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Table 2 Comparison of multiple marker and single marker strategies

From: A two-step multiple-marker strategy for genome-wide association studies

  Correction for multiple testing Sensitivitya Specificitya FDRa % of all TL detectedb
   FBAT-LC  
Multiple markersc None 0.97 (0.08) 0.95 (0.03) 0.37 (0.17) 0.56 (0.02)
  Benjamini & Hochberg 0.95 (0.10) 0.99 (0.09) 0.03 (0.09) 0.55 (0.02)
  Bonferroni 0.94 (0.11) 0.99 (0.09) 0.03 (0.09) 0.55 (0.03)
   Single-marker FBAT  
Single markerd None 0.97 (0.09) 0.78 (0.03) 0.83 (0.02) 0.56 (0.02)
  Benjamini & Hochberg 0.95 (0.11) 0.87 (0.01) 0.74 (0.02) 0.55 (0.02)
  Bonferroni 0.95 (0.11) 0.87 (0.01) 0.74 (0.03) 0.55 (0.02)
  1. aMean (standard deviation) of sensitivity, specificity, and false-discovery rate of FBAT-LC (multiple markers) and single-marker FBAT computed over 50 replicates of family data.
  2. bMean (standard deviation) of the proportion of all trait loci (TL) selected in Step 1 and detected in Step 2 by FBAT at the 5% level over 50 replicates.
  3. c50 regions were selected in Step 1 using the local score method.
  4. d115 SNPs were selected in Step 1 (see text) using the Pearson chi-square applied to case-control genotypic contingency table.