TABLE 3.
Comparison between the peptide binding affinity and the rank of peptides in the 4 algorithms
| Algorithm | Ranka | No. high binder BL50 < 10 µM (%) | No. medium binder 10 µM ≤ BL50 < 50 µM (%) | No. medium binder 50 µM ≤ BL50 < 100 µM (%) | No. low binder BL50 ≥ 100 µM (%) |
|---|---|---|---|---|---|
| SYFPEITHI | A | 6/82 (7.3) | 5/82 (6.1) | 7/82 (8.5) | 10/82 (12.2) |
| B | 10/82 (12.2) | 6/82 (7.3) | 2/82 (2.4) | 7/82 (8.5) | |
| C | 4/82 (4.9) | 6/82 (7.3) | 8/82 (9.8) | 11/82 13.4) | |
| D | 0/82 (0) | 0/82 (0) | 0/82 (0) | 0/82 (0) | |
| nHLAPred | A | 13/82 (15.9) | 12/82 (14.6) | 13/82 (15.9) | 19/82 (23.2) |
| B | 6/82 (7.3) | 2/82 (2.4) | 2/82 (2.4) | 5/82 (6.1) | |
| C | 0/82 (0) | 2/82 (2.4) | 0/82 (0) | 2/82 (2.4) | |
| D | 1/82 (1.2) | 1/82 (1.2) | 2/82 (2.4) | 2/82 (2.4) | |
| ProPred-I | A | 2/82 (2.4) | 3/82 (3.7) | 1/82 (1.2) | 2/82 (2.4) |
| B | 4/82 (4.9) | 3/82 (3.7) | 2/82 (2.4) | 2/82 (2.4) | |
| C | 6/82 (7.3) | 4/82 (4.9) | 4/82 (4.9) | 5/82 (6.1) | |
| D | 8/82 (9.8) | 7/82 (8.5) | 10/82 (12.2) | 19/82 (23.2) | |
| IEDB | A | 10/82 (12.2) | 6/82 (7.3) | 5/82 (6.1) | 1/82 (1.2) |
| B | 7/82 (8.5) | 6/82 (7.3) | 7/82 (8.5) | 13/82 (15.9) | |
| C | 1/82 (1.2) | 4/82 (4.9) | 1/82 (1.2) | 4/82 (4.9) | |
| D | 2/82 (2.4) | 2/82 (2.4) | 4/82 (4.9) | 10/82 (12.2) |
a
Peptides were classified into four ranks (A, excellent; B, very good; C, good; D, poor) in each of the four algorithms (SYFPEITHI, nHLAPred, ProPred-I, and IEDB).