Table 2

Conservation rates of edges in different types of networks between S.cerevisiae and S. pombe

From S. cerevisiae to S. pombe

From S. pombe to S. cerevisiae


Baseline

BMI

WMI

Extended WMI

Baseline

BMI

WMI

Extended WMI


Integrated

Real

18.11

16.17

46.54

49.66

22.18

20.16

29.94

31.97

Rand

9.13 ± 0.04

9.26 ± 0.32

4.66 ± 0.48

5.22 ± 0.49

11.99 ± 0.06

13.31 ± 0.30

7.38 ± 0.57

7.71 ± 0.59


Integrated

(no-seqs)

Real

16.89

15.61

38.54

40.99

20.86

15.88

34.25

35.03

Rand

9.04 ± 0.05

9.68 ± 0.30

4.57 ± 0.50

5.05 ± 0.52

11.84 ± 0.05

12.72 ± 0.21

8.01 ± 0.60

8.34 ± 0.61


Integrated(exclude-para)

Real

16.84

15.59

38.44

40.89

20.77

15.83

34.06

34.84

Rand

8.92 ± 0.05

9.58 ± 0.30

4.47 ± 0.49

5.38 ± 0.53

11.79 ± 0.05

12.68 ± 0.21

7.95 ± 0.60

8.24 ± 0.60


Coexpression

Real

19.27

18.27

36.28

40.26

19.51

18.76

20.30

21.74

Rand

10.32 ± 0.05

10.2 ± 0.38

6.71 ± 0.78

7.12 ± 0.75

11.09 ± 0.05

12.27 ± 0.30

8.06 ± 0.70

8.46 ± 0.71


PPI

Real

1.78

1.46

5.82

25.90

57.96

56.94

71.02

76.33

Rand

0.06 ± 0.01

0.06 ± 0.02

0.05 ± 0.09

1.42 ± 0.43

3.12 ± 0.42

3.70 ± 1.10

2.31 ± 1.33

2.62 ± 1.48


Positive GI

Real

2.24

1.77

8.28

33.93

10.02

8.26

21.20

36.96

Rand

0.30 ± 0.05

0.29 ± 0.09

0.15 ± 0.19

1.68 ± 0.61

1.43 ± 0.27

1.50 ± 0.45

1.19 ± 1.27

1.73 ± 1.50


Negative GI

Real

2.86

2.60

7.53

43.08

15.14

14.67

32.90

56.77

Rand

1.09 ± 0.05

0.96 ± 0.13

1.37 ± 1.96

2.89 ± 2.78

7.56 ± 0.29

7.17 ± 0.71

9.95 ± 10.16

10.98 ± 10.68


GO

Real

26.59

26.41

45.87

61.69

31.81

31.47

39.70

57.81

Rand

2.23 ± 0.08

2.16 ± 0.13

2.27 ± 2.12

3.78 ± 2.96

4.05 ± 0.11

4.28 ± 0.15

4.11 ± 2.58

5.22 ± 2.88


Sequence

Real

90.16

90.18

90.15

97.33

76.92

51.40

79.73

89.66

Rand

17.55 ± 0.64

25.61 ± 1.6

1.23 ± 0.76

1.96 ± 0.86

14.53 ± 0.39

28.88 ± 1.59

0.09 ± 0.15

0.34 ± 0.30


Conservation rates are listed for the following categories: Baseline: the entire networks; BMI: Between-Module Interactions; WMI: Within-Module Interactions; Extended WMI: extended module interactions. (no-seqs): statistics based on integrated network that does not include the sequence network. (exclude-para): in addition to 'no-seqs', all edges connecting paralogs (nodes with BLASTP E-value cutoff of 1e-25 or less) were removed.

Zinman et al. BMC Systems Biology 2011 5:134   doi:10.1186/1752-0509-5-134

Open Data