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Table 4 Comparison of results from the EAE example. Comparison of numbers of genes in common declared significant (i.e., significantly differentially expressed) by the observed experiments, the SLR-based fixed effects and random effects meta-analyses, and the previously proposed P-value-based meta-analysis [2]. Each experiment (and meta-analysis) had the False Discovery Rate (FDR) controlled at 0.05.

From: Combining Affymetrix microarray results

  Observed Experiment ID Meta-Analysis
  Ib.A Ib.B Ca.1 Ca.2 Of.1 Of.2 Of.3 Fixed Random P-value
Ib.A 2952 402 1327 1253 1474 1354 1349 2336 1216 265
Ib.B   2902 996 950 1093 1067 1065 2456 1546 236
Ca.1    4471 2834 2797 2476 2461 3548 1555 402
Ca.2     4165 2646 2301 2324 3243 1464 333
Of.1      5001 2763 2807 3834 1578 355
Of.2       4911 3035 3669 1344 335
Of.3        5041 3728 1289 305
F         8263 3623 388
R          3671 205
P           453