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Table 1 Summary of the HLA-I and HLA-II epitopes predicted across the 13 SARS-CoV-2 ORFs and their validation

From: Sequence-based prediction of SARS-CoV-2 vaccine targets using a mass spectrometry-based bioinformatics predictor identifies immunogenic T cell epitopes

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
  1. *Peptides unique to ORF1a (not found in ORF1ab)
  2. **Annotated in UniProt