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Table 3 The parameters in the weighted voting meta-predictors selected by a restricted grid search and a conditional random search

From: PhosphoRice: a meta-predictor of rice-specific phosphorylation sites

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) **
  1. * 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.
  2. ** P-values in Fisher's Z-transformation test (compared with the MCC of the best element predictor) are shown in parentheses.