Table 9.
AUCs of ROC curves using best-of-six gold standard
| Methods | SAS=2 | SAS=3.5 | SAS=5 | Average | Rank | Speed |
|---|---|---|---|---|---|---|
| SSM using SAS score | 0.94 | 0.9 | 0.89 | 0.91 | 1 | 13 |
| Structural using SAS score | 0.9 | 0.81 | 0.84 | 0.85 | 2 | 39 |
| Combined model | 0.92 | 0.82 | 0.75 | 0.83 | 3 | Fast |
| Structural using native score | 0.87 | 0.77 | 0.83 | 0.823 | 4 | 39 |
| Multiview model I (400,11) | 0.91 | 0.8 | 0.76 | 0.823 | 4 | Fast |
| CE using native score | 0.9 | 0.79 | 0.74 | 0.81 | 6 | 54 |
| Multiview model II (400,11) | 0.9 | 0.78 | 0.73 | 0.803 | 7 | Fast |
| FragBag Cos distance (400,11) | 0.89 | 0.77 | 0.75 | 0.803 | 7 | Fast |
| Multiview model III (400,11) | 0.89 | 0.77 | 0.7 | 0.787 | 9 | Fast |
| CE using SAS score | 0.84 | 0.72 | 0.75 | 0.77 | 10 | 54 |
| FragBag histogram intersection (600,11) | 0.87 | 0.73 | 0.7 | 0.767 | 11 | Fast |
| SGM | 0.86 | 0.71 | 0.68 | 0.75 | 12 | Fast |
| FragBag Euclidean distance (40,6) | 0.86 | 0.71 | 0.64 | 0.737 | 13 | Fast |
| Zotenko et al. (18) | 0.78 | 0.64 | 0.66 | 0.693 | 14 | Fast |
| Sequence matching by BLAST e-value | 0.76 | 0.57 | 0.5 | 0.61 | 15 | Fast |
| PRIDE | 0.72 | 0.54 | 0.51 | 0.59 | 16 | Fast |
The proposed approaches are shown in bold. Multiview model I is a combination of TF and LDA, multiview model II is a combination of TF-IDF and LDA and multiview model III is a combination of Boolean vector and LDA. The speed is given as average CPU minutes per query. If the processing time (after preprocessing of protein structure) for a query is < 0.1 s, then it is mentioned as fast.