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Facilitation model based on bound Ca2+ (Matveev et al. 2006)
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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"> <style type="text/css"> A.SCRIPT:link {font-family:sans-serif; text-decoration:none; font-size:8pt; font-style:bold; color:red; } A.SCRIPT:visited {font-family:sans-serif; text-decoration:none; font-size:8pt; font-style:bold; color: maroon; } A.SCRIPT:active {font-family:sans-serif; text-decoration:none; font-size:8pt; font-style:bold; color: magenta; } A.SCRIPT:hover {font-family:sans-serif; text-decoration:underline; font-size:8pt; font-style:bold; color: magenta; } CODE {font-size:8pt; color:#550055;} TD.color {font-size:8pt; color:#000000; font-family:sans-serif; background-color:#F0F0F0; padding:6pt; } BODY {font-size:8pt; font-family:sans-serif; } TD {font-size:8pt; font-family:sans-serif; } SUP {font-size:6pt; font-family:sans-serif; } SUB {font-size:6pt; font-family:sans-serif; } /* BODY {font-size:small; font-family:sans-serif; } */ H4 {color: darkred; } /* UL {font-size:small;} */ /* LI {font-size:small;} */ </style> <!-- base href="http://web.njit.edu/~matveev/calc/examples/Bound_Calcium_Model/" --><!-- =============================================================================== B O D Y =============================================================================== --> <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> <!-- =============================================================================== MAIN TABLE =============================================================================== --> <table cellpadding="2" width="700"> <tbody><tr><td valign="top"> <font color="red">♦</font> <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">♦</font> <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">♦</font> <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> <!-- =============================================================================== --> <!-- =============================================================================== --> <!-- table cellpadding=3><tr><td bgcolor="#E0FFEA"> <a href="../scripts.html">[ Back to Scripts ]</a> </td></tr></table --> <hr> <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> <!-- Created: Sun Apr 12 18:25:17 EDT 1998 --> <!-- hhmts start --> Last modified: Oct 14, 2006 <!-- hhmts end --> </small> </body></html>
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