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Table 1 Characteristics of the selected SNPs

From: Impact of obesity-related genes in Spanish population

Locus

GENE name

HGN

SNP

TAG-SNP

CHR position

HGVS names

HORTEGA GEN%

PIZARRA GEN%

HORTEGA MAF

PIZARRA MAF

HWE p-value (All/controls)

1p31.1

NEURONAL GROWTH REGULATOR 1

NEGR1

rs3101336

 

72523773

NT_032977.8:g.42723104C > T

96.80

100

0.237

0.252

0.472/0.663

rs2568958

 

72537704

NT_032977.8:g.42737035A > G

98.86

100

0.115

0.095

0.858/0.303

rs2815752

 

72585028

NT_032977.8:g.42784359A > G

98.93

100

0.355

0.349

0.929/0.304

1q25.2

SEC16 HOMOLOG B (S. CEREVISIAE)

SEC16B

rs10913469

 

176180142

NM_033127.2:c.1881 + 177A > G

97.80

100

0.154

0.143

0.293/1

2q14.1

INSULIN INDUCED GENE 2

INSIG2

rs7566605

 

118552495

NT_022135.15:g.7543947C > G

98.20

99.77

0.454

0.439

0.706/0.643

2p25.3

TRANSMEMBRANE PROTEIN 18

TMEM18

rs2867125

 

612827

NT_022327.14:g.612827T > C

97.47

100

0.351

0.397

0.078/0.186

rs6548238

 

624905

NT_022327.14:g.624905T > C

98.93

99.88

0.449

0.419

0.043/0.141

rs4854344

 

628144

NT_022327.14:g.628144G > T

98.73

99.88

0.380

0.387

0.0521/0.164

3q27

ADIPONECTIN, C1Q AND COLLAGEN DOMAIN

ADIPOQ

rs17300539

 

188042154

NT_005612.15:g.93054610G > A

98.53

99.54

0.433

0.403

0.032/0.342

rs3774261

1

188054253

NM_004797.2:c.215-414A > G

98.20

99.54

0.496

0.484

0.967/0.726

3q28

ETS VARIANT 5

ETV5

rs7647305

 

187316984

 

95

98.85

0.118

0.125

0.902/0.655

4p13

GLUCOSAMINE-6-PHOSPHATE DEAMINASE 2

GNPDA2

rs10938397

 

44877284

NT_006238.10:g.4884493A > G

97.80

100

0.195

0.198

0.382/0.340

5q31-q32

ADRENERGIC, BETA-2-, RECEPTOR, SURFACE

ADRB2

rs12654778

1

148185934

NT_029289.10:g.9368677G > A

98.13

100

0.363

0.330

0.207/0.318

6p22.2-p21.3

PROLACTIN

PRL

rs4712652

 

22186594

NT_007592.14:g.12936866G > A

97.07

97.58

0.346

0.375

0.804/0.516

10p12

PHOSPHOTRIESTERASE RELATED

PTER

rs10508503

 

16339957

NT_077569.2:g.10662847C > T

96.27

99.19

0.346

0.375

0.006/0.015

11p13

BRAIN-DERIVED NEUROTROPHIC FACTOR

BDNF

rs4923461

 

27613486

NR_002832.1:c.244-4482G > A

98.33

99.88

0.169

0.172

0.955/0.637

rs925946

 

27623778

NR_002832.1:c.404 + 5650G > T

98.47

100

0.347

0.375

0.0001/0.003

rs10501087

 

27626684

NR_002832.1:c.404 + 8556G > T

98.00

99.65

0.424

0.384

0.779/0.634

rs6265

 

27636492

NM_001709.3:c.196G > A (p.V66M)

98.13

100

0.461

0.489

0.373/0.426

11p14.1

BDNF OPPOSITE STRAND (NON-PROTEIN CODING)

BDNFOS

rs4074134

 

27603861

NR_002832.1:c.244-14107G > C

98.86

99.54

0.185

0.160

0.956/0.841

11p11.2

MITOCHONDRIAL CARRIER HOMOLOG 2

MTCH2

rs4752856

1

47604618

NM_014342.2:c.681 + 590C > T

98.40

99.77

0.240

0.261

0.928/0.699

rs10838738

 

47619625

NM_014342.2:c.87 + 882T > C

97.87

99.65

0.489

0.455

1/0.545

12q13

FAS APOPTOTIC INHIBITORY MOLECULE 2

FAIM2

rs7138803

 

48533735

NT_029419.11:g.12390774G > A

98.66

99.42

0.354

0.344

0.391/0.111

16p11

ATAXIN 2-LIKE

ATXN2L

rs8049439

 

28745016

NM_007245.2:c.466-46T > C

96.53

100

0.327

0.356

0.619/0.512

16q12.2

FAT MASS AND OBESITY ASSOCIATED

FTO

rs6499640

 

52327178

NM_001080432.1:c.45 + 31536A > G

98.07

99.88

0.173

0.173

0.694/0.488

rs1421085

1

52358455

NM_001080432.1:c.46-43098T > C

97.87

100

0.237

0.261

1/0.719

rs1121980

1

52366748

NM_001080432.1:c.46-34805G > A

98.93

100

0.073

0.092

0.617/0.389

rs8050136

1

52373776

NM_001080432.1:c.46-27777C > A

98.86

99.19

0.220

0.228

0.420/0.470

rs3751812

 

52375961

NM_001080432.1:c.46-25592G > T

98.80

100

0.381

0.376

0.471/0.471

rs9939609

1

52378028

NM_001080432.1:c.46-23525T > A

98.33

99.88

0.174

0.170

0.966/0.876

rs7190492

 

52386253

NM_001080432.1:c.46-15300G > A

98.73

99.65

0.351

0.351

0.782/0.438

rs8044769

 

52396636

NM_001080432.1:c.46-4917C > T

97.33

100

0.339

0.329

0.967/0.880

16q22-q23

V-MAF MUSCULOAPONEUROTIC FIBROSARCOMA

MAF

rs1424233

 

78240252

 

99.13

99.77

0.321

0.321

0.805/0.52

16p11.2

SH2B ADAPTOR PROTEIN 1

SH2B1

rs4788102

 

28780899

NT_010393.15:g.20186477G > A

98.27

99.77

0.224

0.204

0.890/0.466

18q22

MELANOCORTIN 4 RECEPTOR

MC4R

rs17782313

 

56002077

NT_025028.13:g.5641943T > C

98.66

100

0.455

0.464

0.215/0.382

18q11-q12

NIEMANN-PICK DISEASE, TYPE C1

NPC1

rs1805081

 

19394430

NM_000271.3:c.644A > G (p.H215R)

98.93

99.65

0.343

0.376

0.012/0.017

19q13.11

POTASSIUM CHANNEL TETRAMERISATION

KCTD15

rs11084753

 

39013977

NT_011109.15:g.6590355A > G

97.93

99.65

0.428

0.390

0.184/0.336

20q11.23-q12

CATENIN, BETA LIKE 1

CTNNBL1

rs6013029

 

35832994

NM_030877.3:c.750 + 3134G > T

98.27

99.88

0.267

0.283

0.574/0.482

Xq24

5-HYDROXYTRYPTAMINE RECEPTOR 2C

HTR2C

rs3813929

 

113724776

NT_028405.11:g.250852C > T

98.47

99.88

0.434

0.399

0.168/0.292

  1. HGN: Human genome nomenclature; SNP: single nucleotide polymorphism; CHR position: chromosomal position; HGVS: human genome variation society; Gen%: genotyping call rate; MAF: minor allele frequency.