Table 1 SNP information for the 27 prioritised loci in Discovery (iDXA) and Replication (DXA MA)

From: Large scale phenotype imputation and in vivo functional validation implicate ADAMTS14 as an adiposity gene

rsid

Phenotype

Gene

chr_pos

a1

a0

freq1

iDXA—Discovery

DXA MA—Replication

beta1

s.e.

P value

beta1

s.e.

Q-value

rs4820325

Leg FMR

MAFF/PLA2G6

22_38599978

A

G

0.58

−0.022

0.002

9.61E-23

−0.043

0.011

9.55E-04

rs117068593

Leg FMR

RIN3

14_93118229

T

C

0.19

−0.026

0.003

7.25E-20

−0.024

0.014

0.125

rs1047891

Android LMI

CPS1

2_211540507

A

C

0.32

0.022

0.002

1.31E-19

0.028

0.011

4.65E-02

rs150985439

Android LMI

CYBRD1

2_172417398

C

G

0.25

−0.023

0.003

3.50E-19

0.006

0.012

0.781

rs62218301

Leg FMR

LOC100506403

21_36741262

G

A

0.17

−0.027

0.003

3.69E-19

−0.006

0.014

0.517

rs13072731

Android LMI

ACVR2B/EXOG

3_38533335

C

A

0.61

0.021

0.002

5.15E-19

0.022

0.011

8.34E-02

rs17684944

Leg FMR

NMT1/MIR6784

17_43187141

C

T

0.55

0.02

0.002

9.80E-19

0.013

0.011

0.216

rs2736208

Gynoid fat mass

TRPS1

8_116826244

C

T

0.76

0.023

0.003

9.83E-19

0.003

0.012

0.584

rs11079849

SFI

IGF2BP1

17_47090785

T

C

0.33

−0.02

0.002

2.33E-17

−0.015

0.011

0.216

rs17325374

Android FMI

FBXO36

2_230822858

G

A

0.32

0.02

0.002

3.58E-17

0.033

0.011

1.88E-02

rs3749748

Android LMI

LINC01184

5_127350549

T

C

0.25

0.022

0.003

6.00E-17

−0.001

0.012

0.691

rs12359330

Leg FMR

ADAMTS14

10_72414845

T

C

0.27

0.021

0.003

1.32E-16

0.027

0.012

6.86E-02

rs12451882

Total lean %

UBTF

17_42301922

T

C

0.31

−0.02

0.002

2.06E-16

−0.005

0.011

0.517

rs4527444

Android LMI

PCDH7

4_30842780

G

A

0.54

0.019

0.002

3.20E-16

−0.007

0.011

0.781

rs1504797

Android LMI

MMP16

8_89434405

C

T

0.3

−0.02

0.002

9.00E-16

−0.008

0.012

0.485

rs2881198

Android LMI

LOC730338

7_46634506

C

G

0.54

−0.018

0.002

1.82E-15

−0.019

0.011

0.125

rs10761129

Android LMI

ROR2

9_94486321

T

C

0.67

0.019

0.002

3.34E-15

0.002

0.011

0.600

rs2242449

Total lean %

ACADVL/DLG4

17_7095507

T

C

0.43

−0.018

0.002

6.94E-15

−0.035

0.011

7.40E-03

rs4832298

Leg FMI

CHMP3

2_86764004

T

C

0.69

−0.019

0.002

1.10E-14

0.006

0.011

0.781

rs7893571

Android fat mass

RSU1

10_16750129

T

G

0.66

0.018

0.002

1.51E-14

−0.008

0.012

0.781

rs11525873

Android LMI

ZC3HAV1/TTC26

7_138817193

C

T

0.1

−0.029

0.004

2.88E-14

−0.011

0.018

0.493

rs6557791

Leg FMR

FAM160B2

8_21949663

C

T

0.6

−0.018

0.002

3.44E-14

0.001

0.011

0.691

rs12274114

Android LMI

LRP5/PPP6R3

11_68255577

C

A

0.28

−0.019

0.003

5.18E-14

−0.023

0.012

0.102

rs1441264

SFI

LINC00331

13_79580919

A

G

0.59

0.018

0.002

6.02E-14

−0.013

0.011

0.875

rs2504236

Android LMI

FLT3

13_28613298

T

C

0.59

−0.017

0.002

1.11E-13

−0.014

0.011

0.216

rs4660586

Gynoid fat mass

HIVEP3

1_42407229

T

C

0.74

−0.019

0.003

1.82E-13

0.005

0.012

0.781

rs59893724

SAT

SSBP2

5_80830788

G

A

0.25

−0.019

0.003

6.00E-13

−0.019

0.012

0.182

  1. a1 denotes the effect allele and freq1 is the frequency of the effect allele in Discovery, while a0 is the other allele. beta1 is the effect on the Phenotype per copy of a1 and s.e. is the error of beta1. Discovery presented as two-sided P values and Replication presented as FDR-corrected one-sided Q-values and considered successful if Q-value < 0.1 (in bold). Phenotype calculations and explanations can be found in Supplementary Data 1, but briefly FMR indicates fat-to-lean mass ratio, LMI indicates lean mass index and SFI is the segmental fat index. Replication cohort summary statistics are given in Supplementary Data 4. Gene column was annotated simply by proximity to the lead-associated variant (±500 kb). chr_pos denotes the chromosome and chromosomal location of each variant. Genomic locations and annotations given in GRCh37/hg19 and dbSNP build 150.
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