Table 1.
Comparison of HLA-DR prediction results for MultiRTA, NetMHCIIpan, and TEPITOPE using the same data sets
| MultiRTA | NetMHCIIpan | TEPITOPE | |||||
|---|---|---|---|---|---|---|---|
| MHC β chain allele | AUC | RMS error (kcal/mol) |
Correlation coefficient | AUC | Correlation coefficient | AUC | Number of data |
| DRB1*0101 | 0.801 | 1.33 | 0.619 | 0.778 | 0.570 | 0.720 | 5166 |
| DRB1*0301 | 0.751 | 1.36 | 0.438 | 0.746 | 0.449 | 0.664 | 1020 |
| DRB1*0401 | 0.763 | 1.56 | 0.534 | 0.775 | 0.598 | 0.716 | 1024 |
| DRB1*0404 | 0.835 | 1.33 | 0.623 | 0.852 | 0.684 | 0.770 | 663 |
| DRB1*0405 | 0.808 | 1.28 | 0.566 | 0.808 | 0.597 | 0.759 | 630 |
| DRB1*0701 | 0.817 | 1.51 | 0.620 | 0.825 | 0.655 | 0.761 | 853 |
| DRB1*0802 | 0.786 | 1.45 | 0.523 | 0.841 | 0.631 | 0.766 | 420 |
| DRB1*0901 | 0.674 | 2.01 | 0.380 | 0.653 | 0.388 | NA | 530 |
| DRB1*1101 | 0.819 | 1.46 | 0.603 | 0.799 | 0.588 | 0.721 | 950 |
| DRB1*1302 | 0.698 | 1.68 | 0.365 | 0.658 | 0.351 | 0.652 | 498 |
| DRB1*1501 | 0.729 | 1.57 | 0.513 | 0.738 | 0.535 | 0.686 | 934 |
| DRB3*0101 | 0.813 | 1.10 | 0.603 | 0.716 | 0.444 | NA | 549 |
| DRB4*0101 | 0.746 | 1.61 | 0.508 | 0.724 | 0.469 | NA | 446 |
| DRB5*0101 | 0.788 | 1.60 | 0.543 | 0.831 | 0.633 | 0.680 | 924 |
The results for MultiRTA and NetMHCIIpan were obtained using leave-one-allele-out cross-validation, in which predictions are made for one allotype using a model trained on the data for the remaining allotypes. The largest AUC and correlation coefficient values for each MHC allotype are highlighted in bold.