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. 2015 Mar 13;27(3):485–512. doi: 10.1105/tpc.114.132266

Table 2. Network Properties.

Threshold − Threshold + No. of Nodes No. of Edges Positive Weight Negative Weight Isolated Nodes Connected Components Largest Component Average Degree Density Communities Modularity Rand Index Chemical Classes
HO1 −0.39 0.34 145 1567 1561 6 11 12 134 21.61 0.15 15 0.36 0.02
HO4 −0.36 0.33 145 1088 1032 56 2 3 143 15.01 0.10 7 0.51 0.08
HE4 −0.33 0.29 145 2401 2236 165 1 2 144 33.12 0.23 4 0.28 0.02
HO −0.38 0.34 183 1356 1267 89 1 2 182 14.82 0.08 7 0.50 0.17
HE −0.35 0.29 183 2719 2479 240 1 2 182 29.72 0.16 4 0.29 0.007
HOc1 −0.44 0.36 192 1569 1565 4 19 20 173 16.34 0.08 25 0.44 0.09
HOc4 −0.38 0.36 192 959 924 35 24 25 168 9.99 0.05 31 0.53 0.16

Summary of the seminal network properties for the three groups of networks. The columns correspond to the following properties: threshold value for negative correlations, threshold value for positive correlations, number of nodes, number of edges, number of edges with positive weight, number of edges with negative weight, number of isolated nodes, number of connected components, the number of nodes in the largest component, the average degree, density, number of communities (determined by the greed community finding algorithm based on modularity), the modularity of the corresponding partition into communities, and the Rand index for the correspondence between the determined communities and the chemical classes for the compounds.