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Table 3 p-values for Evaluated SNPs Showing Association (p < 0.01) with NTDs

From: Evaluation of common genetic variants in 82 candidate genes as risk factors for neural tube defects

Gene/SNP

TDT

LL CC Rec

LL CC Dom

LR CC Cont

LR CC Rec

LR CC Dom

LL Mat 2DOF

LL Mat Rec

LL Mat Dom

LR MC Cont

LR MC Rec

LR MC Dom

*MFTC rs17803441

0.0300

0.1456

0.0098

0.0003

0.0013

0.0146

0.4634

0.6352

0.2195

0.1928

0.2373

0.3535

CDKN2A rs3218009

0.1284

0.9996

0.1786

0.0426

0.9775

0.1009

.**

0.2734

0.0004

0.3032

0.5724

0.3296

*ADA rs2299686

0.8288

0.7819

0.5289

0.2994

0.3991

0.3958

0.2165

0.1923

0.1183

0.0010

0.0479

0.0005

*PEMT rs4646402

0.0009

0.1861

0.0005

0.1374

0.3728

0.1348

0.7219

0.5709

0.7630

0.7482

0.5319

0.9693

*MFTC rs3134260

0.0225

0.1301

0.0059

0.0006

0.0021

0.0141

0.4213

0.4460

0.2195

0.2102

0.2594

0.3484

*PEMT rs1108579

0.0006

0.0463

0.0014

0.0462

0.0482

0.1846

0.7076

0.4098

0.8059

0.9490

0.9274

0.9873

*PEMT rs11656215

0.0053

0.0008

0.3818

0.2070

0.1461

0.5412

0.7689

0.5639

0.8703

0.8211

0.3273

0.5520

*CUBN rs7070148

0.4864

0.4012

0.6033

0.0909

0.8065

0.0746

0.4458

0.4235

0.2551

0.0010

0.1735

0.0013

*ADA rs406383

0.0590

0.0311

0.3102

0.8420

0.7244

0.6858

0.1205

0.4468

0.0398

0.0012

0.0021

0.0136

*GART rs2070388

0.0012

0.5668

0.0012

0.0724

0.1415

0.1209

0.4526

0.2734

0.4332

0.5831

0.1515

0.8478

*ADA rs6031682

0.5166

0.6123

0.6101

0.0052

0.9578

0.0016

0.8837

0.8085

0.6321

0.0048

0.8196

0.0019

*ADA rs427483

0.6597

0.8842

0.3286

0.2509

0.1948

0.7039

0.4568

0.3370

0.2699

0.0018

0.0137

0.0063

DNMT3A rs7560488

0.1538

0.0021

0.6359

0.8325

0.8348

0.8823

0.5544

0.3633

0.3848

0.7779

0.9764

0.6509

*CUBN rs2273737

0.5067

0.7062

0.5487

0.0780

0.3584

0.0936

0.4034

0.4843

0.1971

0.0021

0.2034

0.0026

MTHFD1 rs2236225

0.1505

0.9554

0.0257

0.2570

0.3372

0.3869

0.8915

0.6549

1.0000

0.0139

0.2593

0.0022

*T rs10806845

0.2894

0.3889

0.4518

0.0830

0.0370

0.4302

0.2438

0.1204

0.2378

0.0033

0.0023

0.0701

FOLH1 rs383028

0.2073

0.4975

0.2542

0.0050

0.3617

0.0051

0.1033

1.0000

0.0359

0.0054

0.9171

0.0024

*CUBN rs1801222

1.0000

0.5013

0.4017

0.1514

0.7600

0.0181

0.2822

0.1682

0.2448

0.0091

0.1439

0.0024

*ADA rs6094017

0.2199

0.6211

0.2009

0.3960

0.8060

0.3126

0.7449

0.5105

0.5466

0.0026

0.0479

0.0046

*ARID1A rs11247593

0.0154

0.0502

0.0747

0.0027

0.0090

0.0265

0.1455

0.4060

0.1491

0.0615

0.0458

0.5659

COMT rs174675

0.0795

0.7444

0.0028

0.8722

0.5266

0.4898

0.9321

0.7778

0.7457

0.3665

0.2494

0.9574

*ENOSF1 rs1059384

0.6886

0.3493

0.9141

0.0333

0.0028

0.2734

0.9279

0.8084

0.8226

0.0848

0.0063

0.4655

*GART rs4817580

0.0029

0.9996

0.0042

0.0849

0.9745

0.1174

.

