Table 2 Association of the identified susceptibility loci with different food allergies in the GOFA discovery and replication sets

From: Genome-wide association study identifies the SERPINB gene cluster as a susceptibility locus for food allergy

     

GOFA discovery set

GOFA replication set

Meta-analysis

SNP ID

Chr

Positiona

EA/AA

Trait

AF

OR

P value

AF

OR

P value

AF

OR

P value

rs12123821

1

152179152

T/C

FA

0.058

2.55

8.4 × 10 −10

0.060

2.86

6.1 × 10 −7

0.058

2.65

2.6 × 10 −15

FLG-AS1 (intron_variant)

PN

 

2.35

1.5 × 10−4

 

3.50

8.3 × 10−6

 

2.69

1.3 × 10−8

    

HE

 

2.67

7.0 × 10−8

 

2.89

1.7 × 10−5

 

2.74

5.4 × 10−12

    

CM

 

3.59

2.4 × 10−9

 

3.24

4.1 × 10−4

 

3.49

5.2 × 10−12

rs11949166

5

132027681

T/A

FA

0.719

0.60

1.2 × 10 −13

0.696

0.69

3.0 × 10 −5

0.712

0.63

4.3 × 10 −17

IL4/KIF3A (intergenic)

PN

 

0.63

4.3 × 10−6

 

0.72

2.3 × 10−3

 

0.66

3.6 × 10−8

    

HE

 

0.60

2.0 × 10−9

 

0.66

1.9 × 10−4

 

0.62

2.2 × 10−12

    

CM

 

0.64

1.9 × 10−5

 

0.79

0.054

 

0.68

4.6 × 10−6

rs9273440

6

32627561

C/T

FA

0.706

0.98

0.053

0.707

0.75

0.088

0.706

0.89

0.010

HLA-DQB1 (3-prime UTR variant)

PN

 

0.66

6.6 × 10 −7

 

0.45

3.8 × 10 −6

 

0.58

1.7 × 10 −11

    

HE

 

1.35

0.61

 

0.90

0.65

 

1.17

0.90

    

CM

 

1.15

0.47

 

0.89

0.78

 

1.05

0.45

rs2212434

11

76281593

T/C

FA

0.459

1.29

3.4 × 10 −4

0.477

1.47

8.2 × 10 −5

0.465

1.35

1.4 × 10 −7

C11orf30/LRRC32 (intergenic_variant)

   

PN

 

1.25

0.020

 

1.65

4.2 × 10−3

 

1.36

7.2 × 10−6

    

HE

 

1.37

2.3 × 10−4

 

1.43

0.012

 

1.39

8.8 × 10−6

    

CM

 

1.37

3.3 × 10−3

 

1.39

0.039

 

1.38

3.4 × 10−4

rs12964116

18

61442619

G/A

FA

0.050

1.90

5.7 × 10 −6

0.051

1.69

9.4 × 10 −3

0.050

1.82

2.4 × 10 −7

SERPINB7 (intron variant)

PN

 

2.42

1.2 × 10−6

 

1.44

0.35

 

2.11

7.2 × 10−6

    

HE

 

1.48

0.032

 

1.82

0.019

 

1.60

1.7 × 10−3

    

CM

 

1.77

2.2 × 10−3

 

1.71

0.18

 

1.75

1.1 × 10−3

rs1243064

18

61513975

A/T

FA

0.259

1.48

4.3 × 10−7

0.253

1.07

0.20

0.257

1.31

2.1 × 10−6

SERPINB7/B2 (intergenic_variant)

PN

 

1.49

4.6 × 10−5

 

1.07

0.38

 

1.34

1.4 × 10−4

    

HE

 

1.65

1.6 × 10 −7

 

1.21

0.028

 

1.47

4.2 × 10 −8

    

CM

 

1.80

9.8 × 10−7

 

1.03

0.36

 

1.51

7.5 × 10−6

  1. AA alternative allele, AF effect allele frequency, CM cow’s milk, EA effect allele, FA food allergy, GOFA Genetics of Food Allergy Study, OR odds ratio, HE hen’s egg, PN peanut. Strongest association for each SNP is indicated in bold
  2. aGenomic positions were based on human genome reference assembly GRCh37.p13
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