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Table 3 Numerical comparison of analysis methods applied to the real data

From: Missing channels in two-colour microarray experiments: Combining single-channel and two-channel data

  Comb. (k est ) Comb. (kfix = 0.5) Comb. (kfix = 0.25) Unaffected Single Channel SC (damaged) Inclusive
Combined(kest) - 0.88 0.89 0.83 0.70 0.62 0.57
Combined(kfix = 0.5) 904 - 0.98 0.80 0.78 0.71 0.56
Combined(kfix = 0.25) 842 922 - 0.88 0.74 0.66 0.57
Unaffected Data 669 723 788 - 0.58 0.48 0.53
Single Channel 750 725 686 575 - 0.84 0.56
SC (damaged arrays) 710 656 612 492 788 - 0.53
Inclusive 620 629 631 591 660 605 -
  1. For every pair of analyses: Presented in the upper right corner is the Spearman's rank correlation comparing for all genes the two sets of log-odds of being differentially expressed. In the bottom left is given the number of genes common to the top 1,000 returned by the two methods.