Table 1 Forty-two newly-identified locus-trait associations in this study.

From: Inherited basis of visceral, abdominal subcutaneous and gluteofemoral fat depots

Trait

CHR

BP

SNP

Effect allele

Other allele

EAF

BETA

SE

p value

Nearest gene

GFAT

11

95840436

rs1074742

A

G

0.401

0.041

0.007

1.40E−08

MAML2

GFAT

12

124344710

rs138756410

T

C

0.986

−0.172

0.031

3.00E−08

DNAH10

GFAT

12

125092343

rs4765159

A

G

0.018

0.146

0.027

3.50E−08

NCOR2

VATadj

2

121310704

rs35932591

C

T

0.879

0.061

0.011

3.80E−08

LINC01101

VATadj

10

25767521

rs1329254

C

T

0.37

0.042

0.007

1.40E−08

GPR158

VATadj

11

69195097

rs7933253

T

C

0.048

0.098

0.017

1.30E−08

LOC102724265

VATadj

(Male)

2

121310704

rs35932591

C

T

0.88

0.086

0.016

3.90E−08

LINC01101

VATadj

(Female)

3

56901687

rs1500714

C

G

0.854

0.081

0.015

1.80E−08

ARHGEF3

ASATadj

1

201016296

rs3850625

G

A

0.882

−0.079

0.011

1.80E−12

CACNA1S

ASATadj

9

1044400

rs2048235

C

T

0.384

0.041

0.007

4.10E−08

LINC01230

ASATadj

9

1052722

rs6474550

G

T

0.66

0.045

0.008

1.30E−09

DMRT2

ASATadj

15

62757857

rs17205757

A

G

0.674

−0.042

0.008

3.20E−08

MIR6085

ASATadj

17

76324751

rs4444401

A

G

0.473

−0.04

0.007

4.20E−08

SOCS3

ASATadj

(Female)

1

116916645

rs749166380

CT

C

0.102

0.102

0.018

2.20E−08

ATP1A1

ASATadj

(Female)

8

58352327

rs776481989

ATAAT

A

0.998

0.795

0.134

8.60E−09

LOC101929488

GFATadj

2

3648186

rs7588285

C

G

0.188

0.053

0.009

1.40E−08

COLEC11

GFATadj

2

226768344

2:226768344_CA_C

CA

C

0.193

−0.051

0.009

2.60E−08

NYAP2

GFATadj

3

196818853

rs13099700

A

G

0.722

0.047

0.008

7.90E−09

DLG1

GFATadj

5

38810354

rs142369482

G

GT

0.656

−0.044

0.008

9.10E−09

OSMR-AS1

GFATadj

10

122970216

rs1907218

T

C

0.314

−0.049

0.008

3.60E−10

FGFR2

GFATadj

(Male)

4

104780790

rs528845403

A

AATGTGT

0.991

−0.325

0.061

2.40E−08

TACR3

GFATadj

(Female)

1

181161153

rs7550430

A

G

0.998

0.892

0.144

1.80E−09

LINC01732

GFATadj

(Female)

2

165533198

rs386652275

T

TC

0.974

−0.19

0.034

3.20E−08

COBLL1

VAT/ASAT

2

178121005

rs13028464

C

T

0.631

−0.039

0.007

4.80E−08

NFE2L2

VAT/ASAT

6

19947871

rs70987287

T

TTTTTA

0.728

0.064

0.008

1.70E−17

ID4

VAT/ASAT

8

25459001

rs3890765

C

A

0.941

−0.084

0.015

6.80E−09

CDCA2

VAT/ASAT

9

1054362

rs6474552

G

C

0.432

−0.04

0.007

1.20E−08

DMRT2

VAT/ASAT

10

63702572

rs55767272

A

C

0.937

0.085

0.014

6.80E−09

ARID5B

VAT/ASAT

10

122992475

rs11199845

C

T

0.46

0.055

0.007

1.50E−14

FGFR2

VAT/ASAT

(Male)

2

61760756

rs13390751

A

C

0.838

0.076

0.013

1.30E−08

XPO1

VAT/ASAT

(Male)

6

19949170

6:19949170_GT_G

GT

G

0.746

0.068

0.012

3.70E−09

ID4

VAT/ASAT

(Male)

10

122992442

rs11199844

C

T

0.463

0.059

0.01

5.90E−09

FGFR2

VAT/ASAT

(Female)

6

19947871

rs70987287

T

TTTTTA

0.729

0.064

0.011

8.50E−10

ID4

VAT/ASAT

(Female)

12

121319417

rs59757908

T

C

0.995

−0.425

0.076

4.20E−08

SPPL3

VAT/GFAT

14

94844947

rs28929474

C

T

0.982

0.16

0.026

4.80E−10

SERPINA1

VAT/GFAT

(Female)

1

162430821

rs9660318

G

C

0.203

0.068

0.012

1.80E−08

UHMK1

VAT/GFAT

(Female)

2

116072770

rs11399916

T

TA

0.256

0.06

0.011

3.70E−08

DPP10

VAT/GFAT

(Female)

6

32975699

rs9276981

G

C

0.809

−0.064

0.012

4.60E−08

HLA-DOA

ASAT/GFAT

5

55830865

rs39837

C

T

0.667

0.043

0.007

2.60E−08

LINC01948

ASAT/GFAT

14

95219657

rs8006225

G

T

0.817

0.055

0.009

2.60E−09

GSC

ASAT/GFAT

16

86424697

rs1552657

G

A

0.549

−0.037

0.007

4.90E−08

LINC00917

ASAT/GFAT

(Female)

5

55830865

rs39837

C

T

0.666

0.061

0.01

9.10E−09

LINC01948

  1. Newly-identified loci were defined as loci that associated with an adiposity trait with p < 5 × 10−8 and that were not in LD (R2 < 0.10) with any of the loci in the GWAS catalog for adiposity or related anthropometric traits (see “Methods”)35. “adj” traits are adjusted for BMI and height (see “Methods”). Note that rs35932591 (VATadj and VATadj (Male)), rs70987287 (VAT/ASAT and VAT/ASAT (Female)), and rs39837 (ASAT/GFAT and ASAT/GFAT (Female)) are duplicated, so 39 unique lead SNPs are presented in this table. Loci were additionally cross-referenced with prior studies using the Type 2 Diabetes Knowledge Portal (Supplementary Table 7).
  2. BP GRCh37 position, EAF effect allele frequency, BETA effect size per effect allele, p value BOLT-LMM association p value.
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