Table 2 Genetic loci associated with Subs, Psych, and Com.

From: Genome-wide association study of psychiatric and substance use comorbidity in Mexican individuals

SNPa

Band

Position

A1/A2b

MAF Subsc

MAF Cont

OR [95% CI] p-value

Gene

(a) Subs

rs845885

6p25.3

6:1019362

G/T

0.3691

0.3186

1.36 [1.20–1.55] 1.82e−06

LINC01622 (Intron)

rs2153893

6q23.3

6:137295402

T/C

0.2787

0.3264

0.76 [0.66–0.86] 4.55e−05

Intergenic

rs7048650

9p22.1

9:19397040

A/G

0.2894

0.2422

1.33 [1.16–1.52] 4.26e−05

 

rs9530459

13q22.2

13:76250576

C/A

0.2174

0.1607

1.41 [1.20–1.66] 2.60e−05

LMO7 (Intron)

rs9901757

17q25.3

17:80963331

C/T

0.4264

0.4684

0.77 [0.68–0.87] 1.97e−05

B3GNTL1 (Intron)

rs1304319

18p11.32

18:1833682

T/C

0.2979

0.2436

1.33 [1.16–1.52] 4.92e−05

Intergenic

rs2824496

21q21.1

21:19171547

C/T

0.4569

0.5170

0.77 [0.69–0.88] 4.09e−05

C21orf91 (Intron)

(b) Psych

rs1098777

1q25.2

1:177508044

C/T

0.2122

0.2637

0.71 [0.60–0.84]4.75e−05

Intergenic

rs12140710

 

1:177613863

G/A

0.2836

0.3322

0.69 [0.59–0.81] 4.35e−06

 

rs4652252

 

1:177625201

G/A

0.2353

0.2883

0.69 [0.59–0.82] 1.10e−05

 

rs1923630

 

1:177649849

A/G

0.2583

0.3096

0.66 [0.57–0.79] 1.08e−06

 

rs12139234

 

1:177669302

A/G

0.2635

0.3370

0.71 [0.61–0.83] 1.55e−05

LINC01741 (Intron)

rs905488

2p14

2:68182025

T/C

0.3685

0.4501

0.72 [0.63–0.84] 1.07e−05

Intergenic

rs10208402

2q14.1

2:115203917

T/C

0.3247

0.2430

1.40 [1.19–1.64] 4.54e−05

DPP10 (Intron)

rs7634577

3p25.1

3:13795677

T/C

0.5017

0.4369

1.34 [1.16–1.54] 4.67e−05

Intergenic

rs893883

3q23

3:142567327

A/G

0.4414

0.3592

1.37 [1.18–1.59] 3.97e−05

PCOLCE2 (Intron)

rs6440116

 

3:142576455

T/C

0.4396

0.3592

1.38 [1.18–1.60] 3.14e−05

 

rs13074870

3q26.32

3:177363666

C/T

0.4077

0.3303

1.36 [1.18—1.57] 2.88e−05

LINC00578 (Intron)

rs6789946

 

3:177374031

C/T

0.3459

0.2803

1.36 [1.17–1.60] 3.97e−05

 

rs2049156

4p15.1

4:29018173

A/G

0.2571

0.1976

1.43 [1.21–1.69] 3.30e−05

Intergenic

rs11097166

4q22.1

4:88611344

G/A

0.4866

0.4074

1.41 [1.22–1.62] 2.66e−06

 

rs13132202

4q34.3

4:179125887

C/T

0.2052

0.2601

0.69 [0.58–0.82] 1.68e−05

 

rs7701154

5q14.1

5:77716621

A/G

0.5128

0.4360

1.37 [1.18–1.60] 3.88e−05

SCAMP1 (Intron)

rs3860112

5q31.1

5:134893439

C/T

0.4464

0.5088

0.73 [0.63–0.84] 1.47e−05

Intergenic

rs2317965

6p25.3

6:1545513

G/A

0.5461

0.4800

1.35 [1.17–1.55] 3.63e−05

LOC102723944 (Intron)

rs7796255

7q34

7:138963364

A/C

0.2705

0.1940

1.46 [1.23–1.73] 1.19e−05

UBN2 (Intron)

rs10885147

10q25.2- 10q26.13

10:113144540

T/G

0.2906

0.3288

0.71 [0.61–0.84] 3.69e−05

Intergenic

rs4269860

 

10:113180191

C/T

0.3250

0.3627

0.71 [0.61–0.84] 2.65e−05

 

rs4590798

 

10:113194854

G/A

0.2831

0.3217

0.71 [0.61–0.84] 4.19e−05

LOC105378485 (Intron)

rs11527950

 

10:113248666

C/T

0.2680

0.3100

0.70 [0.59–0.82] 1.81e−05

Intergenic

rs3107346

 

10:113261163

A/G

0.3406

0.3891

0.71 [0.61–0.83] 1.87e−05

 

rs11195620

 

10:113287674

T/C

0.3792

0.4284

0.70 [0.60–0.82] 6.39e−06

 

rs2138554

 