0.9996

0.9223

0.4818

0.9747

0.6024

*DNMT3B rs6058896

0.0029

0.0052

.

0.0167

0.0244

0.9744

.

0.2022

.

0.0905

0.1265

0.9744

MTHFD1L rs12199063

0.2857

0.3198

0.5830

0.1248

0.3647

0.0575

0.0855

0.0437

0.7457

0.0035

0.0029

0.1898

MTHFD1L rs6923486

0.1738

0.3458

0.1249

0.1348

0.1283

0.5396

0.2973

0.2651

0.1785

0.0030

0.0090

0.0348

COMT rs737865

0.0112

0.0149

0.1106

0.5284

0.3462

0.2354

0.1983

0.1326

0.1587

0.0852

0.0031

0.5815

*MTR rs10925260

0.0290

0.0031

0.9246

0.6329

0.4355

0.8813

0.4513

0.7071

0.2073

0.1865

0.2408

0.3423

*ADA rs452159

0.0577

0.5282

0.0047

0.7260

0.9583

0.4298

0.1675

0.0627

0.3633

0.0059

0.0578

0.0032

TFAP2A rs17635655

0.8108

0.6367

0.7196

0.0116

0.0236

0.0813

0.1688

0.0876

0.8527

0.0037

0.0075

0.0645

CUBN rs11591606

0.1808

0.2426

0.4253

0.4459

0.6193

0.2639

0.8403

0.6321

0.6380

0.3280

0.9827

0.0058

MTHFD1L rs2295083

0.6044

0.2928

0.2330

0.0168

0.0038

0.7292

0.2734

0.1752

0.5943

0.0558

0.0342

0.7136

*PEMT rs16961845

0.5691

0.4101

0.2719

0.4982

0.4864

0.9363

.

0.0082

.

0.0072

0.0048

0.9255

*ALDH1A2 rs7169289

0.1063

0.6803

0.0967

0.0214

0.5178

0.0043

0.4346

0.2067

0.6266

0.0633

0.6737

0.0513

*MTR rs10733117

0.0099

0.4520

0.0043

0.6020

0.7559

0.6099

0.2998

0.1791

0.2388

0.1436

0.3788

0.1542

MTHFD1L rs17080476

0.0233

0.9996

0.0949

0.0070

0.0244

0.0320

.

0.5299

0.9136

0.1357

0.0994

0.2676

MAT2B rs17535909

0.0102

0.0045

0.5083

0.2745

0.1949

0.7860

0.2061

0.3321

0.2406

0.8030

0.6685

0.8863

GNMT rs9462856

0.0601

0.9187

0.0048

0.7463

0.7773

0.3914

0.8419

0.5788

1.0000

0.6497

0.8424

0.5744

*CTH rs12733999

0.1546

0.1603

0.7406

0.0051

0.0048

0.6384

.

0.1477

0.3414

0.0167

0.0285

0.1264

CDKN2A rs7041637

0.4033

0.0881

0.3011

0.0048

0.0067

0.1269

0.3323

0.2793

0.1978

0.1369

0.3445

0.0716

*RAI1 rs9914733

0.2215

0.1984

0.4266

0.8834

0.4610

0.6300

0.0980

0.6952

0.0320

0.0133

0.8111

0.0049

*FTCD rs2839127

0.2296

0.0301

0.7043

0.8551

0.2725

0.8462

0.0195

0.2266

0.0053

0.1576

0.0483

0.3997

PDGFRA rs9993187

0.3615

0.0802

0.7374

0.0639

0.1576

0.0123

0.4850

0.4235

0.2999

0.0083

0.8603

0.0054

MTHFD1L rs4869987

0.1603

0.6351

0.0458

0.1693

0.2368

0.2939

0.0284

0.3579

0.0511

0.0167

0.1767

0.0061

*ARID1A rs11247594

0.0376

0.0989

0.1141

0.0059

0.0159

0.0438

0.2152

0.2972

0.3060

0.0758

0.0601

0.5558

*ARID1A rs11247596

0.0059

0.1178

0.0151

0.0570

0.2900

0.0682

0.6110

0.3713

0.8781

0.5223

0.0978

0.9777

FOLH1 rs16906205

0.2509

0.5003

0.3078

0.0993

0.9856

0.0730

.

