Figure 1

Effects and significance for simulated SNP. Estimated effects (A and C) and minus the log p-value (MLP, B and D) for 1000 replicates of a simulated SNP and simulated trait phenotypes; no genotyping error was simulated; effects or significance levels estimated using least squares regression of individual phenotype on individual genotype are on the X-axis, effects or significance levels estimated using logistic regression of pooled genotype on phenotype data are on the Y-axis; in (C and D), only SNP with p-values greater than 1E-5 are shown.