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Table 2 Comparison between 4 methods regarding prioritization, sensitivity and the reciprocal ranks of the target pathways

From: FoPA: identifying perturbed signaling pathways in clinical conditions using formal methods

  FoPA PADOG CePa SPIA
mean reciprocal rank 0.09 0.1 0.06 0.07
rank median 17.5 11.4 25.25 41.25
rank mean 21.52 21.91 33.55 44.07
p median 0.11 0.08 0 0.27
p mean 0.15 0.18 0.11 0.38
Wilcoxon rank Reference 0.9 0.008 5e-05
Wilcoxon p Reference 0.45 0.02 0.0001
  1. The table shows the statistics computed from the p-values and ranks of the 36 target pathways identified by each method. The mean reciprocal rank is the average of the reciprocal ranks of the target pathways computed by the equation \( \frac{1}{N}{\sum}_{i=1}^N\frac{1}{{\mathit{\operatorname{rank}}}_i} \). The results of comparing the ranks of each method against FoPA (chosen as reference), using a paired Wilcoxon test are also included. The best value for each measure is shown in bold