Table 1.
Analysis of genes in relation to trait Q1 using the simple strategy, the alternative strategy based on more specific hypotheses, and the combined analysis with appropriate adjustment for multiple testing
| Number of significant replicates | ||||||
|---|---|---|---|---|---|---|
| Gene | Chromosome | Number of variants in gene | Number of times passing stage 1 threshold | Simple strategy | Alternative strategy | Joint analysis |
| FLT1 | 13 | 35 | 195 | 188 | 187 | 195 |
| OR2T34 | 1 | 16 | 166 | 79 | 77 | 140 |
| KDR | 4 | 16 | 165 | 75 | 39 | 146 |
| PRR4 | 12 | 34 | 159 | 57 | 60 | 117 |
| JAK1 | 1 | 12 | 150 | 49 | 45 | 105 |
| CYP4F3 | 19 | 12 | 149 | 37 | 38 | 97 |
| TAS2R48 | 12 | 12 | 148 | 41 | 53 | 102 |
| ZNF91 | 19 | 9 | 145 | 45 | 42 | 87 |
| HLA-B | 6 | 28 | 143 | 33 | 36 | 89 |
| INSR | 19 | 16 | 138 | 42 | 39 | 91 |
| LOC645118 | 19 | 5 | 125 | 24 | 21 | 73 |
| CES1 | 16 | 30 | 123 | 28 | 32 | 64 |
Only genes significant in the first analysis (at the 1% level) in at least 120 of the 200 replicates are shown. The two genes in bold were simulated to be associated with the trait. All analyses are adjusted for population stratification.