Literature DB >> 15876638

Analysis of real-time numerical integration methods applied to dynamic clamp experiments.

Robert J Butera1, Maeve L McCarthy.   

Abstract

Real-time systems are frequently used as an experimental tool, whereby simulated models interact in real time with neurophysiological experiments. The most demanding of these techniques is known as the dynamic clamp, where simulated ion channel conductances are artificially injected into a neuron via intracellular electrodes for measurement and stimulation. Methodologies for implementing the numerical integration of the gating variables in real time typically employ first-order numerical methods, either Euler or exponential Euler (EE). EE is often used for rapidly integrating ion channel gating variables. We find via simulation studies that for small time steps, both methods are comparable, but at larger time steps, EE performs worse than Euler. We derive error bounds for both methods, and find that the error can be characterized in terms of two ratios: time step over time constant, and voltage measurement error over the slope factor of the steady-state activation curve of the voltage-dependent gating variable. These ratios reliably bound the simulation error and yield results consistent with the simulation analysis. Our bounds quantitatively illustrate how measurement error restricts the accuracy that can be obtained by using smaller step sizes. Finally, we demonstrate that Euler can be computed with identical computational efficiency as EE.

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Year:  2004        PMID: 15876638     DOI: 10.1088/1741-2560/1/4/001

Source DB:  PubMed          Journal:  J Neural Eng        ISSN: 1741-2552            Impact factor:   5.379


  6 in total

1.  Real-time kinetic modeling of voltage-gated ion channels using dynamic clamp.

Authors:  Lorin S Milescu; Tadashi Yamanishi; Krzysztof Ptak; Murtaza Z Mogri; Jeffrey C Smith
Journal:  Biophys J       Date:  2008-03-28       Impact factor: 4.033

2.  Accuracy evaluation of numerical methods used in state-of-the-art simulators for spiking neural networks.

Authors:  Stephan Henker; Johannes Partzsch; René Schüffny
Journal:  J Comput Neurosci       Date:  2011-08-12       Impact factor: 1.621

3.  A component-based FPGA design framework for neuronal ion channel dynamics simulations.

Authors:  Terrence S T Mak; Guy Rachmuth; Kai-Pui Lam; Chi-Sang Poon
Journal:  IEEE Trans Neural Syst Rehabil Eng       Date:  2006-12       Impact factor: 3.802

4.  Dynamic clamp: alteration of response properties and creation of virtual realities in neurophysiology.

Authors:  Michael N Economo; Fernando R Fernandez; John A White
Journal:  J Neurosci       Date:  2010-02-17       Impact factor: 6.167

5.  Tracking and control of neuronal Hodgkin-Huxley dynamics.

Authors:  Ghanim Ullah; Steven J Schiff
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2009-04-13

6.  Causes of transient instabilities in the dynamic clamp.

Authors:  Amanda J Preyer; Robert J Butera
Journal:  IEEE Trans Neural Syst Rehabil Eng       Date:  2009-02-18       Impact factor: 3.802

  6 in total

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