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Figure 3 | BMC Bioinformatics

Figure 3

From: Deducing topology of protein-protein interaction networks from experimentally measured sub-networks

Figure 3

Effects of experimental sampling on the network degree distributions and motifs. a. Degree distributions for different theoretical networks. The libraries of 6,000 proteins were first randomly sampled from the original networks of 15,000 proteins. For the DPPI network, 5980 proteins were randomly sampled from the original 7049 proteins. To simulate the effects of experimental sampling on degree distribution (symbol), different ratios of red:blue:green (red: bait and prey, blue: pure bait, and green: pure prey as defined in Fig. 2) were then assigned in the sampled network. These ratios include red:blue:green, 1:0:0 (cyan); red:blue:green, 1:1:1 (magenta); and red:blue:green, 2:1:7 (black). For comparison, the degree distribution (line) of a randomly sampled network of the same size for each ratio from the parent network is also shown. b. The percentage of different four-node motifs for the library (black), the sampled network (magenta) of red:blue:green of 2:1:7, and the CSN (red) from the sampled network, for the same four types of networks shown in a. c. Comparison of degree distributions between sub-networks (symbols) and randomly sampled networks with the same size (lines). The library (black) is the same in a; the sampled network (magenta) has the ratio red:blue:green of 2:1:7; and the CSN (red) is from the sampled network.

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