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Table 4 Modularity in the PIN.

From: Topological comparison of methods for predicting transcriptional cooperativity in yeast

  CTFPs Co-functional TF pairs Co-regulatory TF pairs Co-functional ∩ co-regulatory TF pairs Random TF pairs
Method Mean Mean p-value Mean p-value Mean p-value Mean p-value
Method N 0.238 0.071 6.561·10-6 0.110 2.048·10-4 0.395 2.054·10 -2 0.035 9.321·10-13
Method B 0.186 0.071 1.582·10-3 0.110 1.020·10 -2 0.395 8.690·10-3 0.035 2.808·10-8
Method T 0.212 0.071 1.119·10-4 0.110 1.692·10-3 0.395 6.503·10 -2 0.035 7.146·10-9
Method C 0.188 0.071 7.941·10-8 0.110 4.160·10-5 0.395 4.563·10-3 0.035 2.200·10-16
  1. Modularity of cooperative TF pairs in the PIN. Modularity was measured as topological overlap (see Methods). The distribution of modularity values for the CTFPs predicted by method was compared to distributions in the other sets of TF pairs by means of a Mann-Whitney test. Font styles are as in Table 3.
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