Table 3 Novel and Qatari-predominant association signals discovered form GWAS meta-analysis of QGP.

From: Whole genome sequencing in the Middle Eastern Qatari population identifies genetic associations with 45 clinically relevant traits

Traita

Variant ID

Chr

Position

A1

A2

MAF (%)

GWAS

Replication

Meta-analysis

Nearest gene

Beta (se)b

P value

Beta (se)b

P value

Beta (se)b

P value

P-het

Novel associations with traits

Hcyst

rs147242481

21

45192107

G

A

1.4

0.52 (0.08)

2.0 × 10−11

0.26 (0.06)

3.0 × 10−5

0.36 (0.07)

1.0 × 10−13

0.01

CSTB

INR

rs865897814

13

112900219

T

C

1.2

0.55 (0.08)

1.7 × 10−11

0.41 (0.08)

8.2 × 10−8

0.47 (0.08)

1.4 × 10−17

0.22

LINC01070

PT

rs865897814

13

112900219

T

C

1.2

0.58 (0.08)

6.4 × 10−13

0.45 (0.07)

8.3 × 10−11

0.51 (0.08)

7.7 × 10−22

0.24

LINC01070

Tbil

rs2204511

2

235503327

A

G

23.5

−0.12 (0.02)

1.3 × 10−8

−0.05 (0.02)

2.4 × 10−3

−0.08 (0.02)

2.0 × 10−9

0.02

ARL4C

WBC

rs12080243

1

160347420

C

T

13.5

−0.15 (0.03)

3.6 × 10−8

−0.15 (0.02)

1.8 × 10−11

−0.15 (0.03)

3.5 × 10−18

0.93

NHLH1

WBC

rs11809289

1

158082328

A

G

13

−0.17 (0.03)

6.9 × 10−10

−0.13 (0.02)

5.6 × 10−9

−0.15 (0.03)

5.3 × 10−17

0.30

KIRREL

WBC

rs76537384

1

158055475

T

C

2.4

−0.34 (0.06)

3.2 × 10−8

−0.23 (0.05)

5.7 × 10−6

−0.27 (0.06)

2.6 × 10−12

0.15

KIRREL

WBC

rs6677720

1

156835588

T

C

6.6

−0.22 (0.04)

5.3 × 10−9

−0.10 (0.03)

7.4 × 10−4

−0.15 (0.03)

3.4 × 10−10

0.01

NTRK1

Novel Qatari-predominant associations at known loci

Hcyst

rs187169250

11

89192588

C

T

6.77

−0.21 (0.04)

2.8 × 10−9

−0.21 (0.03)

1.4 × 10−11

−0.21 (0.03)

1.7 × 10−19

0.94

NOX4

Hcyst

rs71469261

11

89138485

C

T

5.93

−0.22 (0.04)

1.5 × 10−8

−0.27 (0.03)

1.1 × 10−16

−0.25 (0.04)

1.3 × 10−23

0.27

NOX4

Mg

rs189260309

9

77439134

T

G

5.85

0.17 (0.04)

1.1 × 10−5

0.22 (0.03)

1.1 × 10−11

0.20 (0.04)

6.6 × 10−16

0.39

TRPM6

Tbil

rs182021046

2

234177849

C

G

5.73

−0.17 (0.04)

6.1 × 10−6

−0.18 (0.03)

9.0 × 10−8

−0.17 (0.04)

2.4 × 10−12

0.94

ATG16L1

Tbil

rs183884248

12

21085954

C

T

5.04

0.21 (0.04)

1.2 × 10−7

0.29 (0.04)

2.5 × 10−15

0.25 (0.04)

4.6 × 10−21

0.16

SLCO1B3

TG

rs376997679

11

115393226

G

A

5.92

0.16 (0.04)

7.3 × 10−6

0.14 (0.03)

2.6 × 10−6

0.15 (0.03)

1.1 × 10−10

0.67

CADM1

UA

rs143909619

4

10084946

G

A

5.27

0.19 (0.04)

1.1 × 10−7

0.22 (0.03)

1.5 × 10−14

0.21 (0.03)

1.1 × 10−20

0.42

WDR1

Vit-B12

rs143522487

11

59684469

C

T

5.28

−0.31 (0.04)

1.4 × 10−14

−0.30 (0.03)

8.2 × 10−19

−0.30 (0.04)

5.8 × 10−32

0.81

OOSP1

WBC

rs143969748

1

159529347

G

A

6.26

−0.35 (0.04)

1.4 × 10−19

−0.41 (0.03)

6.9 × 10−38

−0.38 (0.03)

5.0 × 10−56

0.21

OR10J5

  1. aSee Table 1 for trait abbreviation.
  2. bEffect size (beta) for allele A2; se; standard error; MAF; Minor allele (A2) frequency. P-het, p value for Cochran’s Q heterogeneity statistic. P values obtained from GWAS analysis of QGP data using linear mixed models adjusting for age, sex, population principal components and relatedness.
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