Table 1.
Genetic association between MDD and 12 variants in CONVERGE and a replication sample
| SNP | CONVERGE (N=10,640) | Replication (N=6,417) | Joint (N=17,057) | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CHR | POS | RSID | REF | ALT | FREQ | INFO | OR | SE | P | OR | SE | P | OR | SE | P |
| 1 | 11493832 | rs2922240 | T | C | 0.385 | 1.018 | 1.141 | 0.028 | 2.80E-06 | 0.949 | 0.037 | 1.54E-01 | 1.070 | 0.022 | 2.46E-03 |
| 1 | 175151950 | rs3766688 | T | C | 0.394 | 1.003 | 0.875 | 0.028 | 1.83E-06 | 0.991 | 0.037 | 8.15E-01 | 0.918 | 0.022 | 1.34E-04 |
| 1 | 228052027 | rs57047840 | A | G | 0.284 | 0.970 | 1.138 | 0.031 | 4.64E-05 | 1.001 | 0.041 | 9.90E-01 | 1.088 | 0.025 | 5.57E-04 |
| 5 | 9161674 | rs55713588 | A | G | 0.096 | 0.893 | 1.278 | 0.050 | 6.04E-07 | 1.054 | 0.062 | 3.93E-01 | 1.042 | 0.035 | 2.08E-01 |
| 6 | 4386107 | rs55800092 | C | T | 0.151 | 1.001 | 0.824 | 0.039 | 1.35E-06 | 0.962 | 0.052 | 4.49E-01 | 0.876 | 0.031 | 1.82E-05 |
| 10 | 69624180 | rs12415800 | G | A | 0.452 | 0.992 | 1.164 | 0.028 | 1.92E-08 | 1.130 | 0.036 | 7.71E-04 | 1.150 | 0.022 | 2.37E-10 |
| 10 | 126244970 | rs35936514 | C | T | 0.260 | 0.993 | 0.839 | 0.032 | 1.27E-08 | 0.838 | 0.041 | 1.68E-05 | 0.842 | 0.025 | 6.43E-12 |
| 13 | 107659212 | rs61967003 | C | T | 0.017 | 0.999 | 1.645 | 0.109 | 6.70E-06 | 0.788 | 0.150 | 1.11E-01 | 1.277 | 0.087 | 4.81E-03 |
| 14 | 66833851 | rs17827252 | C | G | 0.463 | 1.011 | 0.887 | 0.028 | 1.44E-05 | 0.962 | 0.041 | 3.41E-01 | 0.907 | 0.023 | 2.20E-05 |
| 19 | 34493757 | rs11880240 | C | G | 0.068 | 1.019 | 1.291 | 0.055 | 8.02E-06 | 1.048 | 0.072 | 5.12E-01 | 1.184 | 0.043 | 9.15E-05 |
| X | 24656658 | rs1921918 | A | G | 0.721 | 0.995 | 0.883 | 0.031 | 3.22E-05 | 0.994 | 0.047 | 9.01E-01 | 0.917 | 0.026 | 1.09E-03 |
| X | 25011374 | rs11573525 | C | T | 0.260 | 0.971 | 1.160 | 0.032 | 5.86E-06 | 1.011 | 0.047 | 8.19E-01 | 1.100 | 0.027 | 2.18E-04 |
The table reports results for 12 SNPs in the CONVERGE and replication samples. The first five columns give the chromosome (CHR), genomic position (POS), SNP identifier (RSID), reference allele (REF) on Human Genome Reference GRCh37.p5 and alternative allele (ALT) called in CONVERGE. The next five columns show the alternative allele frequency (FREQ) and results of association testing with MDD using imputed allele dosages in 10,640 CONVERGE samples (5,303 cases, 5,337 controls); information scores (INFO), odds ratio (OR) of association with MDD with respect to the alternative allele and standard error (SE) in the odds ratio were obtained from a logistic regression model; P values of association (P) obtained from a linear-mixed model with a genetic relatedness matrix containing all samples. The next three columns present results of association with MDD in the replication cohort of 6,417 samples (3,231 cases, 3,186 controls) from a logistic regression model. The final three columns present results of association with MDD in a joint analysis with both CONVERGE and replication cohort from a logistic regression model. Bold type indicates the genome wide significant markers.