Table 1 Summary of the HLA-I and HLA-II epitopes predicted across the 13 SARS-CoV-2 ORFs and their validation
ORFs | Length (AA) | Peptide HLA-I pair count | Reported in ViPR | Assay: Negative | Assay: Positive | Percent—positive | Binding-core and HLA-II pair count |
|---|---|---|---|---|---|---|---|
Envelope protein (E) | 75 | 556 | 34 | 3 | 31 | 91.2 | 29 |
Membrane glycoprotein (M) | 222 | 1236 | 41 | 0 | 41 | 100.0 | 68 |
Nucleocapsid phosphoprotein (N) | 419 | 1054 | 40 | 9 | 31 | 77.5 | 107 |
ORF1a polyprotein* | 4405 | 14* | 0 | 0 | 0 | NA | 0* |
ORF1ab polyprotein | 7096 | 28,965 | 0 | 0 | 0 | NA | 2516 |
ORF3a protein | 275 | 1408 | 127 | 11 | 116 | 91.3 | 94 |
ORF6 protein | 61 | 322 | 0 | 0 | 0 | NA | 23 |
ORF7a protein | 121 | 642 | 3 | 0 | 3 | 100.0 | 28 |
ORF7b | 43 | 327 | 8 | 1 | 7 | 87.5 | 2 |
ORF8 protein | 121 | 449 | 20 | 2 | 18 | 90.0 | 27 |
ORF9b protein** | 97 | 453 | 6 | 1 | 5 | 83.3 | 37 |
ORF10 protein | 38 | 258 | 0 | 0 | 0 | NA | 4 |
Spike protein (S) | 1273 | 4686 | 95 | 14 | 81 | 85.3 | 437 |