ModelDB: A kinetic model unifying presynaptic short-term facilitation and depression (Lee et al. 2009)

A kinetic model unifying presynaptic short-term facilitation and depression (Lee et al. 2009)

Accession: 120184

"... Here, we propose a unified theory of synaptic short-term plasticity based on realistic yet tractable and testable model descriptions of the underlying intracellular biochemical processes. Analysis of the model equations leads to a closed-form solution of the resonance frequency, a function of several critical biophysical parameters, as the single key indicator of the propensity for synaptic facilitation or depression under repetitive stimuli. This integrative model is supported by a broad range of transient and frequency response experimental data including those from facilitating, depressing or mixed-mode synapses. ... the model provides the reasons behind the switching behavior between facilitation and depression observed in experiments. ..."
Reference: Lee CC, Anton M, Poon CS, McRae GJ (2009) A kinetic model unifying presynaptic short-term facilitation and depression. J Comput Neurosci 26:459-73 [PubMed]

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Model Information (Click on a link to find other models with that property)

Model Type:	Synapse;
Brain Region(s)/Organism:
Cell Type(s):	CA1 pyramidal neuron; Cerebellar purkinje cell; Auditory nerve;
Channel(s):	I Calcium;
Gap Junctions:
Receptor(s):	AMPA;
Gene(s):
Transmitter(s):	Glutamate;
Simulation Environment:	MATLAB; Simulink;
Model Concept(s):	Synaptic Plasticity; Facilitation; Depression; Calcium dynamics;
Implementer(s):	Lee, Chuang-Chung ; Anton, Mihai ; Poon, Chi-Sang ; McRae, Gregory ;

Search NeuronDB for information about: CA1 pyramidal neuron; Cerebellar purkinje cell; AMPA; I Calcium; Glutamate;

Model files Help downloading and running models

SupplementalCodes_ShortTermPlasticity_JCNS

facilitation_presyn.m

facilitation_temp.m

Analytical_freq_sim.mdl

This file folder contains the supplemental codes for the manuscript:

Lee, C.-C., Anton, M., Poon, C.-S., and McRae G. J. (2009) The Unified
Theory of Homosynaptic Short Term Depression and Facilitation,
J. Comput. Neurosci. 26(3):459-473.

Files in the main directory are either the .m for standard Matlab
codes or .sml of Simulink Model files.  In addition, "Input" folder
includes the experimental transient responses of synapses under
faciliation and mixture effects; "Output" folder contains the
simulation results output by Simulink files.  Here is the list
describing the contents of individual .m and .sml files.  The first
points below contain examples of how the matlab code corresponds to
the paper figures.

1.  Analytical_freq_sim.mdl and Analytical_freq.m: This file set
calculates the transient response of presynapses by both simulation
and average approximation.  Running analytic_freq from the matlab
command line reproduces figures 2a,b:





2.  Facilitation.mdl, facilitation_freq.m, facilitation_presyn.m,
facilitation_temp.m: This file set generates the transient and
frequency EPSC responses of facilitating synapses.  The Probability of
release and Ratio of realeasable vehsicle resposes are also output.
Running facilitation_freq generates figure 3a,b:





and facilitation_temp generates figures 3c,d:





3.  Depression.mdl, depression_freq.m, depression_presyn.m,
depression_temp.m: This file set generates the transient and frequency
EPSC responses of depressing synapses.  The Probability of release and
Ratio of realeasable vehsicle resposes are also output.

4.  Mixture.mdl, mixture_freq.m, mixture_presyn.m, mixture_temp.m:
This file set generates the transient and frequency EPSP responses of
facilitating synapses.  The Probability of release and Ratio of
realeasable vehsicle resposes are also output.

5. resonance_freq_2D.m and resonance_freq_3D.m: These two files
calculate the resonance frequency response of synapses with different
parameters and plots its 2D and 3D responses, respectively.  In
addition, resonance_freq_3D.m generates the perturbation surfaces,
resonance frequency, and the bandwidth of frequency response.

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