Table 1

Summary statistics and results under the three frameworks


Stratum


Parameter
 Aggregated
 cis
 trans
Summary statistics
     No. tests
 3,855,428
 16,018
 3,839,410
     Math (%)
 95.03
 88.18
 95.06
     Minimal q-value
 2.23 × 10-7
 1.12 × 10-9
 4.44 × 10-7
Framework I, α = 0.0001
     No. rejections
 8,043
 129
 7,914
     Math (%)
 4.56
 1.09
 4.61
     E [No. false positives]
 366
 1
 365
Framework II, γ = 0.05
     No. rejections
 8,541
 339
 8,262
     E [No. true positives]
 8,114
 322
 7,849
Framework III, R = 2,000
     Rejection without stratification
 2000
 55
 1945
     Rejection with stratification
 2000
 133
 1867




     Overall Math (%)
 2.05
 2.00

Huang et al. BMC Proceedings 2007 1(Suppl 1):S142