Dynamics of network motifs in genetic regulatory networks

Network motifs hold a very important status in genetic regulatory networks. This paper aims to analyse the dynamical property of the network motifs in genetic regulatory networks. The main result we obtained is that the dynamical property of a single motif is very simple with only an asymptotically stable equilibrium point, but the combination of several motifs can make more complicated dynamical properties emerge such as limit cycles. The above-mentioned result shows that network motif is a stable substructure in genetic regulatory networks while their combinations make the genetic regulatory network more complicated.

[1]  Albert,et al.  Emergence of scaling in random networks , 1999, Science.

[2]  G. Church,et al.  Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae. , 2000, Journal of molecular biology.

[3]  Nicola J. Rinaldi,et al.  Transcriptional Regulatory Networks in Saccharomyces cerevisiae , 2002, Science.

[4]  K. Aihara,et al.  Stability of genetic regulatory networks with time delay , 2002 .

[5]  M. Newman,et al.  Random graphs with arbitrary degree distributions and their applications. , 2000, Physical review. E, Statistical, nonlinear, and soft matter physics.

[6]  D. A. Baxter,et al.  Mathematical Modeling of Gene Networks , 2000, Neuron.

[7]  H. McAdams,et al.  Circuit simulation of genetic networks. , 1995, Science.

[8]  K. Aihara,et al.  Stability and bifurcation analysis of differential-difference-algebraic equations , 2001 .

[9]  Marek S. Skrzypek,et al.  YPDTM, PombePDTM and WormPDTM: model organism volumes of the BioKnowledgeTM Library, an integrated resource for protein information , 2001, Nucleic Acids Res..

[10]  S. Shen-Orr,et al.  Network motifs in the transcriptional regulation network of Escherichia coli , 2002, Nature Genetics.

[11]  J. Hopfield,et al.  From molecular to modular cell biology , 1999, Nature.

[12]  C. Rao,et al.  Control motifs for intracellular regulatory networks. , 2001, Annual review of biomedical engineering.

[13]  吴建军,et al.  Strength dynamics of weighted evolving networks , 2007 .

[14]  马少娟,et al.  Analysis of stochastic bifurcation and chaos in stochastic Duffing–van der Pol system via Chebyshev polynomial approximation , 2006 .

[15]  赵光宙,et al.  Passive control of chaotic system with multiple strange attractors , 2006 .

[16]  M. Gerstein,et al.  Structure and evolution of transcriptional regulatory networks. , 2004, Current opinion in structural biology.

[17]  Wang Mao-Sheng,et al.  Synchronization and coherence resonance in chaotic neural networks , 2006 .

[18]  D. Bray.  Protein molecules as computational elements in living cells , 1995, Nature.

[19]  A. Barabasi,et al.  Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.

[20]  Kazuyuki Aihara,et al.  Modeling genetic switches with positive feedback loops. , 2003, Journal of theoretical biology.

[21]  S. Shen-Orr,et al.  Network motifs: simple building blocks of complex networks. , 2002, Science.

[22]  陈增强,et al.  Finite-time control of chaotic systems with nonlinear inputs , 2006 .

[23]  Araceli M. Huerta,et al.  From specific gene regulation to genomic networks: a global analysis of transcriptional regulation in Escherichia coli. , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.