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Comparison of Binary and PSSM prediction results using jackknife leave-one-out method (binding sites were labeled at 3.5 Å cut-off distance between carbohydrate and protein atoms). |
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| Data type |
Validation type |
Average-sensitivity |
Average-specificity |
Average -net Prediction |
P-value |
|
|
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| GalBind18 |
Leave1 out (Using PSSM) |
0.63 (0.19) |
0.79 (0.09) |
0.71 (0.09) |
0.08859 |
| GalBind18 |
Leave1 out (Using single sequences) |
0.62 (0.26) |
0.68 (0.12) |
0.65 (0.11) |
|
| Procarb40 |
Leave1 out (Using PSSM) |
0.87 (0.12) |
0.23 (0.08) |
0.55 (0.06) |
0.00209 |
| Procarb40 |
Leave1 out (Using single sequences) |
0.68 (0.22) |
0.55 (0.16) |
0.61 (0.12) |
|
|
Due to a large number of iterations required in a leave-one-out method, the prediction performance has a significant standard deviation, which has been shown in brackets. P-values are for two-tailed t-test conducted to distinguish between the predictions performances of single sequences versus evolutionary information coded by PSSM. In Procarb40, evolutionary profiles give a significantly poorer result than single sequences, due to a high false positive rate (low specificity). | |||||
Malik and Ahmad BMC Structural Biology 2007 7:1 doi:10.1186/1472-6807-7-1 |
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