A sample program of the spectral timing model based on mGluR activation

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Contributor:NIJC Administrator (nijcadmin)  |  Created Date: Mar 16, 2011 14:07:03  |  Visits:2244  |  Runs:10
Free Keywords: classical conditioning; nictitating membrane response; cerebellum; long-term depression; metabotropic glutamate receptors; AMPA receptors; neural network
ID 44
Title A sample program of the spectral timing model based on mGluR activation
Free Keywords classical conditioning; nictitating membrane response; cerebellum; long-term depression; metabotropic glutamate receptors; AMPA receptors; neural network
Description This is our re-implementation of the cerebellar model presented in the
following paper:

John C. Fiala, Stephen Grossberg, and Daniel Bullock (1996).
Metabotropic Glutamate Receptor Activation in Cerebellar Purkinje
Cells as Substrate for Adaptive Timing of the Classically
Conditioned Eye-Blink Response.
Journal of Neuroscience 16(1) 3760--3774.

One can set parameters arbitrarily and simulate the network dynamics.

Please notice that this program is independent of the original version
developed by Fiala, Grossberg, and Bullock (1996).

** Files

This folder contains the following files:

readme.txt :: This file

Makefile :: Makefile

mGluR.{cc,h} :: model of mGluR system

Purkinje.{cc,h} :: model Purkinje cell that have many mGluR synapses

main.cc :: main program

p.dat :: Plot of P(t) values (activity of the model Purkinje cell).
Each line represents time (1st col) and the membrane potential (2nd
col), respectively. Lines are separated by double newlines for each
trial of the conditioning.

s.dat :: Plot of the spectra ([Ca^{2+}]_{cyt}). The 1st column
represents time, the 2nd to N+1th columns the values of
[Ca^{2+}]_{cyt} for different B_{max} values, where N = 60
(60 spectra).

p.dat and s.dat files are generated by the program.

** Usage

1. Main loop for conditioning simulation is Purkinje::run(const char
*filename) in Purkinje.cc. CS duration and strength (amount of
glutermate), US onset/offset and # of trials can be set in this
function.
2. Most parameters written in Table 1 (p. 1110) are found in mGluR.cc.
3. make.
4. Run the program.
5. The program generates p.dat and s.dat.

** How to plot data using gnuplot

gnuplot (http://gnuplot.info/) is a data and function plotting utility.
The following command plots the activity of the model Purkinje cell
during the conditioning simulation and replicate Fig.11:

gnuplot> plot 'p.dat' with lines

The activity at the 30 th trial can be plotted by

gnuplot> plot 'p.dat' index 29 with lines

Notice that the index starts from 0.

The following command plots first 3 spectra for different B_max values:

gnuplot> plot 's.dat' using 1:2, 's.dat' using 1:3, 's.dat' using 1:4

** Authors

Takeru Honda and Tadashi Yamazaki

TH: Dept. of Information and Communication Engineering, University of
Electro-communications. TY: Lab. for Motor Learning Control, RIKEN
Brain Science Institute.

** Copyright

Copyright (c) 2007 RIKEN (The Institute of Physical and Chemical
Research) Some rights reversed.

** License

CC-BY

This work is licensed under the Creative Commons Attribution 3.0
License. To view a copy of this license, visit
http://creativecommons.org/licenses/by/3.0/ or send a letter to
Creative Commons, 171 Second Street, Suite 300, San Francisco,
California, 94105, USA.
Last Modified Date Mar 21, 2013 15:44:45
Created Date Mar 16, 2011 14:07:03
Contributor NIJC Administrator (nijcadmin)
Item Type Online Simulation
Change Log(History)
Mar 21, 2013 Modified; Contents URL.
Feb 12, 2012 Modified; Description, Simulator Name.
Mar 24, 2011 Modified; Index.
Mar 23, 2011 Modified; Preview.
Mar 16, 2011 Modified; Simulator, Model site name.
Model Contents URL http://cerebellum.neuroinf.jp/modules/xoonips/detail.php?item_id=370
Hits:0
Model Site Name Cerebellar Platform
Simulator Name Original C program
Simulator Version
Index
/ Public / Title / A-E


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