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Optimal Estimation of Ion-Channel Kinetics from Macroscopic Currents

Author

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  • Wei Wang
  • Feng Xiao
  • Xuhui Zeng
  • Jing Yao
  • Ming Yuchi
  • Jiuping Ding

Abstract

Markov modeling provides an effective approach for modeling ion channel kinetics. There are several search algorithms for global fitting of macroscopic or single-channel currents across different experimental conditions. Here we present a particle swarm optimization(PSO)-based approach which, when used in combination with golden section search (GSS), can fit macroscopic voltage responses with a high degree of accuracy (errors within 1%) and reasonable amount of calculation time (less than 10 hours for 20 free parameters) on a desktop computer. We also describe a method for initial value estimation of the model parameters, which appears to favor identification of global optimum and can further reduce the computational cost. The PSO-GSS algorithm is applicable for kinetic models of arbitrary topology and size and compatible with common stimulation protocols, which provides a convenient approach for establishing kinetic models at the macroscopic level.

Suggested Citation

  • Wei Wang & Feng Xiao & Xuhui Zeng & Jing Yao & Ming Yuchi & Jiuping Ding, 2012. "Optimal Estimation of Ion-Channel Kinetics from Macroscopic Currents," PLOS ONE, Public Library of Science, vol. 7(4), pages 1-12, April.
    • Handle: RePEc:plo:pone00:0035208
    DOI: 10.1371/journal.pone.0035208
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    References listed on IDEAS

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    1. Meron Gurkiewicz & Alon Korngreen, 2007. "A Numerical Approach to Ion Channel Modelling Using Whole-Cell Voltage-Clamp Recordings and a Genetic Algorithm," PLOS Computational Biology, Public Library of Science, vol. 3(8), pages 1-15, August.
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    Cited by:

    1. Wei Wang & Jie Luo & Panpan Hou & Yimei Yang & Feng Xiao & Ming Yuchi & Anlian Qu & Luyang Wang & Jiuping Ding, 2013. "Native Gating Behavior of Ion Channels in Neurons with Null-Deviation Modeling," PLOS ONE, Public Library of Science, vol. 8(10), pages 1-10, October.

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