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 We are studying complex dynamical systems in order to gain insights into fundamental principles governing living systems at all scales of organization. This includes understanding the relationships between the structure of complex networks and their dynamics, and how such relationships affect their ability to balance robustness with adaptability in a variable environment and make decisions in response to information from their environment, thus coordinating complex behaviors by propagating information through these networks. We are currently exploring information-theoretic approaches to tackle these questions, using mathematical and statistical modeling, computer simulations, and large-scale biological measurements.
Publications:
M. Nykter, N. D. Price, A. Larjo, T. Aho, S. A. Kauffman, O. Yli-Harja, I. Shmulevich, "Critical networks exhibit maximal information diversity in structure-dynamics relationships," Physical Review Letters (in press).
M. Nykter, N. D. Price , M. Aldana, S. A. Ramsey, S. A. Kauffman, L. Hood, O.Yli-Harja, I. Shmulevich, "Gene Expression Dynamics in the Macrophage Exhibit Criticality," Proceedings of the National Academy of Sciences of the USA (in press).
S. A. Kauffman, R. K. Logan, R. Este, R. Goebel, D. Hobill, I. Shmulevich, "Propagating Organization: An Enquiry," Biology and Philosophy, Vol. 23, No. 1, pp. 27-45, 2007.
P. Krawitz, I. Shmulevich, "Entropy of complex relevant components in Boolean networks," Physical Review E, Vol. 76, 036115, 2007.
P. Krawitz, I. Shmulevich, "Basin Entropy in Boolean Network Ensembles," Physical Review Letters, Vol. 98, No. 15, pp. 158701, 2007.
T. Toulouse, P. Ao, I. Shmulevich, S. A. Kauffman, “Noise in a Small Genetic Circuit that Undergoes Bifurcation,” Complexity, Vol. 11, No. 1, pp. 45-51, 2005.
I. Shmulevich, S. A. Kauffman, M. Aldana, "Eukaryotic cells are dynamically ordered or critical but not chaotic" Proceedings of the National Academy of Sciences of the USA, Vol. 102, No. 38, pp. 13439-13444, 2005.
I. Shmulevich, H. Lähdesmäki, E. R. Dougherty, J. Astola, W. Zhang, "The role of certain Post classes in Boolean network models of genetic networks," Proceedings of the National Academy of Sciences of the USA, Vol. 100, No. 19, pp. 10734-10739, 2003.
I. Shmulevich, S. A. Kauffman, "Activities and Sensitivities in Boolean Network Models," Physical Review Letters, Vol. 93, No. 4, pp. 048701(1-4), 2004.
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