[Retracted] Potential Pleiotropic Genes and Shared Biological Pathways in Epilepsy and Depression Based on GWAS Summary Statistics

Table 2

Expression analysis of overlapping significant genes in GEO data sets for epilepsy and depression.

Gene

Epilepsy and control

Depression and control

GSE134697; (temporal neocortex)

GSE140393; (neuron of brain)

GSE143272; (peripheral blood)

GSE24095; (dentate gyrus)

GSE24095; (CA1 subregion)

GSE98793; (peripheral blood)

value

logFC

value

logFC

value

logFC

value

logFC

value

logFC

value

logFC

AKR7A2

6.41E − 01

−0.071154

2.80E − 01

0.402435

9.27E − 01

0.003756

3.26E − 02

−0.441855

2.96E − 01

0.401464

8.49E − 01

−0.009706

ANKS1B

7.42E − 01

−0.050776

9.83E − 01

−0.006249

—

—

—

—

—

—

3.43E − 01

−0.019126

APOPT1

—

—

3.69E − 01

0.311981

—

—

—

—

—

—

6.72E − 01

−0.014992

C3orf62

9.46E − 01

−0.016788

4.61E − 01

0.217144

3.27E − 02

0.126796

—

—

—

—

6.33E − 01

0.046092

C3orf84

—

—

—

—

—

—

—

—

—

—

—

—

CABP1

2.22E − 02

−0.698529

1.32E − 04

1.107323

—

—

1.19E − 01

−0.267023

3.07E − 01

−0.232798

3.45E − 01

0.029644

CAMTA1

1.37E − 02

−0.434810

6.99E − 02

−0.480105

—

—

6.46E − 02

−0.300850

2.15E − 06

1.017606

6.78E − 01

−0.017550

CCDC36

—

—

7.10E − 01

0.238585

—

—

—

—

—

—

9.68E − 01

0.001242

CCDC71

3.55E − 01

0.200210

6.27E − 01

0.195380

—

—

—

—

—

—

3.45E − 01

−0.059664

CD3G

8.95E − 01

0.630822

—

—

4.22E − 05

−0.337160

1.05E − 01

0.520204

1.76E − 01

0.289366

6.12E − 04

−0.248008

CSMD1

5.68E − 01

0.139004

1.24E − 01

0.397566

—

—

6.37E − 02

−0.553569

5.42E − 04

−1.061323

9.20E − 01

0.003447

CTTNBP2

3.65E − 01

0.322406

4.90E − 01

0.181388

—

—

4.91E − 02

−0.324549

6.95E − 07

−0.984644

2.82E − 01

0.067574

CUL4A

9.94E − 01

0.005898

6.61E − 01

0.115468

9.81E − 03

−0.080967

3.86E − 05

−1.158345

8.95E − 08

−1.542267

5.51E − 01

0.042477

DCDC2

4.41E − 01

0.291765

4.56E − 01

−0.327428

—

—

9.38E − 01

0.021056

1.61E − 02

−0.955580

8.26E − 01

0.006778

DGCR8

1.00E + 00

0.001204

5.08E − 03

0.825074

2.23E − 01

0.060772

4.82E − 01

−0.108868

1.72E − 01

0.310592

—

—

DRD2

6.90E − 02

1.426706

8.86E − 01

0.090407

—

—

4.11E − 02

0.747900

1.68E − 01

−0.257480

4.74E − 01

0.019112

ERBB4

7.39E − 01

−0.053858

2.39E − 06

−1.251361

—

—

2.34E − 02

−0.788956

1.97E − 01

−0.445276

8.71E − 01

0.004208

EXT1

2.84E − 01

0.240882

6.46E − 01

0.137694

1.58E − 01

0.081905

1.35E − 01

−0.273547

8.07E − 01

0.050545

8.74E − 01

0.006739

FANCL

3.47E − 02

0.663862

4.32E − 01

−0.255967

—

—

3.47E − 02

0.630477

2.11E − 03

−0.995716

8.70E − 01

0.016326

FGFR1O

—

—

2.31E − 01

0.318958

5.37E − 01

−0.036713

4.30E − 01

0.246790

3.82E − 01

0.168861

8.90E − 01

−0.006987

FRAT1

1.67E − 02

−0.667620

1.00E + 00

−0.055751

8.74E − 05

0.287361

4.52E − 02

0.253290

9.46E − 02

0.395859

4.89E − 01

0.044500

GGT7

6.04E − 01

0.109136

5.99E − 03

0.833597

—

—

—

—

—

—

5.00E − 01

−0.034044

