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Table 3 Five-fold cross validation comparison of MHC2SKpan and NetMHCIIpan-2.0 on NielsenSet3. For each allele, we display the largest value in boldface.

From: MHC2SKpan: a novel kernel based approach for pan-specific MHC class II peptide binding prediction

   AUC PCC
allele count TEPITOPEpan NetMHCIIpan-2.0 MHC2SKpan TEPITOPEpan NetMHCIIpan-2.0 MHC2SKpan
DRB1*01:01 7685 0.731 0.846 0.845 0.433 0.711 0.702
DRB1*03:01 2505 0.718 0.864 0.853 0.346 0.709 0.672
DRB1*03:02 148 0.603 0.757 0.755 0.227 0.525 0.447
DRB1*04:01 3116 0.765 0.848 0.840 0.438 0.670 0.647
DRB1*04:04 577 0.758 0.818 0.816 0.496 0.630 0.622
DRB1*04:05 1582 0.783 0.858 0.869 0.491 0.698 0.703
DRB1*07:01 1745 0.781 0.864 0.872 0.533 0.740 0.742
DRB1*08:02 1520 0.650 0.780 0.784 0.294 0.526 0.532
DRB1*08:06 118 0.870 0.924 0.912 0.602 0.796 0.749
DRB1*08:13 1370 0.747 0.885 0.896 0.337 0.746 0.760
DRB1*08:19 116 0.714 0.808 0.831 0.537 0.608 0.623
DRB1*09:01 1520 0.683 0.818 0.826 0.340 0.634 0.638
DRB1*11:01 1794 0.797 0.883 0.877 0.514 0.777 0.764
DRB1*12:01 117 0.831 0.892 0.876 0.627 0.764 0.754
DRB1*12:02 117 0.843 0.900 0.898 0.640 0.769 0.762
DRB1*13:02 1580 0.602 0.825 0.811 0.238 0.634 0.591
DRB1*14:02 118 0.724 0.860 0.889 0.445 0.694 0.735
DRB1*14:04 30 0.683 0.737 0.621 0.489 0.613 0.418
DRB1*14:12 116 0.805 0.894 0.904 0.517 0.757 0.742
DRB1*15:01 1769 0.739 0.819 0.834 0.465 0.653 0.669
DRB3*01:01 1501 0.671 0.850 0.832 0.289 0.690 0.636
DRB3*03:01 160 0.771 0.853 0.864 0.403 0.736 0.702
DRB4*01:01 1521 0.685 0.837 0.861 0.351 0.675 0.712
DRB5*01:01 3106 0.764 0.882 0.875 0.445 0.765 0.736
average 33931 0.738 0.846 0.843 0.437 0.688 0.669