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Parallel stochastic simulation of macrosopic calcium currents

González-Vélez, Virginia and González-Vélez, Horacio (2007) Parallel stochastic simulation of macrosopic calcium currents. Journal of Bioinformatics and Computational Biology (jbcb), 5 (3). pp. 755-772. ISSN 1757-6334

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This work introduces MACACO, a macroscopic calcium currents simulator. It provides a parameter-sweep framework which computes macroscopic Ca2+ currents from the individual aggregation of unitary currents, using a stochastic model for L-type Ca2+ channels. MACACO uses a simplified 3-state Markov model to simulate the response of each Ca2+ channel to different voltage inputs to the cell. In order to provide an accurate systematic view for the stochastic nature of the calcium channels, MACACO is composed of an experiment generator, a central simulation engine and a post-processing script component. Due to the computational complexity of the problem and the dimensions of the parameter space, the MACACO simulation engine employs a grid-enabled task farm. Having been designed as a computational biology tool, MACACO heavily borrows from the way cell physiologists conduct and report their experimental work.

Item Type: Article
Subjects: Q Science > QA Mathematics > Electronic computers. Computer science
T Technology > T Technology (General) > Information Technology > Electronic computers. Computer science
Divisions: School of Computing > Staff Research and Publications
Depositing User: Caoimhe Ní Mhaicín
Date Deposited: 27 Feb 2014 18:34
Last Modified: 11 Jun 2014 16:18

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