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Table 1 Statistics of yeast co-expression networks

From: A general co-expression network-based approach to gene expression analysis: comparison and applications

  Rank-based networks
  Network from real data Network from permuted data Randomly rewired network
d 2 3 4 5 2 3 4 5 - - - -
Number of singletons 0 0 0 0 0 0 0 0 0 0 0 0
Size of largest component 2971 3000 3000 3000 3000 3000 3000 3000 3000 3000 3000 3000
Average degree 3.6 5.4 7.2 9.0 2.8 4.0 5.2 6.3 3.6 5.4 7.2 9.0
Largest degree 22 35 49 57 10 13 14 17 22 35 49 57
Clustering coefficient 0.17 0.19 0.21 0.22 0.01 0.02 0.02 0.02 0.001 0.002 0.004 0.005
Average path length 8.8 6.8 5.9 5.4 9.6 6.4 5.3 4.7 6.0 4.6 4.1 3.7
Diameter 19 19 14 11 17 10 8 7 12 8 7 6
  Value-based networks
  Network from real data Network from permuted data Randomly rewired network
Correlation cutoff 0.85 0.79 0.76 0.69 0.21 0.18 0.16 0.14 - - - -
Number of singletons 2163 1586 1311 893 0 0 0 0 2163 1586 1311 893
Size of largest component 486 756 1609 2055 3000 3000 3000 3000 835 1412 1689 2107
Average degree 10(37) 30(64) 50(107) 100(142) 10 30 50 100 10 30 50 100
Largest degree 211 340 418 581 24 55 79 136 211 340 418 581
Clustering coefficient 0.52 0.59 0.62 0.64 0.03 0.04 0.05 0.07 0.31 0.34 0.34 0.34
Average path length 2.6 2.6 6.0 4.8 3.8 2.7 2.4 2.0 2.5 2.4 2.3 2.2
Diameter 9 9 18 13 6 4 3 3 5 5 5 5
  1. Numbers in parentheses are for non-singleton nodes only.