Table 2. Association between SNPs and coronary heart disease.
| Locus | Candidate gene(s) | SNP | Risk Allele | Frequency | Other allele | orientation in MORGAM | HR reported in ref | Ref | Coronary heart disease (1736 cases, 3082 non cases) men only | |
| Pooled HR (95% C.I.) | p value | |||||||||
| 1q41 | MIA3 | rs3008621 | A | 0.14 | G* | FT | 1/1.08 | [10] | 0.85 (0.72, 0.99) | 0.045 |
| 1p32.3 | PCSK9 | rs11206510 | C | 0.17 | T* | FB | 1/1.15 | [11] | 1.01 (0.89, 1.16) | 0.83 |
| 1p13.3 | PSRC1 | rs646776 | A | 0.78 | G | FT | 1.19 | [19] | 1.10 (0.98, 1.24) | 0.11 |
| 3q22.3 | MRAS | rs9818870 | C | 0.86 | T | FB | 1/1.15 | [20] | 0.99 (0.83, 1.19) | 0.98 |
| 2q33.1 | WDR12 | rs6725887 | C* | 0.13 | T | FB | 1.14 | [11] | 1.04 (0.9, 1.2) | 0.58 |
| 6q25.3 | SLC22A3 H∧ | rs2048327 | A | 0.66 | G | FT | [21] | 0.87 (0.79, 0.97) | 0.01 | |
| 6q25.3 | LPAL2 H∧ | rs3127599 | A | 0.32 | G | FT | [21] | 1.01 (0.91, 1.1) | 0.88 | |
| 6q25.3 | LPA H∧ | rs7767084 | C | 0.16 | T | FB | [21] | 1.11 (0.96, 1.23) | 0.15 | |
| 6q25.3 | LPA H∧ | rs10755578 | C | 0.54 | G | FT | [21] | 0.92 (0.83, 1.01) | 0.10 | |
| 6p24.1 | PHACTR1 | rs12526453 | C* | 0.68 | G | FB | 1.1 | [11] | 1.14 (1.02, 1.27) | 0.017 |
| 9p21.3 | ANRIL/CDKN2A/B | rs1333049 | C* | 0.46 | G | FB | 1.2 | [10] | 1.26 (1.14, 1.4) | 0.00001 |
| 10q11.21 | CXCL12/SDF1 | rs501120 | C | 0.15 | T* | RB | 1/1.11 | [10] | 1.09 (0.92, 1.3) | 0.30 |
| 12q24 | SH2B3 | rs3184504 | C | 0.54 | T* | FB | 1/1.07 | [11] | 1.03 (0.93, 1.14) | 0.62 |
| 12q24.31 | HNF1A/C12orf43 | rs2259816 | A* | 0.36 | G | FT | 1.08 | [20] | 0.99 (0.9, 1.11) | 0.97 |
| 19p13.2 | LDLR | rs1122608 | G* | 0.77 | T | FB | 1.14 | [11] | 0.99 (0.88, 1.12) | 0.95 |
| 21q22 | SLC5A3/MRPS6 | rs9982601 | C | 0.85 | T* | FB | 1/1.18 | [11] | 0.92 (0.80, 1.06) | 0.26 |
In MORGAM the alphabetically first allele for each SNP was used as the explanatory variable (‘risk allele’) in this analysis. Orientation of alleles in MORGAM is given as FT forward top, FB forward bottom, RB reverse bottom. Logarithms of the odds ratios (ORs) from references were used as SNP coefficients in genetic risk score (GRS1). In the score the coefficient was placed on the MORGAM risk allele; when this was different from the risk allele reported in the literature (indicated by *), we used the log inverse (1/OR) of the reported OR as the coefficient. The rs9818870 SNP was not genotyped for the Swedish cohort due to technical difficulties. All SNPs except rs9818870 were included in GRS1/GRS2. H† indicates haplotypes derived from these SNPs. SNP associations were tested with a model adjusted for cohort and Framingham coefficients.