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Table 3 Stability tests of α, n, π i and the relative weights of the structural penalties

From: Netter: re-ranking gene network inference predictions using structural network properties

Default setting n=25,Ï€ i =0.5i

n=50,Ï€ i =0.5i

n=75,Ï€ i =0.5i

Ï€ i =0.25i, n=50

Ï€ i =3i, n=50

0.41

0.41

0.41

0.41

0.42

Default setting α=10−5

α=10−2

α=10−3

α=10−4

α=10−6

0.41

0.37

0.40

0.41

0.42

Default setting g4=2.0

g4=0.0

g4=1.0

g4=5.0

g4=10.0

0.41

0.39

0.41

0.41

0.41

Default setting r=25.0

r=0.0

r=1.0

r=15.0

g=35.0

0.41

0.36

0.38

0.41

0.41

Default setting a=25.0

a=0.0

a=50.0

a=75.0

a=100.0

0.41

0.40

0.41

0.41

0.41

  1. The average AUPR score on a subset of 15 GENIE3 predictions is shown and compared to the score using default settings. Parameters not listed were set to default values. (g4 = graphlet, r = regulatory, a = anti-dominating)