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Table 2 Pairwise and triplet SNP combinations with odds ratios greater than 3

From: Combinations of newly confirmed Glioma-Associated loci link regions on chromosomes 1 and 9 to increased disease risk

SNP Combinations

+RISK ALLELE

Freq

OReq2

p-value

*rs1412829 (1.58)

#rs7530361 (1.89)

11

5.45E-02

3.31

3.58E-07

*rs1412829 (1.58)

#rs501700 (1.90)

11

5.51E-02

3.09

1.95E-06

*rs1412829 (1.58)

#rs506044 (1.96)

11

5.47E-02

3.23

5.15E-07

*rs1412829 (1.58)

#rs640030 (1.95)

11

5.42E-02

3.28

4.30E-07

*rs1412829 (1.58)

#rs687513 (1.93)

11

5.52E-02

3.18

7.32E-07

*rs2157719 (1.49)

#rs7530361 (1.89)

11

5.51E-02

3.2

6.83E-07

*rs2157719 (1.49)

#rs506044 (1.96)

11

5.54E-02

3.12

9.64E-07

*rs2157719 (1.49)

#rs640030 (1.95)

11

5.49E-02

3.16

8.12E-07

*rs2157719 (1.49)

#rs687513 (1.93)

11

5.59E-02

3.07

1.35E-06

*rs1063192 (1.42)

#rs7530361 (1.89)

11

5.60E-02

3.12

1.13E-06

*rs1063192 (1.42)

#rs506044 (1.96)

11

5.63E-02

3.05

1.60E-06

*rs1063192 (1.42)

#rs640030 (1.95)

11

5.59E-02

3.08

1.35E-06

*rs4977756 (1.60)

#rs7530361 (1.89)

11

5.35E-02

4.28

3.14E-10

*rs4977756 (1.60)

#rs501700 (1.90)

11

5.44E-02

4.17

5.57E-10

*rs4977756 (1.60)

#rs506044 (1.96)

11

5.36E-02

4.18

4.46E-10

*rs4977756 (1.60)

#rs640030 (1.95)

11

5.31E-02

4.24

3.66E-10

*rs4977756 (1.60)

#rs687513 (1.93)

11

5.41E-02

4.1

6.86E-10

rs2736100 (0.63)

#rs7530361 (1.89)

rs1920116 (0.68)

212

5.01E-02

4.3

5.02E-10

rs11823971 (1.45)

*rs1412829 (1.58)

#rs7530361 (1.89)

211

5.21E-02

3.04

5.05E-06

rs11823971 (1.45)

*rs1412829 (1.58)

#rs506044 (1.96)

211

5.26E-02

3.01

4.67E-06

  1. Numbers in parenthesis are single SNP odds ratios. Last column is the Wald test p-value for the odds ratio of the combination. This is an unadjusted p-value, with an 0.05 multiple testing adjusted threshold of p = .05/(50+88) = 3.6 × 10-4. Freq denotes the combined frequency of the given combination in the case and control populations as a whole.
  2. + Denotes alleles in which significant shifts occur. 11 denotes significant shift in the minor alleles for both SNPs. 212 denotes significant shifts in major, minor major; 211, significant shifts in major, minor, minor.
  3. # denotes SNP on chromosome 1
  4. * denotes SNP on chromosome 9 in gene CDKN2A/2B.