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.

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