GitHub - ModelDBRepository/118797: Facilitation model based on bound Ca2+ (Matveev et al. 2006)

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Facilitation model based on bound Ca2+ (Matveev et al. 2006)

modeldb.science/118797

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Name		Name	Last commit message	Last commit date
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BCMscripts_files		BCMscripts_files
demo.BCM.par		demo.BCM.par
ode.BCM.par		ode.BCM.par
pde.BCM.par		pde.BCM.par
readme.html		readme.html
readme.html~		readme.html~

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<html><head>
  <script language="JavaScript" type="text/javascript" src="BCMscripts_files/calc"></script>
 
  <meta name="Author" content="Victor Matveev">
  <meta name="description" content="Calcium Calculator example script files">
  <meta name="Keywords" content="Calcium Calculator, scripts, CalC, download, calcium diffusion, calcium buffering">
  <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1"><title>Example Script Files for the "Calcium Calculator" Simulator</title> 



<link rel="STYLESHEET" type="text/css" href="BCMscripts_files/victor.css">

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</style>

<!-- base href="http://web.njit.edu/~matveev/calc/examples/Bound_Calcium_Model/" --><!-- ===============================================================================
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<script language="JavaScript" type="text/javascript">
makeTitle("Calcium Calculator Simulation Script Files");
</script></head>


<body>
<h3>Note from the ModelDB Administrator: the below is a snapshot of the 
<a href="http://web.njit.edu/~matveev/calc/BCMscripts.html">authors web site</a> on April 10th, 2009.</h3><hr/>

<table width="620"><tbody><tr><td class="title" colspan="5" height="33" width="100%">Calcium Calculator Simulation Script Files</td></tr><tr><td class="TCALC"><a class="TMENU" href="http://web.njit.edu/%7Ematveev/calc.html" target="_self">CalC Download</a></td> <td class="TCALC"><a class="TMENU" href="http://web.njit.edu/%7Ematveev/calc/manual.html" target="_self">CalC Manual</a></td> <td class="TCALC"><a class="TMENU" href="http://web.njit.edu/%7Ematveev/calc/scripts.html" target="_self">CalC Scripts</a></td> <td class="TCALC"><a class="TMENU" href="http://web.njit.edu/%7Ematveev/calc/calc_pub.html" target="_self">CalC Publications</a></td> <td class="TMENU"><a class="TMENU" href="http://web.njit.edu/%7Ematveev/" target="_top">Victor's Homepage</a></td> </tr></tbody></table><br>
<br>


<!-- b><font color=maroon>[[ Under Construction ]]</font></b><br><br -->

<!--font color=maroon>Under construction</font><br><br><br-->

The scripts following below reproduce the simulation results presented
in the manuscript:<br><br>

<table border="1" cellpadding="3"><tbody><tr><td class="COLOR">
<a href="http://web.njit.edu/%7Ematveev/" target="_top">V. Matveev</a>,
<a href="http://www.math.fsu.edu/%7Ebertram/" target="_top">R. Bertram</a>,
<a href="http://mrb.niddk.nih.gov/sherman/" target="_top">A. Sherman</a> (2006) <br>
<b>Residual Bound Ca<sup>2+</sup> Can Account for the Effects of Ca<sup>2+</sup> Buffers on Synaptic Facilitation
</b><br>
Journal of Neurophysiology, <b>96</b>: 3389-3397.
<a href="http://jn.physiology.org/cgi/content/abstract/00101.2006v1">[ Abstract ]</a>
<a href="http://jn.physiology.org/cgi/reprint/00101.2006v1">[ Full Text ]</a>
<a href="http://web.njit.edu/%7Ematveev/documents/MatveevBertramSherman.pdf">[ PDF ]</a><br>
</td></tr></tbody></table>
<br>

The comments in these script files 
provide a detailed step-by-step 
description of the simulations.

<br><br><hr><br>

<!-- ===============================================================================
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<table cellpadding="2" width="700">

<tbody><tr><td valign="top">
<font color="red">&#9830;</font>&nbsp;<a href="http://web.njit.edu/%7Ematveev/calc/examples/Bound_Calcium_Model/ode.BCM.par" class="SCRIPT">ode.BCM.par</a>
</td><td>
This script file contains all ODE definitions (implementation of Eqs. 6-9). Place it in the same
directory with the files below before running the infividual figure scripts.
<br><br>
</td></tr>

<tr><td valign="top">
<font color="red">&#9830;</font>&nbsp;<a href="http://web.njit.edu/%7Ematveev/calc/examples/Bound_Calcium_Model/pde.BCM.par" class="SCRIPT">pde.BCM.par</a>
</td><td>
This script file contains all PDE definitions (implementation of Eqs. 2-5). Place it in the same
directory with the files below before running the infividual figure scripts.
<br><br>
</td></tr>

<tr><td valign="top">
<font color="red">&#9830;</font>&nbsp;<a href="http://web.njit.edu/%7Ematveev/calc/examples/Bound_Calcium_Model/demo.BCM.par" class="SCRIPT">demo.BCM.par</a>
</td><td>
reproduces Figures 2 and 3 of the manuscript. Use fura-2 concentration as command-line parameter.
Execute <code>calc demo.BCM.par 0</code> to reproduce Fig. 2 and control data in Fig. 3.
Execute <code>calc demo.BCM.par 400</code> to reproduce fura-2 data in Fig. 3.

<br><br>
</td></tr>

</tbody></table>

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<address>
<small>
<a href="http://web.njit.edu/%7Ematveev" target="_top">Victor Matveev</a>
</small>
</address>
<small>
This server is running a 
<a href="http://www.redhat.com/" target="_top">Redhat</a> distribution of 
<a href="http://www.linux.org/" target="_top">Linux</a>.
<br>
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Last modified: Oct 14, 2006
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