Table 3 Analytic recovery of pathway genetic effects for a continuous trait, based on 1000 (under alternatives) or 2000 (under the null) simulated studies of 1000 offspring
From: Simulating autosomal genotypes with realistic linkage disequilibrium and a spiked-in genetic effect
Simulation Setup | Simulation Results | ||||||
|---|---|---|---|---|---|---|---|
|  | True Shift in mean | Average Estimated Shift in Mean (95% CI for the Mean Shift in Mean) | Estimated Coverage of Nominal 95% CIs | ||||
Scenario | Allele Frequency for each of the 4 SNPs in each pathway | Pathway 1 | Pathway 2 | Pathway 1 | Pathway 2 | Pathway 1 | Pathway 2 |
Stratified null | a | 0 | 0 | 0.00 (−0.02,0.03) | −0.01 (−0.03,0.02) | 0.949 | 0.958 |
Alternative b | 0.3 | 0.1 | 0.15 | 0.10 (0.09,0.11) | 0.15 (0.14,0.15) | 0.949 | 0.95 |
Alternative b | 0.2 | 0.1 | 0.15 | 0.10 (0.09,0.12) | 0.14 (0.13,0.16) | 0.949 | 0.96 |