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Biochemistry - Biophysics - Computer Science - Mathematics - Neuroscience

Optimal Estimation of Ion-Channel Kinetics from Macroscopic Currents
Published: Friday, April 20, 2012
Author: Wei Wang et al.

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

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.