Table 1 Results from cross-ancestry meta-analysis (chromosomes 1–7)

From: Cross-ancestry genome-wide association analysis of corneal thickness strengthens link between complex and Mendelian eye diseases

SNP

Chr:bp

Nearest gene

A1/A2

European-specific meta-analysis

Asian-specific meta-analysis

Cross-ancestry meta-analysis

A1F

β (SE)

P

A1F

β (SE)

P

A1F

β (SE)

P

N

rs96067

1:36571920

COL8A2

a/g

0.81

0.99 (0.48)

4.08E-02

0.56

3.94 (0.52)

3.48E-14

0.69

2.37 (0.35)

2.52E-11

25,910

rs4846476

1:218526228

TGFB2

c/g

0.23

−1.83 (0.46)

7.22E-05

0.31

−2.11 (0.56)

1.64E-04

0.26

−1.94 (0.35)

4.77E-08

23,830

rs115781177

2:33348494

LTBP1

a/g

0.93

−5.04 (0.89)

1.69E-08

NA

NA (NA)

NA

0.93

−5.04 (0.89)

1.69E-08

12,119

rs121908120

2:219755011

WNT10A

a/t

0.03

−11.48 (1.58)

5.02E-13

NA

NA (NA)

NA

0.03

−11.48 (1.58)

5.02E-13

12,119

rs4608502

2:228134155

COL4A3

t/c

0.35

−2.47 (0.39)

4.68E-10

0.36

−2.19 (0.54)

5.12E-05

0.35

−2.37 (0.32)

1.18E-13

25,910

3:136138073

3:136138073

STAG1

d/r

0.24

−2.64 (0.47)

2.49E-08

0.19

−2.80 (1.09)

1.05E-02

0.23

−2.67 (0.43)

8.66E-10

20,982

rs9822953

3:156472071

TIPARP a

t/c

0.67

2.69 (0.40)

2.57E-11

0.67

1.11 (0.61)

7.15E-02

0.67

2.22 (0.33)

5.13E-11

25,910

rs6445046

3:171933252

FNDC3B

t/g

0.78

3.73 (0.49)

7.22E-14

0.66

3.17 (0.57)

3.59E-08

0.73

3.49 (0.37)

1.98E-20

24,899

3:177306757

3:177306757

TBL1XR1 b

d/r

0.39

−2.40 (0.42)

1.43E-08

0.53

−1.84 (0.52)

4.35E-04

0.44

−2.18 (0.32)

3.54E-11

23,060

rs28789690

4:149077899

NR3C2

a/g

0.07

−3.02 (0.74)

4.93E-05

0.11

−3.49 (0.84)

3.59E-05

0.09

−3.22 (0.55)

7.60E-09

25,128

rs10471310

5:64548961

ADAMTS6

t/c

0.37

2.62 (0.39)

1.74E-11

0.39

1.87 (0.53)

4.36E-04

0.38

2.36 (0.31)

6.12E-14

25,910

rs249767

5:141918585

FGF1

t/c

0.78

2.01 (0.46)

1.56E-05

0.51

2.15 (0.54)

7.30E-05

0.67

2.07 (0.35)

4.60E-09

25,910

rs35028368

5:178671146

ADAMTS2

i/r

0.29

−2.34 (0.48)

1.25E-06

0.11

−2.59 (0.99)

8.80E-03

0.26

−2.39 (0.43)

3.69E-08

23,060

rs13191376

6:45522139

RUNX2

t/c

0.35

−2.07 (0.39)

1.78E-07

0.14

−1.99 (0.91)

2.94E-02

0.32

−2.06 (0.36)

1.55E-08

25,910

rs1412710

6:75837203

COL12A1

t/c

0.15

−2.56 (0.56)

5.26E-06

0.33

−1.93 (0.58)

9.19E-04

0.24

−2.26 (0.40)

2.42E-08

24,899

rs1931656

6:82610188

FAM46A

a/t

0.45

2.17 (0.39)

2.75E-08

0.47

2.96 (0.52)

2.13E-08

0.46

2.451 (0.31)

6.32E-15

24,899

6:169553553

6:169553553

THBS2

i/r

0.19

−2.98 (0.62)

1.76E-06

0.30

−2.22 (0.69)

1.41E-03

0.24

−2.64 (0.46)

1.27E-08

23,060

7:66262284

7:66262284

RABGEF1 c

d/r

0.27

−3.32 (0.44)

1.25E-13

0.34

−2.73 (0.56)

1.03E-06

0.29

−3.09 (0.35)

9.62E-19

24,071

rs2106166

7:92668332

SAMD9

a/t

0.57

1.95 (0.40)

1.39E-06

0.38

1.48 (0.55)

7.99E-03

0.50

1.79 (0.32)

4.63E-08

24,899

  1. Nearest gene (reference NCBI build37) is given as locus label, but this should not be interpreted as providing support that the nearest gene is the best candidate, a list including all the genes +/− 200 kb of the lead SNP is presented in Supplementary Table 12
  2. New loci are in bold
  3. SNP rsID, Chr:bp chromosome: base pair, A1 risk allele, A2 other allele, A1F frequency of allele A1, β effect size on CCT based on allele A1, SE standard error of the effect size, i insertion, d deletion, r reference, N number of individuals included in the meta-analysis per variant
  4. aThe lead SNP is located in a validated non-coding mRNA, LINC00886
  5. bThe lead SNP is located in a validated non-coding mRNA, LINC00578
  6. cIn Lu et al.17 this locus was reported as two loci (VKORC1L1 and C7orf42)
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