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Table 1 Results of Asymmetric-N on the 102-gene dataset

From: Rank-based edge reconstruction for scale-free genetic regulatory networks

 

NC

NP

#Edges

#Published

%Published

%GO BP

γ

R 2

P-P PCC: no time lag

101

4

142

20

14.08

38.03

-0.69

0.45

P-P PCC: one time lag

101

16

185

31

16.76

30.81

-0.96

0.79

S-S PCC: no time lag

91

1

60

17

28.33

45.83

-1.27

0.65

S-S PCC: one time lag

91

11

155

29

18.71

27.74

-0.89

0.70

  1. P-P PCC means point to point (total 18 points) Pearson correlation coefficient between two time series profiles.
  2. S-S PCC means segment to segment (total 17 segments) Pearson correlation coefficient and the segment (say i) value is +1 (-1) if the value at point i is less (greater) than that at point i + 1 [53].
  3. Time lag means when aligning the two gene profiles, one of them needs to be shifted relative to the other.
  4. #Edges means the total interactions reconstructed;
  5. #Published means the reconstructed interactions that were previously published;
  6. %Published is the percentage of the published interactions among all the reconstructed interactions;
  7. %GO BP means the percentage of the reconstructed interactions whose genes or gene products pair share a common Gene Ontology (GO) Biological Process (BP) annotation from the SGD GO Slim mapper [46];
  8. γ and R2 are the power in P(k) ~ kγand coefficient of determination returned by the fit() function, respectively (see 'Results' – 'Computation Study' section for more details).