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Table 1 Microarray experimental design for time course and sex hierarchy experiments.

From: Somatic, germline and sex hierarchy regulated gene expression during Drosophila metamorphosis

I. Time course experiment
Probe 1 Probe 2 Replicates Time points (hr APF)  
Wild type female (CS) Reference 3 0, 24, 48, 72, 96  
Wild type male (CS) Reference 3 0, 24, 48, 72, 96  
tud progeny female Reference 3 0, 24, 48, 72, 96  
tud progeny male Reference 3 0, 24, 48, 72, 96  
II. Sex determination hierarchy experiment*
Probe 1 Probe 2 Replicates Time point (hr APF) # of Genes
Wild type female (CS) Wild type male (CS) 4 48 7972
Wild type female (Berlin) Wild type male (Berlin) 4 48  
tud progeny female tud progeny male 4 48 420
Wild type female (CS) XX tra pseudomales 4 48 95
Wild type female (CS) XX dsx Dpseudomales 4 48 173**
Wild type female (CS) XX dsx intersexuals 4 48 154
Wild type male (CS) XY dsx intersexuals 4 48 155
  1. Probes, numbers of replicates, and the time points assayed are listed for each experiment. Chromosomal sex is indicated by XX or XY. * Sex determination hierarchy experiments were all performed with a dye-swap design (see Methods). The number of genes in each experiment that is significantly differentially expressed. ** The DSX set was defined with an additional statistical test to eliminate potential false-negatives resulting from exclusion in the TRA set. Therefore, a gene's inclusion in the DSX set is not necessarily contingent on its presence in the TRA set. For a description of the definition of the DSX set, see Results and Discussion and Methods.