Table 1. List of genome-wide significant loci in IgG galactosylation GWAS.

Locus

Top SNP

Trait

EA

OA

EAF

Beta

SE

P

Beta repl

SE repl

P repl

Closest gene

Prioritized genes

1:24699711-25493756

rs188468174

G0

T

C

0.015

0.693

0.048

3.20E-47

0.865

0.076

2.96E-30

RUNX3

RUNX3

2:26109539-26149988

rs10177977

G0

T

C

0.334

-0.062

0.01

3.80E-10

-0.049

0.015

1.03E-03

KIF3C

KIF3C

4:103390496-103567348

rs3774964

G2

A

G

0.37

-0.065

0.01

1.56E-11

-0.038

0.015

9.20E-03

NFKB1

NFKB1; MANBA

6:31107733-31164511

rs1265109

G0

T

G

0.295

-0.063

0.011

1.57E-09

0.013

0.019

4.97E-01

HLA region

HLA region

6:74168723-74285118

rs3822960

G2

T

C

0.306

0.061

0.01

5.84E-10

0.028

0.015

6.24E-02

EEF1A1

EEF1A1; MTO1

6:143088071-143206826

rs7758383

G2

A

G

0.486

0.092

0.009

6.09E-23

0.145

0.014

9.44E-25

HIVEP2

HIVEP2

7:150856165-150906453

rs113745074

G0

T

C

0.094

0.12

0.015

6.19E-16

0.134

0.022

8.47E-10

SMARCD3

ABCF2; CHPF2; SMARCD3

8:103542538-103550211

rs13250010

G0

T

G

0.356

0.063

0.01

7.71E-11

0.062

0.015

3.47E-05

KB-1980E6.3

UBR5; RRM2B; ODF1; KB-1980E6.3

9:32933492-33385427

rs13297246

G2

A

G

0.184

0.195

0.013

4.21E-55

0.202

0.019

2.36E-26

B4GALT1

B4GALT1

11:65555524-65555524

rs10896045

G1

A

G

0.301

0.079

0.013

2.61E-09

0.079

0.017

2.42E-06

OVOL1

OVOL1; AP5B1

17:16813994-16875636

rs34562254

G1

A

G

0.106

0.166

0.019

1.48E-18

0.092

0.024

9.95E-05

TNFRSF13B

TNFRSF13B

17:43856639-44863413

rs199516

G0

T

C

0.221

0.068

0.012

1.20E-08

0.058

0.018

1.25E-03

WNT3

ARHGAP27; CRHR1; SPPL2C; MAPT; KANLS1; ARL17B; LRRC37A; NSF; WNT3

17:45766846-45870129

rs1808192

G2

A

G

0.351

0.061

0.01

5.94E-10

0.051

0.015

6.78E-04

TBKBP1

TBKBP1; TBX21

17:56404349-56418136

rs2526377

G2

A

G

0.463

0.062

0.009

5.59E-11

0.057

0.015

8.05E-05

BZRAP1

BZRAP1; SUPT4H1; RAD5C1

17:79158040-79268562

rs2659005

G2

T

C

0.436

0.079

0.009

4.36E-17

0.097

0.016

6.99E-10

SLC38A10

AZI1; ENTHD2; SLC38A10; C17orf89

21:36564553-36665202

rs4817708

G0

T

C

0.229

0.073

0.011

2.39E-11

0.043

0.017

1.15E-02

RUNX1

RUNX1

Locus- chromosome:start-end position in GRCh37 (hg19) build; Top SNP- rsID identifier for the SNP with the strongest association with the glycan trait; Trait- trait with the lowest p-value for the top SNP in the genomic locus; EA- effect allele for which the effect is reported; OA- non-effect allele; EAF- effect allele frequency; Beta- effect estimate for the effect allele of the top SNP; SE- standard error of the effect estimate; P– p-value for the top SNP-trait association; Beta repl- effect estimate for the effect allele of the top SNP in replication analysis; SE repl- standard error of the effect estimate in the replication analysis; P repl- p-value for the top SNP in the replication analysis; Closest gene- gene found closest to the top SNP in the locus; Prioritized genes- symbol for genes prioritized in the locus.