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Table 3 Shortest path length 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

2.119

2.841

1.262·10-5

2.967

1.574·10-5

1.722

9.453·10 -2

3.151

1.455·10-10

Method B

2.269

2.841

2.622·10-3

2.967

1.534·10-3

1.722

2.347·10 -2

3.151

3.229·10-6

Method T

2.000

2.841

1.757·10-4

2.967

3.372·10-4

1.722

1.712·10 -1

3.151

7.860·10-7

Method C

2.256

2.841

2.003·10-5

2.967

5.341·10-5

1.722

1.115·10 -2

3.151

9.653·10-10

  1. Shortest path length between cooperative TF pairs in the PIN. The distribution of shortest path lengths between CTFPs predicted by each method was compared to the distributions in the other sets of TF pairs by means of a Mann-Whitney test. The p-value column is in bold type if the distribution of the parameter (in this case, the shortest path length) for a given method is not significantly different to that of the corresponding set (p-value < 0.01).
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