0.9996

0.0060

0.0160

0.9856

0.0102

*FTCD rs7280485

0.5455

1.0000

0.2928

0.9719

0.9612

1.0000

0.0402

0.2205

0.0796

0.1847

0.9315

0.0062

ENOSF1 rs10502289

0.4050

0.0606

0.9176

0.2608

0.0084

0.8743

0.9012

0.6553

0.8231

0.7398

0.4196

0.9254

*MFTC rs10112450

0.0065

0.0154

0.1380

0.1077

0.0765

0.7454

0.4967

0.2680

0.4937

0.5459

0.7307

0.3836

*MFTC rs1865855

0.0339

0.2226

0.0596

0.0066

0.2347

0.0091

0.4858

0.3270

0.3615

0.3489

0.3248

0.2103

MTHFD1 rs11627525

0.7010

0.9468

.

0.7285

0.5723

0.9802

.

0.0067

1.0000

0.5750

0.9194

0.1216

GGH rs11988534

0.0409

0.0067

0.6955

0.2427

0.1156

0.8060

0.6044

0.6257

0.4665

0.9112

0.8775

0.5796

MTHFR rs17037425

1.0000

0.8419

0.6233

0.4158

0.2803

0.6769

0.0149

0.0068

0.7817

0.1828

0.0796

0.4756

MTHFD1L rs487637

0.1946

0.4121

0.0364

0.0162

0.5831

0.0069

0.8861

0.7152

0.8488

0.2125

0.5912

0.2003

DMGDH rs663646

0.2749

0.0070

0.8907

0.7786

0.1838

0.7429

0.8537

0.5782

0.9263

0.5080

0.1877

0.8789

NNMT rs10400393

0.0074

0.1090

0.0203

0.8395

0.6189

0.9926

0.9369

0.7317

1.0000

0.5062

0.4840

0.6355

*CUBN rs11254375

0.3772

0.5709

0.4612

0.6008

0.1449

0.7839

0.0331

0.6321

0.0097

0.0274

0.0074

0.2404

MTHFD1L rs11155772

0.1876

0.1492

0.8084

0.5140

0.8021

0.2358

0.2306

0.0932

1.0000

0.0126

0.0075

0.5404

ALDH1A2 rs6493978

0.5450

0.0984

0.5323

0.1136

0.6939

0.0308

0.9785

0.9093

0.8399

0.0333

0.4523

0.0076

RAI1 rs11658846

0.2504

1.0000

0.2329

0.1382

0.6534

0.1409

0.3954

0.9994

0.1351

0.0104

0.6431

0.0088

LRP2 rs3914468

0.8840

0.1061

0.1878

0.2044

0.0181

0.7696

0.1386

0.7577

0.0734

0.2555

0.0080

0.9562

PDGFRA rs2114039

0.0081

0.1297

0.0185

0.9479

1.0000

0.9317

0.7483

0.4513

0.9146

0.5652

0.7360

0.5786

MTHFR rs17367504

0.7868

0.3302

0.9193

0.7251

0.6814

0.5857

0.0174

0.7817

0.0081

0.2908

0.4835

0.1536

*EHMT1 rs7039441

0.4612

0.3106

0.8211

0.9611

0.8037

0.9150

0.0319

0.2588

0.0090

0.0981

0.8608

0.0282

*MFTC rs750606

0.0378

0.7460

0.0220

0.0091

0.3426

0.0090

0.2301

0.0994

0.3619

0.3230

0.3719

0.1578

MTHFD1L rs12524884

0.6841

0.7842

0.6630

0.2910

0.5126

0.1146

0.2320

0.0876

0.7633

0.0094

0.0142

0.1789

*RAI1 rs11654526

0.1373

0.0904

0.3348

0.9082

0.6677

0.7709

0.1313

0.4417

0.0450

0.0099

0.2692

0.0106

  1. * Indicates SNP was genotyped in the full cohort (570 triads, 999 controls). Otherwise SNP was genotyped in the primary sample set (320 triads, 341 controls).
  2. ** (.) = Failure to converge (no result).
  3. Note: MTHFD1 rs2236225 and all MTHFD1L SNPs in this table were previously examined for NTD association in this dataset [23, 25, 27].