Table 7

Paralogous gene pairs and conservation of signalling network connectivity: Shared edges and average degree differencea

2ROs

(9,958 gene set linked)

Subnetwork and overlap

Shared edges

Average degree difference

All edges (450 node pairs)

1,728/6,741 = 25.63%

7.17

Positive edges only (251 node pairs)

658/2,750 = 23.92%

4.87

Negative edges only (94 node pairs)

348/783 = 44.44%

3.05

Scaffolds only (254 node pairs)

652/2,445 = 26.66%

4.44

Chordata

(2,173 gene set linked)

Subnetwork and overlap

Shared edges

Average degree difference

All edges (67 node pairs)

130/1,149 = 11.31%

9.86

Positive edges only (37 node pairs)

66/483 = 13.66%

6.72

Negative edges only (11 node pairs)

24/102 = 23.52%

4.9

Scaffolds only (39 node pairs)

32/350 = 9.14%

4.66

Bilateria

(5,223 gene set linked)

Subnetwork and overlap

Shared edges

Average degree difference

All edges (452 node pairs)

1,198/8,356 = 14.33%

9.37

Positive edges only (271 node pairs)

440/3,686 = 11.93%

6.48

Negative edges only (126 node pairs)

178/1,120 = 15.89%

3.61

Scaffolds only (219 node pairs)

418/2,335 = 17.90%

4.90


aParalogous gene pairs linked with different taxons are mapped to the human cancer signalling map (HCSM). The entire network, as well as the subnetworks consisting of only positive, negative or scaffolding edges, is considered. The overlap between pair sets of different ages and HCSM subnetworks is given in parentheses in the first column. In the second column, the number of shared edges versus the total is given (as the ratio and the resulting percentage value, calculated for the total set of paralogs). In the third column, the average difference in degree between such node pairs is given.

Huminiecki and Heldin BMC Biology 2010 8:146   doi:10.1186/1741-7007-8-146

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