Table 2

Overview of MHC class II binding dataset utilized in the present study.

Allelic variant

# of binding affinities

# of binders1

% of binders

Allele frequency2


HLA-DPA1*0201-DPB1*0101

1399

702

0.5

16.0

HLA-DPA1*0103-DPB1*0201

1404

635

0.45

17.5

HLA-DPA1*01-DPB1*0401

1337

540

0.4

36.2

HLA-DPA1*0301-DPB1*0402

1407

621

0.44

41.6


HLA-DPA1*0201-DPB1*0501

1410

528

0.37

21.7

HLA-DQA1*0501-DQB1*0201

1658

742

0.45

11.3

HLA-DQA1*0501-DQB1*0301

1689

1023

0.61

35.1

HLA-DQA1*0301-DQB1*0302

1719

670

0.39

19.0

HLA-DQA1*0401-DQB1*0402

1701

731

0.43

12.8

HLA-DQA1*0101-DQB1*0501

1739

687

0.4

14.6

HLA-DQA1*0102-DQB1*0602

1629

974

0.6

14.6


HLA-DRB1*0101

6427

4519

0.7

5.4

HLA-DRB1*0301

1715

553

0.32

13.7

HLA-DRB1*0401

1769

978

0.55

4.6

HLA-DRB1*0404

577

396

0.69

3.6

HLA-DRB1*0405

1582

806

0.51

6.2

HLA-DRB1*0701

1745

1033

0.59

13.5

HLA-DRB1*0802

1520

591

0.39

4.9

HLA-DRB1*0901

1520

815

0.54

6.2

HLA-DRB1*1101

1794

957

0.53

11.8

HLA-DRB1*1302

1580

656

0.42

7.7

HLA-DRB1*1501

1769

909

0.51

12.2


HLA-DRB3*0101

1501

426

0.28

26.1

HLA-DRB4*0101

1521

654

0.43

41.8

HLA-DRB5*0101

1769

992

0.56

16.0

H-2-IAb

660

180

0.27

-


Total

44541

22318

Min

577

180

Max

6427

4519

DP

92.6

DQ

81.6

DRB1

71.0

DRB3/4/5

70.9


Total

99.9


1. Binder defined as IC50 <1000 nM.

2. Average haplotype and phenotype frequencies for individual alleles are based on data available at dbMHC. dbMHC data considers prevalence in Europe, North Africa, North-East Asia, the South Pacific (Australia and Oceania), Hispanic North and South America, American Indian, South-East Asia, South-West Asia, and Sub-Saharan Africa populations. DP, DRB1 and DRB3/4/5 frequencies consider only the beta chain frequency, given that the DRA chain is largely monomorphic, and that differences in DPA are not hypothesized to significantly influence binding. Frequency data are not available for DRB3/4/5 alleles. However, because of linkage with DRB1 alleles, coverage for these specificities may be assumed as follows: DRB3 with DR3, DR11, DR12, DR13 and DR14; DRB4 with DR4, DR7 and DR9; DRB5 with DR15 and DR16. Specific allele frequencies at each B3/B4/B5 locus is based on published associations with various DRB1 alleles, and assumes only limited variation at the indicated locus.

Wang et al. BMC Bioinformatics 2010 11:568   doi:10.1186/1471-2105-11-568

Open Data