| Â | UPDS | SRDS1 | SRDS2 |
|---|
NN-W-P1
| 0.863 | 0.699 | 0.673 |
NN-W
|
0.864
|
0.705
|
0.676
|
CTD
| 0.782 | 0.639 | 0.634 |
LA
| 0.802 | 0.645 |
0.606
|
5-spectrum
| 0.748 | 0.429 |
0.390
|
- The methods included are NN-W-P1 (the NN-based method including data redundancy step-size rescaling and P1-PSSM encoding), NN-W (the NN-based method including data redundancy step-size rescaling), CTD, LA, and 5-spectrum. The performance values for the latter three methods are taken from the El-Manzalawy publication [25]. The benchmark data sets are UPDS: Unique peptides from the IEDB database, SRDS1: Sequence similarity reduced UPDS data excluding peptides sharing 9 mer subsequences, and SRDS2: Sequence similarity reduced SRDS1 data ensuring maximum more than 80% similarity between pairs of peptides. For each allele, the best performing NN-based method is highlighted in bold and the best performing method is underlined.
