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Table 1 Statistics of the PINs from five eukaryote species

From: Difference in gene duplicability may explain the difference in overall structure of protein-protein interaction networks among eukaryotes

Species Dataset Data type n a #of links ν b <k>c <C> d r e <L> f M g
Yeast MIPS Manually curated 3,891 7,270 0.47*** 3.74 0.066 -0.14*** 4.85 0.662
  Yu et al. (2008) Y2H 1,647 2,518 0.25*** 3.06 0.057 -0.11*** 5.61 0.739
  Batada et al. (2007) Multi-Validated 3,801 9,742 0.33*** 5.13 0.171 -0.12*** 4.69 0.715
  Reguly et al. (2006) Literature curated 3,224 11,291 0.33*** 7.00 0.266 -0.13*** 4.22 0.689
Worm Li et al. (2004) Y2H 2,898 5,240 0.29*** 3.62 0.072 -0.14*** 4.95 0.679
Fly Pacifico et al. (2006) Y2H 2,477 3,546 0.35*** 2.87 0.025 -0.09*** 5.93 0.738
Human Rual et al. (2005) Y2H, Literature Curated 2,783 6,007 0.26*** 4.32 0.072 -0.14*** 4.84 0.630
  Stelzl et al. (2005) Y2H 1,613 3,101 0.27*** 3.85 0.006 -0.20*** 4.85 0.588
Malaria parasite LaCount et al. (2005) Y2H 1,267 2,726 0.02 4.30 0.014 -0.03* 4.26 0.506
  1. a. Number of nodes in a network.
  2. b. The extent of disassortative structure. *** indicates a significantly non-zero value (P < 0.001).
  3. c. The mean degree.
  4. d. The mean cluster coefficient. The cluster coefficient of node i is defined as Ci = 2ei/ki(ki-1), where ki is the degree of node i and ei is the number of links connecting ki neighbors of node i to one another [67]. When ki is one, Ci is defined to be zero. Ci is equal to one when all neighbors of node i are fully connected to one another, while Ci is zero when none of the neighbors are connected to one another.
  5. e. The Pearson correlation coefficient between degrees of two nodes connected to each other. *, P < 0.05; **, P < 0.01; ***, P < 0.001.
  6. f. The mean shortest path length, which is defined as the mean of the shortest path length between all pairs of nodes in a network [14].
  7. g. The modularity. See Methods.