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Table 1 Prediction results of the test sets for five organisms with probability threshold of 0.5.

From: PRED_PPI: a server for predicting protein-protein interactions based on sequence data with probability assignment

A. For Human PPI prediction
Test set Sensitivity (%) Specificity (%) Accuracy (%)
1 88.91 92.13 90.67
2 89.05 92.48 90.76
3 89.34 92.03 90.69
4 89.24 92.42 90.83
5 89.28 91.49 90.39
Average 89.17 92.17 90.67 ± 0.17
B. For Yeast PPI prediction
Test set Sensitivity (%) Specificity (%) Accuracy (%)
1 87.89 89.19 88.54
2 88.14 89.78 88.96
3 89.36 89.15 89.26
4 86.84 89.40 88.12
5 88.65 91.55 90.10
Average 88.17 89.81 88.99 ± 0.75
C. For Drosophila PPI prediction
Test set Sensitivity (%) Specificity (%) Accuracy (%)
1 99.15 91.19 95.17
2 99.33 63.66 81.50
3 99.80 92.75 96.28
4 99.63 94.63 97.13
5 99.76 61.03 80.39
Average 99.53 80.65 90.09 ± 8.39
D. For E.coli PPI prediction
Test set Sensitivity (%) Specificity (%) Accuracy (%)
1 91.27 97.87 94.55
2 96.55 91.55 94.05
3 93.42 96.87 95.15
4 98.49 71.28 84.88
5 95.83 94.18 95.00
Average 95.11 90.35 92.73 ± 3.94
E. For C.elegans PPI prediction
Test set Sensitivity (%) Specificity (%) Accuracy (%)
1 97.02 98.20 97.91
2 96.53 98.76 97.33
3 96.34 99.13 97.74
4 96.34 98.33 97.33
5 96.09 98.33 97.21
Average 96.46 98.55 97.51 ± 0.22
  1. With probability 0.5 as the threshold to assign class label, the prediction results of each species are shown in this table. For all species, the sensitivities are >88%, the specificities are >80% and the prediction accuracies are >88%. Moreover, each model gives a relatively low standard deviation (SD) of no more than 10%. So this method has a good robustness.