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Figure 2 | BMC Systems Biology

Figure 2

From: Modeling protein network evolution under genome duplication and domain shuffling

Figure 2

Model of protein-protein interaction network evolution through whole genome duplication. Whole genome duplication is followed by asymmetric divergence of protein duplicates with random distribution between genome copies (e.g. 1/1' vs 2/2'): "New" duplicates are left essentially free to accumulate neutral mutations with the likely outcome to become nonfunctional and eventually deleted unless some "new", duplication-derived interactions are selected; "Old" duplicates, on the other hand, are more constrained to conserve "old" interactions already present before duplication. The duplicated network with quadruplated links is graphically rearranged for convenience into old and new network copies (e.g. 2 and 2' duplicated nodes are swapped here). Links from the duplicated network are then kept with different probabilities γ i (0 ≤ γ i ≤ 1) reflecting this asymmetric divergence between protein duplicates. An alternative model based on symmetric divergence of protein duplicates and random link "complementation" is illustrated in Fig. S1 and discussed in Supporting Information.

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