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The dynamics of enzymatic switch cascades

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dc.contributor.advisor Leonid A. Mirny. en_US Mukherji, Shankar, 1982- en_US
dc.contributor.other Massachusetts Institute of Technology. Dept. of Mathematics. en_US 2006-05-15T20:27:07Z 2006-05-15T20:27:07Z 2004 en_US 2004 en_US
dc.description Thesis (S.B.)--Massachusetts Institute of Technology, Dept. of Physics; and, (S.B.)--Massachusetts Institute of Technology, Dept. of Mathematics, 2004. en_US
dc.description Includes bibliographical references (leaf 67). en_US
dc.description.abstract We examine the dynamics of the mitogen-activated protein kinase (MAPK) multi-step enzymatic switching cascade, a highly conserved architecture utilised in cellular signal transduction. In treating the equations of motion, we replace the usual deterministic differential equation formalism with stochastic equations to accurately model the 'effective collisions' picture of the biochemical reactions that constitute the network. Furthermore we measure the fidelity of the signaling process through the mutual information content between the output of a given switch and the original environmental input to the system. We find that the enzymatic switches act as low-pass filters, with each switch in the cascade able to average over high frequency stochastic fluctuations in the network and throughput cleaner signals to downstream switches. We find optimal regions of mutual information transfer with respect to reaction velocity and species number parameters, and observe the dynamical memory-gain and memory-loss as well as decay in mutual information in quadruple-linked switch systems. en_US
dc.description.statementofresponsibility by Shankar Mukherji. en_US
dc.format.extent 67 leaves en_US
dc.format.extent 2563966 bytes
dc.format.extent 2566243 bytes
dc.format.mimetype application/pdf
dc.format.mimetype application/pdf
dc.language.iso eng en_US
dc.publisher Massachusetts Institute of Technology en_US
dc.rights M.I.T. theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. See provided URL for inquiries about permission. en_US
dc.subject Physics. en_US
dc.subject Mathematics. en_US
dc.title The dynamics of enzymatic switch cascades en_US
dc.type Thesis en_US S.B. en_US
dc.contributor.department Massachusetts Institute of Technology. Dept. of Physics. en_US
dc.contributor.department Massachusetts Institute of Technology. Dept. of Mathematics. en_US
dc.identifier.oclc 56735497 en_US

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