Table 1.
Loci identified from cFDR analysis.
| rsID | Position | Alleles | Beta (CPG) | P (CPG) | OR (MDD) | P (MDD) | cFDR (CPG) | cFDR (MDD) | ccFDR |
|---|---|---|---|---|---|---|---|---|---|
| rs4904790 | 14:42242623 | C/T | −0.03 | 1.44E-03 | 1.042 | 1.37E-05 | 0.02 | 3.58E-03 | 0.02 |
| rs1584317 | 14:42213816 | C/G | 0.028 | 4.48E-03 | 0.96 | 4.59E-06 | 0.029 | 3.57E-03 | 0.03 |
| rs11846556 | 14:42183025 | A/G | −0.037 | 1.11E-04 | 1.05 | 2.98E-07 | 5.57E-04 | 3.76E-05 | 5.57E-04 |
| rs10131184 | 14:42166111 | A/G | 0.035 | 2.82E-04 | 0.95 | 2.53E-08 | 8.46E-04 | 7.10E-06 | 8.46E-04 |
| rs8015100 | 14:42095232 | A/T | −0.033 | 6.67E-04 | 1.06 | 1.50E-09 | 6.67E-04 | 9.27E-07 | 6.67E-04 |
| rs11157241 | 14:42051771 | C/T | 0.035 | 2.91E-04 | 0.94 | 4.44E-09 | 5.83E-04 | 1.28E-06 | 5.83E-04 |
| rs10138559 | 14:41975989 | C/T | −0.02 | 0.03 | 1.042 | 1.04E-06 | 0.1 | 5.25E-03 | 0.1 |
| rs10872954 | 14:41948768 | A/G | −0.026 | 6.45E-03 | 1.04 | 7.68E-06 | 0.053 | 7.02E-03 | 0.053 |
| rs149981001 | 12:60264802 | C/T | 0.2 | 6.24E-08 | 1.087 | 0.0181 | 1.06E-03 | 0.018 | 0.018 |
| rs147573737 | 12:60231575 | C/T | −0.2 | 2.09E-07 | 0.917 | 0.023 | 2.21E-03 | 0.023 | 0.023 |
| rs35641559 | 1:73760104 | C/T | 0.02 | 0.03 | 0.961 | 2.08E-06 | 0.1 | 8.83E-03 | 0.11 |
Alleles are given as effect allele/other; effect allele is defined as the allele for which association with the trait was tested in the original (CPG or MDD) GWAS. rsIDs for SNPs associated with both MDD and CPG (pleiotropic SNPs) (ccFDR < 0.01) are shown in bold
Position position given as chromosome:base pair location, cFDR (CPG) cFDR for CPG conditioning on MDD, Beta (CPG)/p (CPG) effect size and p-value from the CPG GWAS, cFDR (MDD) cFDR for MDD conditioning on CPG, OR (MDD)/p (MDD) effect size (odds ratio for the effect allele) and p-value from the MDD GWAS