, lipoprotein for lipids transport | 3.5 × 10−4 | 1.5 × 10−3 |
| Golgi transport complex, vesicles (endosome, coated, endocytic) | NDAS | 9.5 × 10−3 |
| Response to DNA damage | 6.0 × 10−3 | 1.1 × 10−3 |
| Response to steroids | 3.0 × 10−3 | 1.3 × 10−2 |
| Mineralocorticoid response | 9.1 × 10−2 | 1.5 × 10−4 |
| Acute inflammatory response | 1.79 × 10−1 | 1.7 × 10−4 |
| Leukocyte chemotaxis, response to LPS, defense against virus | 1.1 × 10−1 | 5.5 × 10−3 |
| Monocyte activation | NDAS | 5.2 × 10−2 |
| CYTOKINES | ||
| TGFbeta production | 1.1 × 10−1 | 1.0 × 10−5 |
| Interleukin IL-1 | 1.1 × 10−1 | 6.1 × 10−3 |
| TNFsuperfamily | 1.1 × 10−1 | 1.6 × 10−2 |
| Interleukin IL-4 | 2.7 × 10−1 | 3.0 × 10−4 |
| Interleukin IL-6 | 3.6 × 10−3 | 6.1 × 10−4 |
| Interleukin IL-8 | 2.4 × 10−2 | 1.8 × 10−4 |
| Interleukin IL-10 | 9.6 × 10−2 | 6.1 × 10−3 |
| IFNG production | 2.5 × 10−2 | 1.0 × 10−3 |
| Interleukin IL-18 | NDAS | 5.2 × 10−2 |
| Interleukin IL-23 | 3.4 × 10−2 | 6.1 × 10−3 |
Functionalities are derived by ontology analysis of the compatible P-P networks computed on the basis of those corresponding to the nucleus 1, which comes from the whole list of age-dependent genes (for details see the Table S3).
*
The hypergeometric probabilities are values corrected for the multi-comparisons. In addition, the values indicated are the averages of the probabilities along the several ontology categories that make up each sub-group defined, but weighed according to the relative frequency of the initial ontology classes that resulted from the analysis;
**
NDAS, no-detected as significant.