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Table 2 Topological properties of BioCarta pathway/process extensions 17

From: Extending pathways and processes using molecular interaction networks to analyse cancer genome data

Property

Proposed extension: Added proteins only (mean)

Random model: Added proteins only (mean/stddev.)

Original cellular processes (mean/stddev.)

All network proteins (mean/stddev.)

Shortest path length

3.68

4.11(0.03)

3.77 (0.51)

4.12(0.94)

Node betweenness

21998

14545(4751)

49888 (153173)

14669(68893)

Degree

10.3

8.11(0.94)

21.53 (32.64)

8.27(16.2)

Clustering coefficient

0.34

0.11(0.01)

0.12 (0.17)

0.11(0.21)

Eigenvector centrality

0.04

0.01(0.04)

0.05 (0.09)

0(0.57)

  1. Comparison of different numerical topological properties for the proteins added by the proposed extension method (column 1) or the random model (column 2), as well as a comparison of these properties for the nodes corresponding to the original cellular processes (column 3) and the entire protein-protein interaction network (column 4).
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BMC Bioinformatics

ISSN: 1471-2105

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