Table 2. Performance for the different alleles in terms of the Pearsons correlation for the “leave-one-out” experiment with added random negatives.

(A) Predictors of HLA-A locus molecules (with random negatives)
	Pan	Self	Neighbor		Supertype		Count
A0101	0.46	0.88	0.26	A1101		A1	1213
A0201	0.87	0.89	0.82	A0206		A2	3876
A0202	0.81	0.81	0.74	A0203	0.76	A2	1447
A0203	0.87	0.89	0.83	A0202	0.82	A2	2046
A0206	0.79	0.82	0.76	A0201	0.76	A2	2055
A0211	0.63	0.39	0.47	A0201	0.47	A2	141
A0212	0.85	0.59	0.73	A0201	0.73	A2	113
A0216	0.76	0.31	0.52	A0201	0.52	A2	57
A0219	0.75	0.57	0.59	A0212	0.61	A2	137
A0301	0.79	0.84	0.76	A1101		A3	2488
A1101	0.84	0.87	0.80	A0301	0.80	A3	2247
A2301	0.77	0.71	0.76	A2402	0.58	A24	167
A2402	0.81	0.85	0.78	A2301	0.71	A24	418
A2403	0.83	0.84	0.82	A2402		A24	321
A2601	0.69	0.79	0.53	A2602		A26	1032
A2602	0.71	0.69	0.70	A2601	0.70	A26	76
A2902	0.69	0.86	0.07	A3101	0.53	A3	160
A3001	0.68	0.82	−0.11	A3002	0.68	A3	931
A3002	0.65	0.64	0.37	A3001	0.36	A1	92
A3101	0.77	0.84	0.62	A3301	0.53	A3	2123
A3301	0.66	0.76	0.56	A3101	0.09	A3	1140
A6801	0.62	0.80	−0.05	A6802	0.28	A3	1141
A6802	0.74	0.78	0.60	A6901	0.31	A2	1434
A6901	0.76	0.81	0.72	A6802	0.62	A2	1648
Ave	0.74	0.75	0.57
Ave ex supertypes	0.75	0.73	0.57		0.57	Sum	26503
(B) Predictors of HLA-B locus molecules (with random negatives)
	Pan	Self	Neighbor		Supertype		Count
B0702	0.55	0.88	0.53	B0801		B7	1572
B0801	0.62	0.75	0.53	B0802		B8	812
B0802	0.59	0.86	0.76	B0801	0.76	B8	724
B1501	0.41	0.83	0.37	B3501		B62	1284
B1801	0.76	0.85	0.30	B3501	0.28	B62	290
B2705	0.05	0.82	0.15	B4002		B27	1257
B3501	0.68	0.79	0.63	B5301	0.48	B7	982
B3901	0.48	0.71	0.24	B0801		B39	81
B4001	0.59	0.82	0.55	B4002		B44	1257
B4002	0.82	0.75	0.68	B4001	0.68	B44	118
B4402	0.80	0.70	0.77	B4403	0.29	B44	119
B4403	0.79	0.74	0.70	B4402	0.43	B44	119
B4501	0.54	0.73	0.50	B4402	0.12	B44	114
B5101	0.58	0.79	0.57	B5301	0.40	B7	244
B5301	0.75	0.79	0.69	B3501	0.43	B7	254
B5401	0.57	0.80	0.36	B0702	0.36	B7	255
B5701	0.68	0.72	0.69	B5801	0.69	B58	59
B5801	0.45	0.85	0.66	B5701		B58	1340
Ave	0.59	0.79	0.54
Ave ex supertypes	0.69	0.78	0.61		0.45	Sum	10881

Performance values for the “leave-one-out” experiment with added random negatives. (A) shows the performance for the 24 HLA-A alleles, and (B) the performance for the 18 HLA-B alleles. The first column gives the allele name, the following columns the performance of the Pan, Self, Neighbor, and Supertype methods, respectively, as explained in the text. After the Neighbor and Supertype performance values is shown the neighbor allele name and supertype association, respectively. Note, that the supertype performance is only stated for the non-supertype representing alleles. The final column gives the number of peptide data for each allele.