Table 1 Twenty nine previously unreported signals for puberty timing.

From: Genomic analysis of male puberty timing highlights shared genetic basis with hair colour and lifespan

Variant

Chr

Position

Alleles

EAF

Nearest gene

Voice breaking Beta (s.e.)a

Voice breaking Pa

Menarche beta (s.e.)b

Menarche Pb

rs71578952

7

131,001,466

C/T

0.495

MKLN1

0.035 (0.003)

8.4 × 10−28

0.000 (0.004)

0.94

rs2222746

17

44,222,019

T/G

0.165

KIAA1267

0.048 (0.004)

9.0 × 10−28

n/a

n/a

rs73182377

3

181,512,034

C/T

0.227

SOX2OT

0.040 (0.004)

1.9 × 10−24

0.010 (0.005)

0.05

rs3824915

11

44,331,509

G/C

0.496

ALX4

0.030 (0.003)

1.0 × 10−20

0.008 (0.004)

0.05

rs77578010

1

11,035,758

A/G

0.776

C1orf127

0.036 (0.004)

1.1 × 10−20

0.006 (0.005)

0.18

rs7402990

15

28,384,491

G/A

0.916

HERC2

0.051 (0.006)

1.4 × 10−18

0.011 (0.008)

0.17

rs17833789

17

55,230,628

C/A

0.547

AKAP1

0.028 (0.003)

5.9 × 10−18

−0.001 (0.004)

0.83

rs12203592

6

396,321

C/T

0.170

IRF4

0.035 (0.004)

9.6 × 10−16

0.002 (0.006)

0.68

rs35063026

16

89,736,157

T/C

0.069

C16orf55

0.051 (0.006)

2.1 × 10−15

−0.007 (0.007)

0.34

rs9690350

7

547,800

C/G

0.419

PDGFA

0.025 (0.003)

3.2 × 10−14

−0.011 (0.008)

0.16

rs6560353

9

76,375,544

G/T

0.161

ANXA1

0.033 (0.004)

9.7 × 10−14

0.016 (0.005)

2.3 × 10−3

rs7905367

10

54,334,653

G/C

0.219

MBL2

0.027 (0.004)

4.7 × 10−12

−0.011 (0.005)

0.03

rs7136086

12

114,129,719

C/T

0.734

RBM19

0.025 (0.004)

1.4 × 10−11

0.019 (0.005)

3.2 × 10−5

rs10110581

8

60,691,207

G/A

0.263

CA8

0.025 (0.004)

2.3 × 10−11

0.014 (0.004)

1.3 × 10−3

rs2842385

6

19,078,274

G/A

0.193

MIR548A1

0.027 (0.004)

2.5 × 10−11

0.021 (0.005)

1.9 × 10−5

rs11836880

12

91,243,529

G/C

0.040

C12orf37

−0.053 (0.008)

1.1 × 10−10

0.006 (0.010)

0.55

rs10164550

2

121,159,205

A/G

0.657

INHBB

0.022 (0.003)

1.7 × 10−10

0.016 (0.004)

1.1 × 10−4

rs12895406

14

36,998,950

A/G

0.536

NKX2-1

0.021 (0.003)

2.8 × 10−10

0.007 (0.004)

0.05

rs835648

3

136,671,504

A/T

0.696

NCK1

0.022 (0.004)

5.2 × 10−10

0.006 (0.004)

0.20

rs780094

2

27,741,237

T/C

0.413

GCKR

0.020 (0.003)

7.8 × 10−10

0.018 (0.004)

3.7 × 10−6

rs1979835

5

135,689,839

A/G

0.876

TRPC7

0.029 (0.005)

2.5 × 10−9

0.024 (0.006)

2.7 × 10−5

rs12930815

16

4,348,635

C/T

0.521

TFAP4

0.019 (0.003)

2.6 × 10−9

0.008 (0.004)

0.03

rs12940636

17

53,400,110

C/T

0.655

HLF

0.020 (0.003)

3.6 × 10−9

0.023 (0.004)

1.4 × 10 –8(c)

rs60856990

17

7,337,853

A/G

0.629

TMEM102

0.019 (0.003)

1.3 × 10−8

−0.005 (0.004)

0.19

rs17193410

17

32,474,149

G/A

0.880

ACCN1

0.028 (0.005)

1.5 × 10−8

0.000 (0.007)

0.98

rs11761054

7

46,076,649

C/G

0.291

IGFBP3

−0.020 (0.004)

2.2 × 10−8

0.003 (0.004)

0.51

rs10765711

11

94,879,318

C/G

0.415

ENDOD1

0.018 (0.003)

2.9 × 10−8

−0.001 (0.004)

0.81

rs61168554

15

99,286,980

A/G

0.361

IGF1R

0.019 (0.003)

3.8 × 10−8

0.017 (0.004)

2.7 × 10−5

rs12983109

19

49,579,710

G/A

0.742

KCNA7

0.020 (0.004)

3.8 × 10−8

0.002 (0.005)

0.71

  1. Alleles (effect/other), EAF effect allele frequency, Beta years per allele, s.e. standard error, P P-value from additive models.
  2. aCurrent data from multi-trait GWAS for age at voice breaking in men.
  3. bPreviously reported GWAS for age at menarche in women5.
  4. cThis signal was not previously highlighted5 because that study used a distance-based metric to define independent signals rather than a LD based metric.
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