Differential modulation of pattern and rate in a dopamine neuron model (Canavier and Landry 2006)

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Accession:84612
"A stylized, symmetric, compartmental model of a dopamine neuron in vivo shows how rate and pattern can be modulated either concurrently or differentially. If two or more parameters in the model are varied concurrently, the baseline firing rate and the extent of bursting become decorrelated, which provides an explanation for the lack of a tight correlation in vivo and is consistent with some independence of the mechanisms that generate baseline firing rates versus bursting. ..." See paper for more and details.
Reference:
1 . Canavier CC, Landry RS (2006) An increase in AMPA and a decrease in SK conductance increase burst firing by different mechanisms in a model of a dopamine neuron in vivo. J Neurophysiol 96:2549-63 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Electrogenic pump;
Brain Region(s)/Organism:
Cell Type(s): Substantia nigra pars compacta dopaminergic cell;
Channel(s): I L high threshold; I N; I T low threshold; I A; I K; I K,Ca; I Sodium; I Calcium; Na/K pump;
Gap Junctions:
Receptor(s): AMPA; NMDA; Gaba;
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Activity Patterns; Bursting; Detailed Neuronal Models; Intrinsic plasticity; Calcium dynamics; Sodium pump;
Implementer(s): Kuznetsova, Anna [anna.kuznetsova at utsa.edu];
Search NeuronDB for information about:  Substantia nigra pars compacta dopaminergic cell; AMPA; NMDA; Gaba; I L high threshold; I N; I T low threshold; I A; I K; I K,Ca; I Sodium; I Calcium; Na/K pump;
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CanavierLandry2006
in_vitro
README
ampasyn.mod *
cabalan.mod *
cachan.mod *
capump.mod *
hh3.mod *
kca.mod *
leak.mod *
nabalan.mod *
nmdasyn.mod *
pump.mod *
stim.mod *
fig10a.hoc
fig10a.ses
fig10AMPA.dat
fig10b.hoc
fig10b.ses
fig10c.hoc
fig10c.ses
fig10NMDA.dat
fig11b1.hoc
fig11b1.ses
fig11b2.hoc
fig11b2.ses
fig4b1.hoc
fig4b1.ses
fig4b2.hoc
fig4b2.ses
fig4b3.hoc
fig4b3.ses
fig4bAMPA.dat
fig4bNMDA.dat
fig5a.hoc
fig5a.ses
fig5AMPA.dat
fig5b.hoc
fig5b.ses
fig5NMDA.dat
fig9a1.hoc
fig9a1.ses
fig9a2.hoc
fig9a2.ses
fig9a3.hoc
fig9a3.ses
fig9aAMPA.dat
fig9aNMDA.dat
fig9b1.hoc
fig9b1.ses
fig9b2.hoc
fig9b2.ses
fig9b3.hoc
fig9b3.ses
fig9bAMPA.dat
fig9bNMDA.dat
mosinit.hoc
Receptor.cpp
                            
Simulations that illustrate the firing pattern of a simulated dopamine
neuron in vitro and in vivo. These simulations are related to the
following paper:

Canavier C.C. and Landry R.S. (2006) An increase in AMPA and a
decrease in SK conductance increase burst firing by different
mechanisms in a model of a dopamine neuron in vivo. J Neurophysiol
96(5):2549-63.

  
Example In Vivo Simulations 

------------------------------------- 

In these simulations, the file Receptor.cpp generates a random set of
Poisson-distributed events, and convolves the resultant pulse train
with the explicit solution to a differential equation that is a rising
exponential for the one ms that transmitter is postulated to reside in
the synaptic cleft, and a falling exponential thereafter. The
resultant .dat files are provided with each simulation. For example,
the files fig4bAMPA.dat and fig4bNMDA.dat drive the AMPA conductance
and NMDA permeability respectively for Fig.4B.

Note that the compiled mechanisms are different for nmda and ampa than
in the in vitro case because they are no longer constant, but rather
driven by the input files described above. You can run the simulation
either by auto-launching from ModelDB, or by first compiling the
mechanisms as follows:

Under linux: ---

nrnivmodl

Then type 

nrngui mosinit.hoc

Under Windows: ---

Run mknrndll twice to compile the mod files in the top level directory
and then in the in_vitro directory.  Then double click on the
mosinit.hoc file to start the in vivo simulations or on the fig4a.hoc
to start the in vitro simulations.

Under MAC - OS X: ---

Drag and drop the archive file on the mknrndll icon (in the NEURON
application folder).  Drag and drop the mosinit.hoc file onto the
nrngui icon.

---
Now that you have started the model on your platform:
Select a figure from the buttons and then press Init & Run.

Alternatively, if desired you can run the figures directly by running
commands under linux (with your path set appropriately):

special fig4b1.hoc - 

Once the menu and graphics interface has appeared, click on the "Init
and run" button to start the simulation.

Follow the same instructions for the rest of the in vivo files:
fig4b2.hoc, fig4b3.hoc, fig5a.hoc, fig5b.hoc, fig9a1.hoc - fig9a3.hoc,
fig9b1.hoc - fig9b3, fig10a.hoc - fig10c.hoc, fig11b1.hoc, and
fig11b2.hoc.

Note: two flags in the hoc files may be useful to the experienced
user.  restart = 1 restarts from the initial conditions, whereas
restart = 0 does not, back = 0 uses the GUI, whereas back = 1 sends
the output to stdout.


Example In Vitro Simulation

------------------------------------- 

These files simulates the bath application of glutamate in a slice
preparation such that the synaptic conductances reflect a constant,
average level of activation

You can run the simulation by first compiling the mechanisms as
follows:

In linux: ---

cd in_vitro
nrnivmodl
nrngui fig4a.hoc

In windows: ---

Use mknrndll, change to the in_vitro, and make the nrnmech.dll there.
Double click the fig4a.hoc file.

In MAC - OS X: ---

Drag and drop the in_vitro folder onto the mknrndll icon in the NEURON
application folder.  Drag and drop the fig4a.hoc file onto the nrngui
icon.

---
Now that the in vitro model is running:

Select a figure from the radio buttons.  Once the menu and graphics
interface has appeared, click on the "Init and run" button to start
the simulation.

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