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Modelling Ca2+ -dependent proteins in the spine - challenges and solutions

Stefan, Melanie I. and Pepke, Shirley and Mihalas, Stefan and Bartol, Thomas and Sejnowski, Terrence J. and Kennedy, Mary B. (2012) Modelling Ca2+ -dependent proteins in the spine - challenges and solutions. In: Neuroinformatics 2012, 8 - 10 Sep 2012, Munich, Germany.

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Background / Purpose: Modelling post-synaptic proteins poses three technical problems: small absolute molecule numbers, large numbers of possible states, and the complex geometry of the spine, which is not a well-mixed compartment. Computational approaches are needed that solve all three of these problems. Main conclusion: Stochastic simulation methods can be used for systems with small molecule numbers, agent-based methods to represent multi-state molecules, and spatial methods to simulate events in complex geometries. We used the agent-based spatial stochastic simulator MCell to model the Ca2+-dependent activation of calmodulin and Ca2+/calmodulin-dependent kinase II (CaMKII) in the spine. Next steps: Next steps will include the extension of our model to include more interaction partners, and to represent some of the regulation events in more detail.

Item Type:Conference or Workshop Item (Poster)
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URLURL TypeDescription
Sejnowski, Terrence J.0000-0002-0622-7391
Kennedy, Mary B.0000-0003-1369-0525
Additional Information:This poster is open access subject to the CC BY-NC Creative Commons 3.0 License.
Record Number:CaltechAUTHORS:20121108-110709029
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Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:35364
Deposited By: Melanie Stefan
Deposited On:08 Nov 2012 19:33
Last Modified:09 Mar 2020 13:19

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