Automated Server Benchmarks

MHCII Weekly Benchmark results

Overall scores

Overall scores based on data sets submitted to the IEDB within a single week. The overall scores in the SRCC and AUC columns are calculated using performance values for only SRCC or AUC respectively. In the overall column, both evaluation types are used.

Datasets displayed in gray showed poor performance across all of the available predictors and are excluded from the overall ranking, pending further analysis.

Server	Overall	SRCC	AUC
Comblib matrices	23	18	29
Consensus IEDB method	57	60	54
NN-align	37	35	39
NN-align 2.3	56	56	55
NetMHCIIpan-3.1	44	41	47
NetMHCIIpan-3.2	71	69	73
NetMHCIIpan-4.0 BA	82	79	85
NetMHCIIpan-4.0 EL	17	17	18
NetMHCIIpan-4.1 BA	89	87	91
NetMHCIIpan-4.1 EL	44	43	45
NetMHCIIpan-4.2 BA	79	76	82
NetMHCIIpan-4.2 EL	40	38	42
NetMHCIIpan-4.3 BA	74	71	77
NetMHCIIpan-4.3 EL	31	33	28
SMM-align	41	42	39
Tepitope (Sturniolo)	20	12	27

Data set specific results

Detailed information for the evaluated data sets used in the calculation of the overall scores in the table above. Predictions from each participating server for the data sets listed below may be downloaded here.

IEDB Reference	Allele	Peptide Count	Positive Count	Measurement type	Comblib matrices		Consensus IEDB method		NN-align		NN-align 2.3		NetMHCIIpan-3.1		NetMHCIIpan-3.2		NetMHCIIpan-4.0 BA		NetMHCIIpan-4.0 EL		NetMHCIIpan-4.1 BA		NetMHCIIpan-4.1 EL		NetMHCIIpan-4.2 BA		NetMHCIIpan-4.2 EL		NetMHCIIpan-4.3 BA		NetMHCIIpan-4.3 EL		SMM-align		Tepitope (Sturniolo)
IEDB Reference	Allele	Peptide Count	Positive Count	Measurement type	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC	SRCC	AUC
1042693	HLA-DRB1*01:01	14	6	ic50	0.493	0.667	0.623	0.948	0.486	0.896	0.314	0.812	0.547	0.917	0.556	0.875	0.626	0.896	0.429	0.646	0.613	0.896	0.486	0.667	0.604	0.875	0.543	0.646	0.569	0.875	0.560	0.646	0.569	0.833	0.095	0.583
1042693	HLA-DRB1*04:01	14	6	ic50	-	-	0.613	0.958	0.648	0.896	0.613	0.958	0.653	0.917	0.622	0.958	0.710	1.000	0.420	0.750	0.719	1.000	0.490	0.792	0.701	1.000	0.534	0.833	0.697	1.000	0.433	0.771	0.600	0.917	0.439	0.854
1042693	HLA-DRB1*04:05	11	6	ic50	-	-	0.562	0.917	0.473	0.767	0.464	0.767	0.418	0.833	0.536	0.900	0.691	0.967	0.555	0.833	0.709	0.967	0.591	0.867	0.700	0.967	0.518	0.833	0.536	0.900	0.500	0.867	0.382	0.800	0.496	0.800
1042693	HLA-DRB1*07:01	13	8	ic50	0.358	0.725	0.484	0.700	0.280	0.500	0.599	0.800	0.330	0.600	0.505	0.775	0.555	0.800	0.429	0.625	0.555	0.800	0.418	0.625	0.555	0.800	0.434	0.625	0.516	0.775	0.432	0.625	0.505	0.750	0.328	0.575
1042693	HLA-DRB1*08:02	12	5	ic50	-	-	0.592	0.743	0.580	0.714	0.608	0.743	0.476	0.686	0.657	0.886	0.497	0.743	-0.028	0.486	0.524	0.743	0.063	0.486	0.497	0.743	0.035	0.486	0.566	0.743	0.000	0.429	0.510	0.771	0.221	0.600
1042693	HLA-DRB1*09:01	14	8	ic50	0.165	0.385	0.365	0.521	0.305	0.542	0.310	0.542	0.429	0.583	0.433	0.604	0.547	0.708	0.218	0.562	0.666	0.771	0.574	0.771	0.538	0.708	0.604	0.792	0.455	0.604	0.582	0.771	0.196	0.500	-	-
1042693	HLA-DRB1*11:01	14	9	ic50	-	-	0.697	0.822	0.640	0.844	0.710	0.844	0.644	0.800	0.723	0.867	0.701	0.889	0.327	0.689	0.679	0.889	0.538	0.844	0.604	0.844	0.591	0.867	0.626	0.822	0.356	0.756	0.736	0.822	0.313	0.733
1042693	HLA-DRB1*12:01	12	3	ic50	-	-	0.664	0.815	-	-	0.762	0.926	0.657	0.815	0.699	0.852	0.678	0.852	0.224	0.593	0.748	0.889	0.420	0.741	0.755	0.889	0.151	0.648	0.825	0.926	0.063	0.519	0.364	0.593	-	-
1042693	HLA-DRB1*15:01	14	5	ic50	-	-	0.336	0.644	0.319	0.667	0.345	0.600	0.437	0.733	0.477	0.733	0.477	0.733	0.112	0.489	0.512	0.756	0.477	0.711	0.512	0.756	0.345	0.667	0.503	0.778	0.420	0.656	0.305	0.622	0.258	0.800