Literature DB >> 26736995

The volterra functional series is a viable alternative to kinetic models for synaptic modeling--calibration and benchmarking.

Eric Y Hu, Jean-Marie C Bouteiller, Dong Song, Theodore W Berger.   

Abstract

Synaptic transmission is governed by a series of complex and highly nonlinear mechanisms and pathways in which the dynamics have a profound influence on the overall signal sent to the postsynaptic cell. In simulation, these mechanisms are often represented through kinetic models governed by state variables and rate law equations. Calculations of such ordinary differential equations (ODEs) in kinetic models can be computationally intensive, and although algorithms have been optimally developed to handle ODEs efficiently, simulation of numerous, large and complex kinetic models requires a prohibitively large amount of computational power. Here we present an alternative representation of ionotropic glutamatergic receptors AMPAr and NMDAr kinetic models consisting of input-output surrogates of the receptor models which can capture the nonlinear dynamics seen in the kinetic models. We benchmark this Input-Output (IO) synapse model and compare it with kinetic receptor models to evaluate the simulation time required when using either synapse model, as well as the number of time steps each model needs for simulation. While remaining faithful to the original dynamics of the model, our results indicate that the IO synapse model requires less simulation time than the kinetic models under conditions which elicit normal physiological responses, thereby improving computational efficiency while preserving the complex non-linear dynamics of the receptors. These IO surrogates therefore constitute an appealing alternative to kinetic models in large scale networks simulations.

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Year:  2015        PMID: 26736995      PMCID: PMC4856223          DOI: 10.1109/EMBC.2015.7319095

Source DB:  PubMed          Journal:  Conf Proc IEEE Eng Med Biol Soc        ISSN: 1557-170X


  9 in total

1.  Modeling neuron-glia interactions: from parametric model to neuromorphic hardware.

Authors:  Viviane S Ghaderi; Sushmita L Allam; N Ambert; J-M C Bouteiller; J Choma; T W Berger
Journal:  Conf Proc IEEE Eng Med Biol Soc       Date:  2011

2.  Simple model of spiking neurons.

Authors:  E M Izhikevich
Journal:  IEEE Trans Neural Netw       Date:  2003

3.  The Neurobiological Basis of Cognition: Identification by Multi-Input, Multioutput Nonlinear Dynamic Modeling: A method is proposed for measuring and modeling human long-term memory formation by mathematical analysis and computer simulation of nerve-cell dynamics.

Authors:  Theodore W Berger; Dong Song; Rosa H M Chan; Vasilis Z Marmarelis
Journal:  Proc IEEE Inst Electr Electron Eng       Date:  2010-03-04       Impact factor: 10.961

4.  Calcium dynamics associated with action potentials in single nerve terminals of pyramidal cells in layer 2/3 of the young rat neocortex.

Authors:  H J Koester; B Sakmann
Journal:  J Physiol       Date:  2000-12-15       Impact factor: 5.182

5.  Inositol 1,4,5-trisphosphate-dependent Ca2+ threshold dynamics detect spike timing in cerebellar Purkinje cells.

Authors:  Tomokazu Doi; Shinya Kuroda; Takayuki Michikawa; Mitsuo Kawato
Journal:  J Neurosci       Date:  2005-01-26       Impact factor: 6.167

6.  Modelling vesicular release at hippocampal synapses.

Authors:  Suhita Nadkarni; Thomas M Bartol; Terrence J Sejnowski; Herbert Levine
Journal:  PLoS Comput Biol       Date:  2010-11-11       Impact factor: 4.475

7.  NeuroML: a language for describing data driven models of neurons and networks with a high degree of biological detail.

Authors:  Padraig Gleeson; Sharon Crook; Robert C Cannon; Michael L Hines; Guy O Billings; Matteo Farinella; Thomas M Morse; Andrew P Davison; Subhasis Ray; Upinder S Bhalla; Simon R Barnes; Yoana D Dimitrova; R Angus Silver
Journal:  PLoS Comput Biol       Date:  2010-06-17       Impact factor: 4.475

8.  Simulation of postsynaptic glutamate receptors reveals critical features of glutamatergic transmission.

Authors:  Renaud Greget; Fabien Pernot; Jean-Marie C Bouteiller; Viviane Ghaderi; Sushmita Allam; Anne Florence Keller; Nicolas Ambert; Arnaud Legendre; Merdan Sarmis; Olivier Haeberle; Michel Faupel; Serge Bischoff; Theodore W Berger; Michel Baudry
Journal:  PLoS One       Date:  2011-12-15       Impact factor: 3.240

9.  A computational model to investigate astrocytic glutamate uptake influence on synaptic transmission and neuronal spiking.

Authors:  Sushmita L Allam; Viviane S Ghaderi; Jean-Marie C Bouteiller; Arnaud Legendre; Nicolas Ambert; Renaud Greget; Serge Bischoff; Michel Baudry; Theodore W Berger
Journal:  Front Comput Neurosci       Date:  2012-10-01       Impact factor: 2.380

  9 in total

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