H2BC5

—

—

1.14E − 01

−0.677723

4.21E − 02

0.189329

9.84E − 03

−0.551607

8.05E − 03

−0.767840

8.34E − 01

0.019205

H2BC15

—

—

7.15E − 01

−0.182414

—

—

2.09E − 01

−0.363196

3.76E − 02

−0.519259

8.39E − 01

0.007545

HS6ST3

2.93E − 01

−0.307687

8.39E − 02

−0.490693

—

—

7.97E − 02

0.231212

6.61E − 01

−0.144567

9.33E − 01

−0.001769

HSPA1L

3.18E − 01

−0.256179

2.54E − 02

−0.134126

2.03E − 01

0.063212

7.14E − 01

0.102142

6.00E − 01

−0.090310

2.59E − 02

0.094501

HTT

7.43E − 01

0.073437

3.62E − 01

0.238679

7.46E − 01

−0.017831

—

—

—

—

8.77E − 01

−0.008191

KLHDC8B

5.58E − 01

0.162394

2.62E − 01

0.462244

1.58E − 06

0.448718

—

—

—

—

1.49E − 01

0.142764

LAMB2

1.18E − 01

−0.330897

4.33E − 02

0.786974

—

—

9.24E − 01

0.030860

8.91E − 01

−0.025042

3.69E − 01

0.040969

LOC388849

—

—

—

—

—

—

4.47E − 01

0.175563

1.06E − 01

−0.262279

—

—

MAGI2

4.84E − 01

−0.102540

8.18E − 01

−0.062644

—

—

7.12E − 02

−0.308707

8.14E − 01

0.055806

7.48E − 01

0.010130

MAP9

5.41E − 01

−0.123496

5.52E − 02

−0.544303

—

—

—

—

—

—

9.65E − 02

−0.103256

MTCH2

5.41E − 01

−0.097915

1.50E − 01

−0.496292

9.80E − 01

−0.001085

3.37E − 01

0.157165

7.16E − 01

0.071431

7.54E − 01

−0.012566

NDUFS3

9.59E − 01

−0.003727

7.91E − 01

−0.090894

2.34E − 02

−0.093340

3.73E − 01

−0.222882

3.49E − 01

−0.220371

2.44E − 01

−0.080870

NR1D1

3.37E − 01

−0.231955

3.95E − 01

−0.288106

—

—

4.44E − 01

−0.180710

1.53E − 01

−0.367870

—

—

PGBD1

9.13E − 01

−0.014502

1.55E − 01

0.407309

—

—

1.24E − 01

0.271268

2.02E − 01

−0.213883

4.16E − 01

−0.059185

POM121L2

3.65E − 01

−0.673456

—

—

—

—

—

—

—

—

1.93E − 01

−0.047739

PRPF6

1.19E − 01

−0.261913

4.84E − 01

0.207011

—

—

—

—

—

—

4.07E − 01

−0.036755

PSEN2

4.91E − 01

−0.133366

3.22E − 01

0.371659

4.51E − 02

0.078019

3.76E − 01

0.218112

4.09E − 04

−0.821588

9.81E − 01

0.000921

QRICH1

6.16E − 01

−0.082273

9.67E − 01

−0.011475

3.42E − 01

−0.034452

—

—

—

—

1.33E − 01

−0.082170

RANBP1

1.92E − 01

−0.223869

6.47E − 01

−0.136407

1.35E − 02

−0.092339

1.96E − 01

−0.528437

3.37E − 01

−0.249405

2.58E − 01

−0.069282

RERE

3.24E − 01

0.178760

9.91E − 01

0.003332

2.60E − 02

0.117265

1.59E − 01

−0.239941

5.27E − 01

0.122611

2.67E − 01

0.034040

RETNLB

—

—

—

—

—

—

2.78E − 01

−0.361063

6.23E − 03

−0.577025

2.41E − 01

0.041113

RPL5

8.09E − 01

−0.035783

2.75E − 01

0.328281

9.62E − 06

−0.198050

5.99E − 01

−0.072398

6.36E − 01

0.083569

—

—

SAMD10

5.94E − 01

−0.147780

9.90E − 02

0.612102

—

—

3.91E − 02

0.547014

2.87E − 01

−0.265998

2.70E − 01

0.045345

SCN9A

8.42E − 03

1.127240

2.67E − 01

−0.314468

—

—

9.02E − 02

−0.541403

1.06E − 01

−0.398657

2.06E − 01

0.058730

SHISA9

2.86E − 01

0.311081

1.39E − 01

−0.381900

—

—

—

—

—

—

5.68E − 02

0.058096

SLC27A5

1.34E − 01

0.406992

1.39E − 01

0.676566

—

—

3.22E − 02

0.615968

9.27E − 01

−0.021176

8.50E − 01

−0.007075

SLC39A13

