NEURON TUTORIAL FOR IMPLEMENTING SIMULATIONS OF THALAMIC OSCILLATIONS
Alain Destexhe
Laboratory for Computational Neuroscience
Unité de Neurosciences Intégratives et Computationnelles (UNIC)
Centre National de la Recherche Scientifique (CNRS)
91198 Gif-sur-Yvette, France
Formerly from (when this work was created):
Department of Physiology, Laval University,
Quebec G1K 7P4, Canada
Destexhe@iaf.cnrs-gif.fr
http://cns.iaf.cnrs-gif.fr/Main.html
This package is running with the NEURON simulation program written by Michael
Hines and available on internet at:
http://www.neuron.yale.edu/neuron/
http://neuron.duke.edu/
The package contains mechanisms (.mod files) and programs (.oc files) needed
to simulate interconnected thalamocortical (TC) and thalamic reticular (RE)
cells, relative to the paper:
Destexhe, A., Bal, T., McCormick, D.A. and Sejnowski, T.J.
Ionic mechanisms underlying synchronized oscillations and propagating
waves in a model of ferret thalamic slices. Journal of Neurophysiology
76: 2049-2070, 1996.
A postscript version of this paper, including figures, is available on
internet at
http://cns.iaf.cnrs-gif.fr/Main.html
PROGRAMS
========
Fspin.oc : spindle oscillations (short run)
see Fig. 7 of the paper
FspinL.oc : spindle oscillations (long run)
see Fig. 7 of the paper
Fbic.oc : bicuculline-induced oscillations (short run)
see Fig. 8 of the paper
FbicL.oc : bicuculline-induced oscillations (long run)
see Fig. 8 of the paper
Fdelta.oc : delta oscillations (short run)
FdeltaL.oc : delta oscillations (long run)
MECHANISMS
==========
HH2.mod : fast sodium spikes (Na and K currents)
IT.mod : T-current for TC cell
IT2.mod : T-current for RE cell (different kinetics and v-dep)
Ih.mod : h-current for TC cell, including upregulation
by intracellular calcium
cadecay.mod : intracellular calcium dynamics
kleak.mod : leak K+ current (TC cell)
ampa.mod : AMPA-mediated synaptic currents
gabaa.mod : GABA_A-mediated synaptic currents
gabab.mod : GABA_B-mediated synaptic currents
HOW TO RUN
==========
Use autolaunch on modeldb or:
unix platform:
To compile the demo, NEURON and INTERVIEWS must be installed and working on
the machine you are using. Just type "nrnivmodl" to compile the mechanisms
given in the mod files.
Then, execute the main demo program by typing:
nrngui mosinit.hoc
mswin platform:
Compile the mechanism (mod) files by using mknrndll. Then start the simulation
by clicking on mosinit.hoc in windows explorer.
back to any platform:
Once the menu and graphics interface has appeared, select a simulation from the
"Simulations of thalamic oscillations" window. Then click on "Init and Run"
button to start the simulation...
For more information about how to get NEURON and how to install it, please
refer to the following sites:
http://neuron.duke.edu/
http://www.neuron.yale.edu/
For further information, please contact:
Alain Destexhe
Laboratory for Computational Neuroscience
Unité de Neurosciences Intégratives et Computationnelles (UNIC)
Centre National de la Recherche Scientifique (CNRS)
91198 Gif-sur-Yvette, France
Destexhe@iaf.cnrs-gif.fr
http://cns.iaf.cnrs-gif.fr/Main.html
7/11/2005 Additional modifications to restart by first closing other simulation
windows and also updating README contact information.
2/14/2001 Michael Hines trivially modified some of the hoc files
to use the more flexible load_file in place of certain xopen statements,
ensure that the current version of the standard gui library comes
up first, and arrange graphs on the screen.
Not yet:
He also updated the mod files to be compatible with cvode and
make use of internal compuations of ionic reversal potential. This
version is quantitatively identical to the original.
10-2007: AD, better synaptic mechanisms using counters; added delta
oscillations.
20120106 updated mod files IT.mod IT2.mod cadecay.mod gabab.mod SOLVE
methods as suggested in web page
http://www.neuron.yale.edu/phpbb/viewtopic.php?f=28&t=592
| 
