Additional file 1.

We report the simulation scenarios and results of the simulation study assessing the FDR of the FNS and FDRS design (modified procedure with ms=6) for the case of independent test statistics as described in the results section of the manuscript. For each scenario at least 1000 simulation runs were performed. For scenarios with lower m the simulation runs were increased to 50000 (m = {100;500}), 20000 (m = 1000), and 10000 (m = 5000), because in these scenarios there is a higher variability of the false discovery proportion such that the estimator of the FDR converges slower. This also holds if m is large but π0 ≈ 1 or Δ is small. Therefore, for these scenarios the number of simulation runs was increased. The resulting FDR values were plotted as a function of α1 for the FDRS design (left column) or as a function of m2 for the FNS design (right column), respectively.

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Zehetmayer and Posch BMC Bioinformatics 2012 13:81   doi:10.1186/1471-2105-13-81