Table 2 Statistically significant GEE association between 36 SNPs in the 26-related vitamin B12 genes and B12 basal levelsa.

From: Contribution of genetic ancestry and polygenic risk score in meeting vitamin B12 needs in healthy Brazilian children and adolescents

SNPref

Major

Minor

MAF

Chr

Position (bp)

Gene symbol

GEE Association between SNP and vitamin B12 levels

βAssoc

padj

rs2182598

A

T

0.0119

1

109,766,687

SARS

0.39

1.0E−02

rs12081406

A

G

0.01786

1

109,778,391

SARS

0.45

6.1E−02

rs2808631

T

C

0.02976

1

159,682,036

CRP

− 0.62

4.0E−03

rs10925263

A

G

0.1131

1

237,063,748

MTR

0.31

5.5E−02

rs138583897

T

G

0.0119

2

170,061,860

LRP2

0.91

7.1E−03

rs74791051

A

G

0.01786

2

170,085,774

LRP2

− 0.44

2.2E−03

rs144147038

C

T

0.0119

2

170,145,661

LRP2

− 0.49

1.9E−02

rs1800249

C

A

0.04762

3

133,464,794

TF

0.42

4.7E−02

rs7633232

G

C

0.02083

3

133,475,614

TF

0.52

6.1E−02

rs78536844

G

A

0.01488

3

158,388,161

LXN

0.79

9.0E−02

rs1220841

G

A

0.03869

4

70,795,699

CSN1S1

0.49

5.4E−03

rs1529038

A

G

0.1637

4

70,795,920

CSN1S1

− 0.33

1.5E−02

rs10489132

A

G

0.03571

4

99,950,417

METAP1

− 0.41

5.5E−02

rs1304811491

A

G

0.0119

5

178,768,430

ADAMTS2

0.55

5.5E−02

rs141206548

T

C

0.01488

6

70,408,871

LMBRD1

− 0.54

4.6E−02

rs116157801

G

A

0.02381

9

130,569,812

FPGS

0.40

8.2E−02

rs144213212

A

G

0.05357

9

131,118,554

SLC27A4

0.30

9.1E−02

rs117412228

G

A

0.02083

10

17,046,009

CUBN

0.51

3.5E−02

rs11254386

G

C

0.0119

10

17,171,907

CUBN

0.27

8.9E−03

rs116286548

A

G

0.0119

11

59,630,345

TCN1

− 0.77

4.7E−02

rs28989521

A

G

0.04167

12

6,898,084

CD4

− 0.44

4.0E−02

rs72648013

G

A

0.02381

12

110,025,617

MVK

0.45

5.4E−03

rs41288280

G

A

0.0119

13

25,272,833

ATP12A

− 0.91

1.3E−03

rs721922

A

G

0.1339

13

100,462,812

CLYBL

− 0.30

3.8E−02

rs148126159

G

A

0.01488

14

74,752,605

ABCD4

0.71

4.2E−06

rs79752143

G

A

0.02679

16

23,606,959

NDUFAB1

0.55

9.8E−04

rs147671744

G

A

0.02083

17

17,460,540

PEMT

− 0.46

6.1E−02

rs8083543

C

T

0.02083

18

74,726,712

MBP

0.43

6.1E−02

rs116910911

G

A

0.02083

18

74,768,653

MBP

0.46

4.7E−02

rs75243301

A

G

0.0119

19

5,841,156

FUT6

− 0.32

4.4E−02

rs6090388

G

A

381

20

61,336,359

NTSR1

0.20

7.3E−02

rs34864360

C

T

0.01488

20

61,386,225

NTSR1

0.37

1.1E−02

rs45613333

G

A

0.0119

20

61,391,514

NTSR1

− 0.67

4.3E−04

rs111386779

C

T

0.02083

21

44,473,450

CBS

0.44

1.4E−02

rs150181241

C

T

0.01488

21

44,483,279

CBS

− 0.47

6.1E−02

brz:22:31023366:AG

A

G

0.0119

22

31,023,366

TCN2

− 1.02

2.9E−04

  1. aThe SNPs were filtered using GEE (generalized estimated equation) association test with padj significance < 0.1. The covariates were sex, BMI, age, total HEI and mean ancestry genetic ancestry. The data includes the names of SNPs and their respective coordinates, with brz prefix indicating the SNPs extracted from exome. MAF: Minor Allele Frequency; Chr: Chromosome. The alleles here are those that are defined by Illumina genotyping or exome data and the alleles noted for some SNPs differ from dbSNP. These divergences occur because the annotation in the dbSNP can be for the complementary base and vice versa for the Illumina chip.
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