HLA-associations to anti-JCV antibody status among German MS patients.

Results from the association analysis between HLA-alleles and JCV seropositivity in the German MS cases. The frequencies in the second column are the frequencies of HLA alleles among JCV Ab seropositive and seronegative respectively. In the crude analysis each allele was analysed on its own, adjusted for gender and age. The analysis was performed in PLINK 1.07 [49]. The analysis was adjusted for age at sampling, significant principal components from EIGENSTRAT analysis of genomewide SNP data and gender. Age was included as a continuous covariate. *Multivariate: all nominally significant alleles from the same gene in the same model, adjusted for age and gender.DQB1*06:03 and DQA1*01:03 were not included in the analysis because the allele frequency was below 5%.Common extended HLA haplotypes were selected from those published in the literature for the Caucasian population [19]–[21]. Alternative common DRB1*15 haplotypes DQB1*06:02-DQA1*01:02-DRB1*15-B*07-C*07-A*02, DQB1*06:02-DQA1*01:02-DRB1*15-B*07-C*07-A*03, DQB1*06:02-DQA1*01:02-DQB1*15-B*51-C*?-A*02, DQB1*06:02-DQA1*01:02-DRB1*15-B*51-C*?-A*11. The DQB1*03:01-DQA1*05-DRB1*11-B*51-A*02 haplotype exist with many different C alleles, C*05 not being the most common one.