Table 4

Summary of the mouse H2-IA benchmark.

AUC


Allele

SMM

NetMHCII

ARB

PredBalbc

N


H-2-IAb

0.913

0.908

0.662

76

H-2-IAd

0.819

0.818

0.819

0.659

342

H-2-IAs

0.877

0.898

126


The predictive performance is shown in terms of the average area under the ROC curve. The methods included in the benchmark are SMM (SMM-align), NetMHCII (the extended SMM-align method including direct encoding of peptide flanking residues and penalties for longer peptides and short amino terminal peptide flanking residues), ARB [12], and PredBalbc [22]. The performance of the SMM and NetMHCII methods was estimated using five-fold cross-validation as described in Methods.

Nielsen et al. BMC Bioinformatics 2007 8:238   doi:10.1186/1471-2105-8-238

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