Figure 2

Comparison of false discovery rates (FDR) using simulated data based on 40 patients and 6 onboard probe replicates. False discovery rates are averaged over 1000 simulations. Solid curves are the true false discovery rates based on the between- and within-array variance component (VC) statistic, short-dashed curves are the true false discovery rates based on Pearson's correlation coefficient (PCC), and long-dashed curves are the estimated false discovery rates based on the proposed semi-nonparametric (SNP) mixture model method.