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Table 1 Lead genome-wide significant variants (P < 5.0 × 10−8) for continuous antibody response phenotypes for antigens with at least 20% seroprevalence

From: The landscape of host genetic factors involved in immune response to common viral infections

Antigen N Chr Position Variant Alleles EAF Beta2 (SE) P Function Nearest gene
Effect Other
CMV pp52 5000 6 32301427 rs115378818 C T 0.978 0.633 (0.095) 2.9 × 10−11 intronic TSBP1
EBV EA-D 6806 6 32665840 rs34825357 T TC 0.409 − 0.114 (0.017) 2.0 × 10−11 intergenic MTCO3P1
EBV EBNA 7003 3 151114852 rs67886110* G T 0.596 0.103 (0.017) 1.3 × 10−9 intronic MED12L
6 32451762 rs9269233 A C 0.249 0.315 (0.019) 3.5 × 10−61 intergenic HLA-DRB9
EBV VCA p18 7492 6 31486158 6:31486158 GT G 0.245 0.197 (0.018) 7.1 × 10−27 intergenic PPIAP9
EBV ZEBRA 7197 6 32637772 rs9274728 A G 0.718 − 0.315 (0.018) 4.7 × 10−67 intergenic HLA-DQB1
HHV6 IE1A 6077 7 139985625 rs2429218 T C 0.615 0.106 (0.019) 1.4 × 10−8 downstream RP5-1136G2.1
HHV7 U14 7481 6 32602665 rs139299944 C CT 0.655 0.114 (0.017) 1.5 × 10−11 intronic HLA-DQA1
11 118767564 rs75438046 G A 0.970 0.280 (0.049) 1.3 × 10−8 3′-UTR CXCR5 / BCL9L
17 45794706 rs1808192 A G 0.331 − 0.099 (0.017) 9.8 × 10−9 intergenic TBKBP1
HSV1 1gG 5468 6 32627852 rs1130420 G A 0.583 − 0.122 (0.019) 2.5 × 10−10 3′-UTR HLA-DQB1
10 91189187 rs11203123* A C 0.988 0.512 (0.093) 3.9 × 10−8 intergenic SLC16A12
VZV gE/Ig1 7289 6 32623193 rs9273325 G A 0.831 − 0.232 (0.021) 8.2 × 10−28 intergenic HLA-DQB1
BKV VP1 7523 19 49206462 rs681343 C T 0.491 − 0.125 (0.016) 4.7 × 10−15 synonymous FUT2
JCV VP1 4471 6 32589842 rs9271525 G A 0.163 − 0.318 (0.031) 3.9 × 10−24 intergenic HLA-DQA1
MCV VP1 5219 3 18238783 rs776170649 CT C 0.790 − 0.134 (0.024) 1.7 × 10−8 intergenic LOC339862
5 138865423 rs7444313 G A 0.263 0.169 (0.021) 2.4 × 10−15 intergenic TMEM173
6 32429277 rs9268847 A G 0.750 − 0.195 (0.022) 2.4 × 10−19 intronic HLA-DRB9
  1. 1VZV antigens gE and gI were co-loaded onto the same Luminex bead set
  2. 2Regression coefficients were estimated per 1 standard deviation increase in normalized MFI value z-scores with adjustment for age at enrollment, sex, body mass index, socioeconomic status (Townsend deprivation index), the presence of any autoimmune conditions, genotyping array, serology assay date, quality control flag, and the top 10 genetic ancestry principal components
  3. *Multi-allelic variants: rs67886110 (G/T and G/C) and rs11203123 (A/C and A/AC)