tutorial of thalamic oscillations on the NEURON simulator

Alain Destexhe alain at SALK.EDU
Fri Aug 5 12:49:25 EST 1994


Demo Package for Simulations of Thalamic Networks with NEURON
-------------------------------------------------------------

              Alain Destexhe and Terrence Sejnowski

      The Howard Hughes Medical Institute and The Salk Institute,
              Computational Neurobiology Laboratory, 
        10010 North Torrey Pines Road, La Jolla, CA 92037, USA

               electronic address: alain at salk.edu


This package should be useful for anybody interested in the cellular
mechanisms of synchronized oscillations in networks of inhibitory
neurons, such as the thalamic reticular nucleus.  It should be useful
also for anybody interested in starting simulations of networks using the
NEURON simulator.

The thalamic reticular nucleus can be considered as essentially made of a
homogeneous population of inhibitory neurons; its role in the genesis of
sleep oscillations, its electrophysiological properties and the
underlying ionic and synaptic currents have been extensively
characterized by voltage-clamp and current-clamp experiments; its
anatomical structure is also relatively simple.  Taken together, these
properties makes the thalamic reticular nucleus a nice system for
building realistic models.

Here we make available a package comprising

1. a postscript copy of a paper in press in J. Neurophysiology

2. NEURON files that generated the figures of this paper

3. movie files (mpeg) showing the propagating wave activity of the network


All biological details about the ionic currents, synaptic interactions,
and the topology of connections in the network, are described in detail
in the paper (Destexhe et al., 1994).



The package is available by anonymous ftp to salk.edu, in the directory
/pub/alain

The files contained in the package are:

1. isolRE.ps.Z: postscript copy of the J. Neurophysiol. paper in which
   the simulations are described (Destexhe et al., 1994).  This article is
   useful as a guide to understand the simulations because all equations,
   geometries, parameters, etc, are explained in detail.  This article also
   focuses on the biological motivations of the model.

2. demo_network.tar contains all the files needed to run the simulations
   using the Interviews version of NEURON.  These files are commented and
   should run straighforwardly, provided the NEURON simulator is installed
   properly (see instructions in README_NETWORKS).

3. re100.mpg, re400.mpg, re400_spiral.mpg, re1600.mpg:  set of movies, or 
   animations, which illustrates the propagation of waves of activity in 
   the network.  These movies are a good complement to the snapshots of 
   activity illustrated in the paper.




There are also other files available (see the README document).



WARNING: The simulations presented here have been tested on different
machnines and in principle should run straightforwardly provided the
Interviews version of NEURON is installed properly.  The NEURON simulator is
publically available on internet via anonymous ftp from
neuron.neuro.duke.edu:/neuron.  For more informations about how to get NEURON
and how to install it, please refer to Michael Hines directly
(hines at ctan.yale.edu).



Reference

Destexhe, A., Contreras, D., Sejnowski, T.J.  and Steriade, M.  A model
of spindle rhythmicity in the isolated thalamic reticular nucleus.
Journal of Neurophysiology 72: 803-818, 1994.




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