Nadia Farid and Kim Christensen 2006 New J. Phys. 8 212 doi:10.1088/1367-2630/8/9/212
Nadia Farid1 and Kim Christensen
Show affiliationsWe introduce a minimalistic model based on dynamic node deletion and node duplication with heterodimerization. The model is intended to capture the essential features of the evolution of protein interaction networks. We derive an exact two-step rate equation to describe the evolution of the degree distribution. We present results for the case of a fixed-size network. The results are based on the exact numerical solution to the rate equation which are consistent with Monte Carlo simulations of the model's dynamics. Power-law degree distributions with apparent exponents <1 were observed for generic parameter choices. However, a proper finite-size scaling analysis revealed that the actual critical exponent in such cases is equal to one. We present a mean-field argument to determine the asymptotic value of the average degree, illustrating the existence of an attractive fixed point, and corroborate this result with numerical simulations of the first moment of the degree distribution as described by the two-step rate equation. Using the above results, we show that the apparent exponent is determined by the heterodimerization probability. Our preliminary results are consistent with empirical data for a wide range of organisms, and we believe that through implementing some of the suggested modifications, the model could be well-suited to other types of biological and non-biological networks.
89.75.Hc Networks and genealogical trees
87.23.Kg Dynamics of evolution
87.15.K- Molecular interactions; membrane-protein interactions
Issue 9 (September 2006)
Received 30 August 2006
Published 27 September 2006
Nadia Farid and Kim Christensen 2006 New J. Phys. 8 212
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