Table 1 Novel SNPs reaching genome-wide significance and suggestive SNPs approaching genome wide significance

From: A large-scale genome-wide association and meta-analysis identified four novel susceptibility loci for leprosy

Info

Minor allele/Major allele

Study

F_A

F_U

P

OR

rs10100465

A/G

1.GWAS1

0.27

0.28

1.32E-02

0.79

chr8:118626279

 

2.GWAS2

0.25

0.27

7.22E-02

0.87

MED30

 

3.GWAS3

0.25

0.29

1.28E-03

0.82

  

4.Meta-GWAS

  

8.80E-06

0.82

  

5.Validation1

0.24

0.27

1.48E-02

0.87

  

6.Validation2

  

9.27E-06

0.86

  

7.All validation

  

4.23E-07

0.86

  

8.Meta-analysis

I2=61.12;

Phet=0.22

2.85E-11

0.85

rs4720118

T/C

1.GWAS1

0.34

0.29

3.43E-03

1.32

chr7:33469241

 

2.GWAS2

0.32

0.29

3.60E-02

1.17

BBS9

 

3.GWAS3

0.34

0.31

3.79E-02

1.13

  

4.GWAS1+2+3

  

1.94E-05

1.20

  

5.Validation1

0.39

0.34

4.15E-04

1.20

  

6.Validation2

  

1.03E-03

1.12

  

7.All validation

  

2.86E-06

1.14

  

8.Meta-analysis

I2=0;

Phet=0.55

3.85E-10

1.16

rs55894533

C/A

1.GWAS1

0.43

0.42

5.54E-01

1.06

chr8:11749242

 

2.GWAS2

0.46

0.42

9.10E-03

1.20

CTSB

 

3.GWAS3

0.47

0.43

4.85E-04

1.21

  

4.GWAS1+2+3

  

1.14E-03

1.15

  

5.Validation1

0.44

0.39

1.14E-03

1.19

  

6.Validation2

  

2.26E-06

1.15

  

7.All validation

  

1.13E-08

1.16

  

8.Meta-analysis

I2=29.82;

Phet=0.21

5.07E-11

1.15

rs6807915

C/T

1.GWAS1

0.48

0.48

3.86E-01

1.08

chr3:12313846

 

2.GWAS2

0.43

0.48

5.49E-03

0.82

SYN2

 

3.GWAS3

0.45

0.50

2.54E-04

0.82

  

4.GWAS1+2+3

  

6.71E-04

0.87

  

5.Validation1

0.47

0.50

6.28E-03

0.87

  

6.Validation2

  

2.84E-04

0.90

  

7.All validation

  

6.68E-06

0.89

  

8.Meta-analysis

I2=0;

Phet=0.95

1.94E-08

0.89

rs72715458

A/G

1.GWAS1

0.14

0.14

2.43E-01

0.87

chr4:181224835

 

2.GWAS2

0.14

0.15

3.43E-01

0.91

No gene

 

3.GWAS3

0.12

0.16

1.23E-05

0.71

  

4.GWAS1+2+3

  

8.01E-04

0.82

  

5.Validation1

0.12

0.14

2.34E-02

0.82

  

6.Validation2

  

9.08E-04

0.87

  

7.All validation

  

7.26E-05

0.86

  

8.Meta-analysis

I2=22.38;

Phet=0.27

2.62E-07

0.85

rs34411505

G/A

1.GWAS1

0.14

0.14

2.71E-01

0.87

chr16:27406689

 

2.GWAS2

0.12

0.15

4.22E-03

0.74

IL4R-IL21R

 

3.GWAS3

0.13

0.16

3.60E-03

0.80

  

4.GWAS1+2+3

  

3.97E-05

0.79

  

5.Validation1

0.14

0.16

3.74E-02

0.86

  

6.Validation2

  

8.05E-03

0.90

  

7.All validation

  

8.82E-04

0.89

  

8.Meta-analysis

I2=48.6;

Phet=0.08

5.82E-07

0.86

Back to article page