Table 7

Predictive performance in terms of the AUC on the Lin benchmark data set

Allele

NetMHCIIpan-2.0

NetMHCIIpan-1.0

TEPITOPE

Multipred_SVM

SVMHC


DRB1*0101

0.883

0.847

0.919

0.860

0.860

DRB1*0301

0.716

0.668

0.718

0.800

0.690

DRB1*0401

0.846

0.815

0.745

0.650

0.750

DRB1*0701

0.878

0.852

0.715

0.700

0.740

DRB1*1101

0.884

0.821

0.824

0.780

0.830

DRB1*1301

0.729

0.715

0.718

0.630

0.720

DRB1*1501

0.838

0.791

0.737

0.620

0.660


Ave

0.825

0.787

0.768

0.720

0.750


The AUC was calculated using the following binding affinity threshold values for each of the 7 alleles: DRB1*0101, 0401, 0701, and 1501 threshold = 100 nM, DRB1*0301, 1101, and 1301, threshold = 1000 nM. The performance values for Multipred_SVM and SVMHC were taken from Nielsen et al. [5]. TEPITOPE is the method described by Sturniolo et al. [1]. NetMHCIIpan-2.0 is the pan-specific method described here, and NetMHCIIpan-1.0 is the pan-specific method by Nielsen et al. [29]. For each allele, the best performing method is highlighted in bold.

Nielsen et al. Immunome Research 2010 6:9   doi:10.1186/1745-7580-6-9

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