Table 3.
The parameters in the weighted voting meta-predictors selected by a restricted grid search and a conditional random search
| Element Predictor | Parameter selected by Restricted Grid search | Random number* | Parameter selected by conditional random search |
|---|---|---|---|
| Predphospho | 0 | Random (1) | 0 |
| NetPhos2.0 | 1 | Random (3) | 1.23 |
| NetPhosK_0.5 | 0 | Random (1) | 0 |
| NetPhosK_0.7 | 0 | Random (1) | 0 |
| KinasePhos_default | 3 | 1+Random (4) | 2.75 |
| KinasePhos_90 | 1 | Random (3) | 2.76 |
| KinasePhos_95 | 0 | Random (1) | 0.79 |
| KinasePhos_100 | 0 | Random (1) | 0 |
| DISPHOS_default | 3 | 1+Random (4) | 4.25 |
| DISPHOS_ Eukaryotes | 1 | Random (3) | 1.65 |
| DISPHOS_Arabidopsis | 1 | Random (3) | 2.22 |
| KinasePhos2.0_80 | 0 | Random (1) | 0.71 |
| Scansite_middle | 1 | Random (3) | 1.6 |
| Scansite_low | 3 | 1+Random (4) | 3.9 |
| Scansite_high | 1 | Random (3) | 2.57 |
| T value | 8 | 13.3 | |
| ACC (%) | 73.5 | 73.8 | |
| MCC | 0.469 (2.60E-06)** | 0.474 (6.00E-07) ** |
* Random (3) means the weight could fluctuate from 0 to 3. For instance, by restricted grid search, the weight value of NetphoK 2.0 was 1, and the last grid value and next grid value were 0 and 3, respectively. In a conditional random search, the weight of Netphos 2.0 was set as random (3). The weight value of KinasePhos_default was 3, and the last grid value and next grid value were 1 and 5, respectively. Therefore, its weight was set as '1+random (4)' in a conditional random search.
** P-values in Fisher's Z-transformation test (compared with the MCC of the best element predictor) are shown in parentheses.