GitHub - ModelDBRepository/122329: Model of SK current's influence on precision in Globus Pallidus Neurons (Deister et al. 2009)

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Model of SK current's influence on precision in Globus Pallidus Neurons (Deister et al. 2009)

modeldb.science/122329

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Name		Name	Last commit message	Last commit date
Latest commit History 4 Commits
Grab1.jpg		Grab1.jpg
Grab2.jpg		Grab2.jpg
avail.ses		avail.ses
availNoTrans.ses		availNoTrans.ses
ca_gp.mod		ca_gp.mod
cap_gp.mod		cap_gp.mod
hcn12_gp.mod		hcn12_gp.mod
hcn2_gp.mod		hcn2_gp.mod
kcnq_gp.mod		kcnq_gp.mod
kv1_gp.mod		kv1_gp.mod
kv2_gp.mod		kv2_gp.mod
kv3_gp.mod		kv3_gp.mod
kv4_gp.mod		kv4_gp.mod
leak_gp.mod		leak_gp.mod
mosinit.hoc		mosinit.hoc
na1_gp.mod		na1_gp.mod
na6_gp.mod		na6_gp.mod
noSKsoma.hoc		noSKsoma.hoc
readme.html		readme.html
sk_gp.mod		sk_gp.mod
syn.mod		syn.mod
withSKsoma.hoc		withSKsoma.hoc

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<html><pre>
This is the readme for the model associated with the paper

Deister CA, Chan CS, Surmeier J, Wilson CJ (2009)
Calcium-Activated SK Channels Influence Voltage-Gated Ion Channels to
Determine the Precision of Firing in Globus Pallidus Neurons
J. Neurosci. 29:8452-8461

Notes:

To recreate the simulations found in Figures 7A and 7B of the paper
please load either withSKsoma.hoc or noSKsoma.hoc, depending on the
condition of interest. This will automatically load a session that
will give you a plot of voltage against time on the left and a plot of
the availabilities of the Na+ and K+ channels against voltage on the
right.  If you do this for the withSKsoma.hoc you will see a set of
graphs that should look like the following:

<img src="Grab1.jpg" alt="Grab1.jpg">

Please note that up to the first 5 seconds of the simulation have a
subtle slow transient, which may affect your ability to recreate the
plot precisely. In our paper, we ran the simulations for 10 seconds
and discarded the first 5 seconds. Figure 7 in the paper shows the
last second of simulated activity.

I have tried to make things easy to obtain a set of graphs that is
free of transients and more closely mirrors the paper (random numbers
are involved so it will not be exact).  To do this load the file as
outlined before and close all graphs, then click "init" in the
RunControl, then set, in the RunControl dialog, "Continue til" to 8000
ms (should already be done for you) and then click that button. Once
the simulation timer "t" reaches 8000 you can then load
"availNoTrans.ses" by choosing load session from the File menu and
then click in the RunControl "Continue for (ms)," which should be set
to 1000. If you do this for the noSKsoma.hoc file, you should end up
with a set of graphs that looks like the following: 

<img src="Grab2.jpg" alt="Grab2.jpg">


Please email any questions to [email protected].

Mod files, with the exception of syn.mod were originally from Mercer
et al. (2007) J Neurosci 27: 13552-13566 and at:
http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=105385
syn.mod was adapted from a file published by A. Destexhe at
http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=64259 and is
further commented in the file. 

Thanks
Chris Deister
http://marlin.life.utsa.edu/~chris

20101021 ModelDB Adminsitrator: The syn.mod file was updated by fixes
provided by Ted Carnevale.  See syn.mod and the hg repository for more
details.  These bugs did not significantly change the behavior of the
model.


<b> Changelog </b>

<ul>
  <li>20220924: Update MOD files to avoid declaring variables and functions with the same name. See https://github.com/neuronsimulator/nrn/pull/1992</li>
</ul>


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