8.06E − 01

−0.043872

8.18E − 04

1.004416

—

—

5.39E − 04

−0.741070

6.90E − 09

−1.318985

6.32E − 01

0.020183

SLCO3A1

4.20E − 01

0.434620

4.92E − 01

0.186119

6.36E − 04

0.165314

1.59E − 02

0.536961

1.12E − 04

0.933186

3.43E − 02

0.115565

SMYD3

4.93E − 01

0.144736

6.47E − 01

0.131758

7.26E − 01

−0.015724

3.44E − 02

−0.520355

9.08E − 02

−0.374173

4.07E − 01

−0.054738

SNX29

8.42E − 01

−0.041452

6.81E − 02

0.495659

2.01E − 01

0.060211

—

—

—

—

8.45E − 01

−0.033357

SPI1

1.00E + 00

0.018254

5.58E − 01

0.414446

1.44E − 03

0.179157

7.15E − 01

−0.101270

2.46E − 01

−0.215073

3.73E − 01

0.080084

TCERG1

5.59E − 01

0.099762

7.66E − 01

0.089781

3.13E − 02

−0.070962

7.33E − 02

−0.425849

2.09E − 03

−0.661357

1.13E − 01

−0.090570

TCF4

9.24E − 01

−0.010336

2.17E − 02

−0.602545

2.35E − 01

0.069245

5.29E − 01

−0.181937

4.06E − 03

−0.770242

1.91E − 02

−0.155027

TMEM115

9.39E − 02

−0.322173

1.45E − 01

−0.504253

8.40E − 02

0.058200

—

—

—

—

2.35E − 01

0.076986

TMEM163

8.25E − 01

−0.048788

2.36E − 01

0.427894

—

—

—

—

—

—

6.63E − 01

−0.029944

TRIM28

3.86E − 01

−0.137287

3.78E − 01

0.287162

1.79E − 03

0.138203

8.35E − 01

0.032540

3.90E − 01

−0.139497

4.96E − 01

−0.048614

UBE4A

7.44E − 01

−0.049967

5.04E − 02

−0.573560

4.24E − 05

−0.153564

8.34E − 01

−0.033588

3.36E − 01

−0.141556

8.02E − 01

0.010780

VRK2

2.02E − 01

0.987601

9.27E − 01

−0.124355

—

—

1.82E − 01

−0.286048

1.25E − 01

0.300422

5.30E − 01

0.050969

ZBTB45

3.59E − 01

−0.185222

4.50E − 01

−0.281306

1.34E − 01

0.063322

—

—

—

—

5.13E − 01

0.024132

ZDHHC8

6.37E − 01

0.102951

6.77E − 04

1.451202

2.48E − 02

−0.115906

1.71E − 01

−0.271764

8.58E − 02

−0.285665

4.50E − 01

0.021820

ZKSCAN3

1.60E − 01

0.341460

4.84E − 01

0.230203

—

—

—

—

—

—

5.10E − 01

−0.036989

ZKSCAN4

8.29E − 01

−0.043671

7.32E − 01

0.118014

1.27E − 02

0.103709

—

—

—

—

5.97E − 01

−0.037343

ZNF395

6.06E − 01

−0.107457

1.13E − 01

0.506756

6.94E − 01

−0.020972

2.47E − 01

−0.233498

5.35E − 01

0.125845

4.03E − 01

−0.036939

ZSCAN9

4.46E − 01

−0.207915

4.42E − 01

0.285460

—

—

—

—

—

—

1.45E − 01

−0.060832

ZSCAN12

4.53E − 01

−0.145579

4.42E − 01

−0.263233

—

—

—

—

—

—

4.00E − 01

−0.039924

ZSCAN26

1.00E + 00

0.001386

4.49E − 01

−0.224666

—

—

—

—

—

—

2.24E − 01

−0.109111

ZSCAN31

7.61E − 05

−1.136585

5.38E − 01

−0.223210

—

—

—

—

—

—

4.84E − 01

−0.050331

Significance threshold

8.20E − 04

—

7.81E − 04

—

1.56E − 03

—

1.11E − 03

—

1.11E − 03

—

7.81E − 04

—

CA1, cornu ammonis 1; logFC, log2-fold change; “—,” transcripts of the gene were not present in the corresponding GEO series. values that achieved Bonferroni-corrected significance (0.05/n, n ≤ 69, Bonferroni corrected for the number of genes that appears in each GEO data set) were in bold. Genes expressed differentially in both epilepsy and depression GEO data sets after Bonferroni correction (0.05/n, n ≤ 69) were in bold.