Simulated power comparison for a mixture of rare and common risk variants.

<p>Monte Carlo estimates of rejection rates for each association testing procedure based on 1,000 samples from a disease model with 50 total risk variants, which represent ∼5% of all variants in the locus in the average population, randomly allocated between rare variants (MAF<0.01; OR = 2), low-frequency variants (0.01≤MAF<0.05; OR = 1.5), and common variants (0.05≤MAF<0.10; OR = 1.2). Estimates are reported by call rate, nominal <i>α</i> level, and sample size (<i>N</i>). Error bars represent exact binomial 95% confidence intervals <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0030238#pone.0030238-Leemis1" target="_blank">[39]</a> for the rejection rate. The CMC could not be performed at a call rate of 95% because no individual had complete genotype data in any sample; at a call rate of 99.5%, CMC results with <i>F</i> ddf>4 were available in 15, 564, and 989 samples for <i>N</i> = 500, 1,000, and 2,000, respectively.