Table 1 Independent genomic loci significantly associated with BD and intelligence at a conjunctional false discovery rate <0.01

Concordant

1

174380810

rs7548540

7.77E−03

Yes

G

A

1.040

3.17E−05

0.014

3.06E−07

0.993

0.449

Adult

RABGAP1L

4

106201556

rs2647256

2.66E−03

Yes

T

C

1.053

6.06E−06

0.020

4.43E−09

1.033

0.00255

Adult

TET2

5

169271149

rs12515788

8.09E−03

No

T

C

1.060

4.26E−06

0.016

1.66E−05

1.008

0.491

DOCK2

6

98565211

rs1487445

7.78E−11

No

T

C

1.077

1.48E−15

0.031

3.27E−29

1.032

0.000229

MIR2113

7

11907220

rs2883598

2.86E−03

No

A

G

1.065

2.08E−10

0.014

2.77E−06

1.022

0.0188

THSD7A

7

71778628

rs11766995

5.68E−03

Yes

T

C

1.108

1.34E−05

0.034

8.92E−06

1.088

0.000208

Adult

CALN1

7

104667334

rs9655780

9.00E−03

Yes

G

A

1.054

2.22E−05

0.016

2.00E−05

0.973

0.0193

Adult

MLL5, SRPK2

11

61607168

rs174582

2.50E−03

No

G

A

1.059

5.46E−07

0.016

2.22E−06

1.017

0.109

Adult, fetal

FADS1, FADS2

11

79129616

rs12273727

9.93E−03

No

G

A

1.054

1.09E−05

0.015

2.38E−05

1.029

0.00904

ODZ4

11

79153448

rs11237837

2.48E−03

No

A

G

1.049

4.39E−06

0.015

2.19E−06

1.033

0.000893

ODZ4

12

49478658

rs6580698

1.52E−03

Yes

C

T

1.047

2.62E−06

0.019

5.08E−12

1.011

0.204

Adult, fetal

MLL2, RHEBL1, DHH

14

51692699

rs12431939

8.67E−03

Yes

A

G

1.057

1.04E–05

0.016

1.87E−05

1.029

0.0136

Adult

TRIM9, TMX1

16

70756066

rs7196032

2.01E−03

Yes

T

C

1.046

3.98E−06

0.015

4.47E−08

1.000

0.967

Adult

MTSS1L, VAC14

16

72450482

rs1013982

8.71E−03

Yes

G

A

1.042

3.79E−05

0.013

5.16E−06

1.009

0.347

AC004158.2

17

34892731

rs11650008

8.09E−03

Yes

C

A

1.040

3.38E−05

0.016

3.62E−09

1.040

7.08E−06

Adult

MYO19, PIGW, GGNBP2

19

13116172

rs17706798

7.81E−03

Yes

C

T

1.041

3.19E−05

0.013

1.08E−05

1.037

6.62E−05

DAND5, NFIX

Discordant

2

73552542

rs7573275

1.06E−03

Yes

A

G

1.051

1.55E−06

−0.017

1.24E−08

1.041

2.44E−05

Adult, fetal

U6, ALMS1

3

44817181

rs7611773

4.55E−03

Yes

C

T

1.043

6.76E−06

−0.012

6.11E−06

1.004

0.622

Adult, Fetal

ZNF502, ZNF501, KIF15

3

52618319

rs12487445

1.54E−06

No

A

C

1.062

2.44E−10

−0.018

3.31E−11

1.062

7.69E−12

Adult, fetal

3p21.1 region

5

7519298

rs17826816

1.04E−04

No

G

A

1.065

1.32E−08

−0.018

1.68E−08

1.018

0.0735

ADCY2

5

60727990

rs10939902

9.72E−03

Yes

C

T

1.039

4.50E−05

−0.013

4.22E−06

1.072

7.36E−16

Adult

ZSWIM6

5

140142174

rs2531337

4.91E−03

Yes

A

C

1.048

1.56E−05

−0.016

7.97E−07

1.048

3.30E−06

Adult, fetal

PCDHA1

6

29342775

rs3749971

3.27E−05

No

G

A

1.106

8.91E−10

−0.030

3.06E−09

1.191

2.10E−28

MHC region

6

43203583

rs74371173

4.08E−03

Yes

T

C

1.079

6.17E−06

−0.024

5.06E−06

1.065

5.33E−05

Adult, fetal

SRF, CUL9, TTBK1

7

21483605

rs2237303

1.64E−03

No

G

A

1.054

6.26E−08

−0.014

1.12E−06

1.029

0.00129

Adult

SP4

8

10266706

rs12550717

6.98E−03

No

A

G

1.046

4.60E−06

−0.013

1.28E−05

1.038

2.60E−05

Adult

MSRA

8

33863561

rs79445414

1.30E−03

No

C

T

1.121

8.07E−07

−0.035

7.71E−07

1.131

2.80E−08

RP11-317N12.1

8

143347922

rs4601464

5.44E−03

Yes

C

T

1.041

1.82E−05

−0.013

1.41E−06

1.064

1.18E−12

Adult

TSNARE1

9

16730258

rs59234174

8.78E−03

Yes

T

C

1.056

2.46E−05

−0.016

1.91E−05

1.034

0.00520

BNC2

10

101997490

rs11190431

6.76E−03

Yes

A

G

1.083

2.55E−05

−0.024

6.91E−07

1.046

0.00811

Adult

ERLIN1, CHUK, BLOC1S2

11

63941110

rs11608180

4.77E−03

No

G

A

1.102

6.17E−08

−0.025

6.62E−06

1.047

0.00541

Adult

FERMT3, TRPT1, FKBP2

11

112957783

rs56331084

6.15E−04

Yes

A

C

1.060

6.99E−07

−0.018

1.78E−07

1.050

7.78E−06

Excitatory

NCAM1

14

30208630

rs1959440

1.89E−03

Yes

T

G

1.049

3.51E–07

−0.013

1.41E−06

1.055

1.26E−09

Adult

PRKD1

15

82451554

rs62011975

1.45E−03

Yes

C

T

1.056

2.44E−06

−0.018

4.55E−08

1.044

3.33E−05

Adult, fetal

EFTUD1

16

7225505

rs4630565

6.27E−03

Yes

T

C

1.045

4.12E−06

−0.012

1.06E−05

1.029

0.00130

RBFOX1

17

28864382

rs216472

2.09E−03

Yes

G

A

1.044

4.22E−06

−0.014

1.74E−07

1.032

0.000227

Adult, fetal

CPD, GOSR1

17

78485226

rs7207843

1.64E−03

Yes

C

T

1.057

1.65E−06

−0.017

1.11E−06

1.052

2.30E−06

Adult, fetal

NPTX1, RPTOR