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Table 3 Estimated type I errors for the permutation test of no treatment effect compared to GEE

From: Gene set analysis for longitudinal gene expression data

distribution n1 n2 G permutation NP GEE
Normal 5 6 20 0.041 0.097
  25 25 20 0.055 0.058
  45 50 20 0.047 0.056
  5 6 50 0.045 0.105
  25 25 50 0.058 0.053
  45 50 50 0.046 0.044
  5 6 100 0.033 0.087
  25 25 100 0.053 0.058
  45 50 100 0.047 0.045
Poisson 5 6 20 0.040 0.096
  25 25 20 0.058 0.055
  45 50 20 0.058 0.049
  5 6 50 0.041 0.109
  25 25 50 0.058 0.061
  45 50 50 0.052 0.062
  5 6 100 0.028 0.075
  25 25 100 0.053 0.063
  45 50 100 0.050 0.048
Exponential 5 6 20 0.040 0.101
  25 25 20 0.046 0.070
  45 50 20 0.047 0.062
  5 6 50 0.041 0.083
  25 25 50 0.048 0.056
  45 50 50 0.052 0.051
  5 6 100 0.041 0.087
  25 25 100 0.046 0.053
  45 50 100 0.044 0.059
  1. The data from different genes and repeated measurements from the same gene have AR(1) correlation with correlation coefficient 0.5. The n1 and n2 are the sample sizes for treatment groups 1 and 2, respectively. G is the number of genes in the gene set. The estimate is at 0.05 level.