Table 2.
Top 25 SNP association results for remission phenotype. SNPs with cluster plots that do not have distinct genotypic groups in the raw data are indicated by an * near the SNP ID.
| SNP ID | rank | P value | MAF of Non-responders | MAF of Remitters | OR | L95 | U95 | CHR | Position | ancestral allele | type | closest gene | distance to gene |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs6966038 | 1 | 3.63E-07 | 0.20 | 0.25 | 1.68 | 1.37 | 2.04 | 7 | 156573159 | A | INTERGENIC | UBE3C | −51266 |
| rs6127921 | 2 | 1.07E-06 | 0.19 | 0.13 | 0.57 | 0.46 | 0.72 | 20 | 55072157 | A | INTERGENIC | BMP7 | 106805 |
| rs2830840 | 3 | 5.48E-06 | 0.46 | 0.36 | 0.68 | 0.58 | 0.81 | 21 | 27587218 | G | INTERGENIC | EIF4A1P | 73986 |
| rs7239368 | 4 | 9.05E-06 | 0.42 | 0.36 | 0.69 | 0.59 | 0.82 | 18 | 29899377 | G | INTRONIC | NOL4 | 0 |
| rs4472078 | 5 | 1.44E-05 | 0.46 | 0.36 | 0.71 | 0.61 | 0.83 | 3 | 122960324 | C | INTERGENIC | GOLGB1 | −9032 |
| rs6126982 | 6 | 2.98E-05 | 0.51 | 0.44 | 0.72 | 0.62 | 0.84 | 20 | 51889852 | G | INTERGENIC | SUMO1P1 | 34596 |
| rs6817919 | 7 | 3.30E-05 | 0.06 | 0.09 | 1.96 | 1.43 | 2.69 | 4 | 3552449 | T | INTRONIC | FLJ35424 | 0 |
| rs8192100 | 8 | 3.60E-05 | 0.15 | 0.11 | 0.61 | 0.49 | 0.77 | 4 | 140836433 | A | INTRONIC | MGST2 | 0 |
| rs4654712 | 9 | 3.87E-05 | 0.38 | 0.46 | 1.39 | 1.19 | 1.63 | 1 | 227261716 | A | INTERGENIC | ||
| rs11617613 | 10 | 4.17E-05 | 0.22 | 0.17 | 0.67 | 0.55 | 0.81 | 13 | 30113875 | G | INTRONIC | USPL1 | 0 |
| rs9864907 | 11 | 4.34E-05 | 0.33 | 0.25 | 0.69 | 0.58 | 0.82 | 3 | 122853753 | C | INTRONIC | HCLS1 | 0 |
| rs11701162 | 12 | 5.00E-05 | 0.24 | 0.30 | 1.43 | 1.20 | 1.71 | 21 | 42899212 | C | INTERGENIC | SLC37A1 | 24593 |
| rs1858385 | 13 | 5.13E-05 | 0.17 | 0.13 | 0.63 | 0.51 | 0.79 | 3 | 62634698 | N/A | INTRONIC | CADPS | 0 |
| rs6046805 | 14 | 5.35E-05 | 0.38 | 0.46 | 1.40 | 1.19 | 1.64 | 20 | 20272341 | G | INTRONIC | C20orf26 | 0 |
| rs2914161 | 15 | 5.44E-05 | 0.42 | 0.50 | 1.40 | 1.19 | 1.65 | 5 | 113051338 | C | INTERGENIC | YTHDC2 | 92460 |
| rs4146387 | 16 | 5.75E-05 | 0.05 | 0.02 | 0.41 | 0.26 | 0.63 | 11 | 13263224 | G | INTRONIC | ARNTL | 0 |
| Rs439783 | 17 | 5.87E-05 | 0.41 | 0.46 | 1.39 | 1.18 | 1.62 | 17 | 28701273 | C | INTRONIC | ACCN1 | 0 |
| rs2989579 | 18 | 6.04E-05 | 0.26 | 0.21 | 0.69 | 0.57 | 0.82 | 9 | 80175562 | C | INTERGENIC | PSAT1;C8orf62 | 40735 |
| rs11128623 | 19 | 6.14E-05 | 0.08 | 0.04 | 0.47 | 0.33 | 0.68 | 3 | 12914829 | T | 3PRIME_UTR | IQSEC1 | 0 |
| rs10512091 | 20 | 6.39E-05 | 0.17 | 0.23 | 1.51 | 1.23 | 1.84 | 9 | 81612652 | G | INTERGENIC | TLE4 | −81427 |
| rs1468864 | 21 | 6.63E-05 | 0.01 | 0.02 | 3.86 | 1.99 | 7.49 | 7 | 104078689 | A | INTRONIC | LHFPL3 | 0 |
| rs2744692 | 22 | 7.11E-05 | 0.25 | 0.21 | 0.69 | 0.57 | 0.83 | 1 | 13997814 | C | INTRONIC | PRDM2 | 0 |
| rs5999086 | 23 | 7.19E-05 | 0.24 | 0.17 | 0.66 | 0.54 | 0.81 | 22 | 32476368 | G | INTRONIC | LARGE | 0 |
| rs4257844 | 24 | 7.42E-05 | 0.16 | 0.20 | 1.57 | 1.25 | 1.95 | 6 | 67692405 | T | INTERGENIC | ||
| rs809736 | 25 | 7.64E-05 | 0.17 | 0.24 | 1.47 | 1.22 | 1.79 | 15 | 59117080 | A | INTRONIC | RORA | 0 |
Abbreviations: SNP ID: dbSNP128 rs identification number; MAF: minor allele frequency; OR: odds ratio; U95 and L95: upper and lower 95% confidence intervals for the OR; chr: chromosome; position: hg18 build coordinate on human genome. Regions without annotated genes within 200kb are left blank.