Table 3.

Prediction accuracies of WAPP

	SVMHC			WAPP			PC+MHC	TAP+MHC
Allele	MCC	SP	SE	MCC	SP	SE	MCC	MCC
HLA-A*0201	0.68	0.78	0.78	0.74	0.86	0.79	0.71	0.71
HLA-B*2705	0.85	0.76	1.00	0.88	0.82	1.00	0.86	0.86
HLA-A*01	0.92	0.94	0.96	0.93	0.95	0.98	0.93	0.93
HLA-A*03	0.80	0.84	0.90	0.82	0.92	0.89	0.81	0.81

Prediction accuracies for the two alleles using different approaches. An increase in all three cases can be seen for WAPP compared to SVMHC. Furthermore, the results from combining the MHC prediction with either proteasomal cleavage (PC) or TAP are shown.