10:113310787

T/G

0.2953

0.3452

0.69 [0.59–0.81] 4.64e−06

 

rs10885243

 

10:113445582

A/G

0.3107

0.3481

0.72 [0.62–0.84] 4.84e−05

LOC105378486 (Intron)

rs1797

 

10:119705438

T/C

0.4264

0.3513

1.36 [1.18–1.58] 3.95e−05

Intergenic

rs10901874

 

10:126895917

T/C

0.2647

0.2017

1.42 [1.20–1.67] 3.74e−05

 

rs11608012

11p15.1

11:21617059

A/G

0.3874

0.3088

1.42 [1.22–1.65] 3.74e−05

 

rs1783235

11q23.3

11:116050271

G/A

0.2998

0.3612

0.72 [0.62–0.84] 3.25e−05

 

rs1824603

13q13.3

13:35955344

G/A

0.2454

0.1834

1.45 [1.23–1.72] 1.37e−05

NBEA (Intron)

rs1964449

13q14.3

13:54034731

A/G

0.5226

0.4519

1.34 [1.17–1.55] 4.69e−05

Intergenic

rs589258

13q31.3

13:94807356

T/C

0.3585

0.2929

1.37 [1.18–1.59] 4.08e−05

GPC6 (Intron)

rs608624

17q11.2

17:16404247

T/C

0.2956

0.2184

1.44 [1.22–1.70] 1.77e−05

Intergenic

rs8067381

17q12

17:36578907

T/C

0.1315

0.0797

1.64 [1.30–2.07] 3.44e−05

ARHGAP23 (Intron)

rs2027670

18p11.23

18:7732141

G/T

0.3865

0.4691

0.70 [0.61–0.82] 3.52e−06

PTPRM (Intron)

rs658864

 

18:7734917

G/A

0.4231

0.3454

1.41 [1.22–1.64] 6.16e−06

 

rs762416

21q22.3

21:45267134

T/C

0.3291

0.4075

0.71 [0.62–0.83] 6.11e−06

Intergenic

rs2070446

22q11.23

22:24035970

C/T

0.2605

0.2044

1.41 [1.20–1.67] 4.88e−05

RGLP4 (p.His241Asp)

(c) Com

rs12747494

1p22.2

1:91944137

C/T

0.2354

0.1910

1.56 [1.30–1.86] 1.40e−06

Intergenic

rs953855

2p12

2:77123866

G/T

0.4630

0.4912

0.71 [0.62–0.83] 1.29e−05

LRRTM4 (Intron)

rs13033902

 

2:77264354

C/T

0.1952

0.2453

0.68 [0.57–0.82] 3.46e−05

 

rs4848094

 

2:121400276

C/T

0.3853

0.3193

1.40 [1.20–1.63] 2.53e−05

Intergenic

rs1039201

3p25.3

3:11731029

T/C

0.4212

0.4705

0.73 [0.63–0.84] 3.50e−05

VGLL4 (Intron)

rs971515

3q26.1

3:161153006

C/T

0.4863

0.4016

1.37 [1.18–1.58] 2.81e−05

LINC02067 (Intron)

rs10076602

5q33.2

5:153902050

T/G

0.1096

0.1306

0.61 [0.48–0.77] 4.24e−05

Intergenic

rs12702917

7p21.3

7:9550478

A/G

0.4513

0.3606

1.38 [1.19–1.61] 3.67e−05

 

rs887060

7p14.1

7:43057398

C/T

0.3010

0.3614

0.72 [0.62–0.83] 3.14e−05

 

rs4470979

7p11.2

7:57320738

A/G

0.1852

0.2218

0.66 [0.55–0.80] 2.19e−05

 

rs7078706

10q26.3

10:131525017

T/G

0.2847

0.2103

1.51 [1.27–1.78] 1.94e−06

MGMT (Intron)

rs7118149

11p14.3

11:24700545

A/G

0.4675

0.3776

1.41 [1.21–1.65] 8.86e−06

LUZP2 (Intron)

rs10778569

12q23.3

12:108087904

G/A

0.2659

0.3315

0.68 [0.57–0.81] 4.92e−06

PWP1 (Intron)

rs6491403

13q32.2

13:98866841

A/G

0.4700

0.4166

1.37 [1.18–1.58] 3.62e−05

FARP1 (Intron)

rs4238213

 

13:98869342

T/G

0.5094

0.4436

1.42 [1.22–1.65] 3.65e−06

 

rs11071657

15q22.2

15:62433962

A/G

0.5146

0.4240

1.36 [1.18–1.58] 4.47e−05

Intergenic

rs150857

 

20:62173817

T/C

0.1355

0.1851

0.31 [0.18–0.52] 1.41e−05

SHPK (p.Glu215Gln)

  1. aSingle-nucleotide variant, dbSNP code. bA1 = effect allele/A2 = no effect allele. cMinor allele frequency of A1 allele. dEffect, in silico predicted effect of the variant.
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