Figure 3:

Evaluation on broad HLA allelic coverage. (a) The allele-specific prediction evaluation results showed AUC and ACC values of PSSMHCpan, and also compared to NetMHC-4.0, NetMHCpan-3.0, PickPocket, Nebula, sNebula, and SMM. (b) The boxplot of individual ACC of a particular HLA allele with fixed peptide length. Comparison between PSSMHCpan and the other six methods was performed by using paired t test. “*” denotes P < 0.05 and “**” denotes P < 0.01. (c) The evaluation results showed by ROC of PSSMHCpan in pan-specific prediction, NetMHCpan-3.0, and PickPocket. The ACC, sensitivity, and specificity at cutoff of 500 nM were also shown. (d) Correlation analysis of peptide-HLA binding affinity result of IC50 value in log2 between allele-specific prediction and pan-specific prediction.