Table 3

List of variants associated with high BMI by single marker tests

MAF

Chi-square

Permutation

LD block

SNV-ID

Chr 3 coordinate

Gene location

Minor/major alleles

Cohort

Cases

Controls

P-value

OR

P-value


Left

rs16830415

128956957

Intron3

C/T

0.028

0.045

0.010

9.95E-03

4.59

8.00E-03

Chr3_128957192

128957192

Intron3

G/T

0.028

0.045

0.010

9.95E-03

4.59

8.00E-03

Chr3_128958587

128958587

Intron3

C/T

0.043

0.066

0.021

6.70E-03

3.39

5.00E-03

Chr3_128958866

128958866

Intron3

-/T

0.08

0.049

0.1103

7.07E-03

0.41

7.40E-03

rs9832418

128961356

Intron3

C/T

0.028

0.045

0.010

9.95E-03

4.59

8.00E-03

rs547801a

128964929

Intron3

T/C

0.029

0.049

0.010

5.93E-03

4.96

5.00E-03

rs520154a

128965687

Intron3

A/G

0.028

0.049

0.007

2.04E-03

7.46

1.20E-03

rs60963555

128967982

Intron3

T/C

0.026

0.045

0.007

3.52E-03

6.91

1.60E-03

rs684358b

128969940

Intron3

G/T

0.028

0.049

0.007

2.04E-03

7.46

1.20E-03

rs9852837

128973744

Intron3

A/G

0.028

0.045

0.010

9.95E-03

4.59

1.16E-02

Right

rs9289319

129009856

Intron2

G/A

0.192

0.138

0.243

1.42E-03

0.50

1.80E-03

rs9289320

129010946

Intron2

G/C

0.192

0.143

0.240

3.27E-03

0.53

6.00E-03

rs9289321

129011459

Intron2

A/G

0.165

0.123

0.206

7.84E-03

0.54

9.80E-03

rs9877819c

129012220

Intron2

A/G

0.164

0.122

0.206

7.03E-03

0.54

7.40E-03

rs28753886

129013477

Intron2

A/G

0.163

0.119

0.206

4.79E-03

0.52

5.60E-03

rs35948688

129014938

Intron2

C/T

0.159

0.112

0.206

2.10E-03

0.49

2.40E-03

rs874546c

129021102

Intron2

G/A

0.183

0.140

0.226

8.99E-03

0.56

1.00E-02

rs2011138

129026619

Upstream

A/C

0.352

0.412

0.295

3.18E-03

1.68

4.40E-03

Chr3_129026621

129026621

Upstream

A/G

0.049

0.021

0.075

2.65E-03

0.27

4.00E-03

Chr3_129029015

129029015

Upstream

A/G

0.336

0.398

0.276

1.98E-03

1.74

3.60E-03


aPresent on the Affymetrix 500 k genotyping array. bAlso part of a locus-variant associated with high BMI using the collapsed marker test RareCover (Table S5 in Additional file 1). cPresent on the Illumina HumanHap300 genotyping array. LD, linkage disequilibrium.

Harismendy et al. Genome Biology 2010 11:R118   doi:10.1186/gb-2010-11-11-r118

Open Data