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Simulated Evolution of Protein-Protein Interaction Networks with Realistic Topology

Figure 1

DUNE model flowchart.

At each time step, the simulated network undergoes a duplication or neofunctionalization event. Red nodes/links indicate nodes/links that have been created by duplication during the current time step. Green links indicate links that have been created by neofunctionalization during the current time step. A dashed line indicates a duplicated link that has been deleted during the post-duplication divergence. Only 3 neighbors are shown for the assimilation mechanism; however, the actual simulations included up to 20th neighbors. The simulated network evolves until its number of links () meets or exceeds the number of links in the data ().

Figure 1

doi: https://doi.org/10.1371/journal.pone.0039052.g001