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Journal of Computational Biology
Article . 2003 . Peer-reviewed
License: Mary Ann Liebert TDM
Data sources: Crossref
https://dx.doi.org/10.48550/ar...
Article . 2002
License: arXiv Non-Exclusive Distribution
Data sources: Datacite
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Duplication Models for Biological Networks

Authors: Linyuan Lu; David J. Galas; T. Gregory Dewey; Fan Chung;

Duplication Models for Biological Networks

Abstract

Are biological networks different from other large complex networks? Both large biological and non-biological networks exhibit power-law graphs (number of nodes with degree k, N(k) ~ k-b) yet the exponents, b, fall into different ranges. This may be because duplication of the information in the genome is a dominant evolutionary force in shaping biological networks (like gene regulatory networks and protein-protein interaction networks), and is fundamentally different from the mechanisms thought to dominate the growth of most non-biological networks (such as the internet [1-4]). The preferential choice models non-biological networks like web graphs can only produce power-law graphs with exponents greater than 2 [1-4,8]. We use combinatorial probabilistic methods to examine the evolution of graphs by duplication processes and derive exact analytical relationships between the exponent of the power law and the parameters of the model. Both full duplication of nodes (with all their connections) as well as partial duplication (with only some connections) are analyzed. We demonstrate that partial duplication can produce power-law graphs with exponents less than 2, consistent with current data on biological networks. The power-law exponent for large graphs depends only on the growth process, not on the starting graph.

Keywords

Internet, Condensed Matter (cond-mat), Proteins, Reproducibility of Results, FOS: Physical sciences, Condensed Matter, Models, Biological, Quantitative Biology, FOS: Biological sciences, Neural Networks, Computer, Quantitative Biology (q-bio), Probability

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    Top 10%
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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
249
Top 10%
Top 1%
Top 1%
Green
bronze