diff --git a/README.md b/README.md new file mode 100644 index 0000000..315bcc2 --- /dev/null +++ b/README.md @@ -0,0 +1,50 @@ +# Model Code: Ca²⁺ current vs. Ca²⁺ channel cooperativity + +[CalC Download](http://web.njit.edu/%7Ematveev/calc.html) | [CalC Manual](http://web.njit.edu/%7Ematveev/calc/manual.html) | [CalC Scripts](http://web.njit.edu/%7Ematveev/calc/scripts.html) | [CalC Publications](http://web.njit.edu/%7Ematveev/calc/calc_pub.html) | [Victor's Homepage](http://web.njit.edu/%7Ematveev/) + + +The scripts following below reproduce the simulation results presented in the manuscript: + + +Victor V. Matveev, Richard Bertram and Arthur Sherman (2009) +**Ca²⁺ current vs. Ca²⁺ channel cooperativity of exocytosis** +*Journal of Neuroscience*, **29**(39): 12196-12209. +[Abstract](http://www.jneurosci.org/cgi/content/abstract/29/39/12196) | [Full Text](http://www.jneurosci.org/cgi/content/full/29/39/12196) + +---- +♦ [Fig1.par](http://web.njit.edu/%7Ematveev/Scripts/MvsN/Fig1.par) +This CalC script generates the first figure of the manuscript. It requires a single command-line parameter, the total buffer concentration (in μM) (e.g. run `calc Fig1.par 100`). The simulation produces an ASCII data file with five columns: +1. single-channel Ca²⁺ current (varied from 0.001 to 1 pA); +2. maximal release produced by a 1ms-long current pulse; +3. corresponding maximal [Ca²⁺] at release site, 30 nm from channel; +4. maximal volume-averaged [Ca²⁺]; +5. time to peak release after simulation start. + + +♦ [Fig1.m](http://web.njit.edu/%7Ematveev/Scripts/MvsN/Fig1.m) +A MATLAB m-file that generates Figure 1 using data produced by CalC script `Fig1.par` above. + + +♦ [Fig7_8.par](http://web.njit.edu/%7Ematveev/Scripts/MvsN/Fig7_8.par) +This CalC script generates data for Figures 7 and 8 of the manuscript. The simulation produces an ASCII data file used by MATLAB script `Fig7_8.m` below. + + +♦ [Fig7_8.m](http://web.njit.edu/%7Ematveev/Scripts/MvsN/Fig7_8.m) +A MATLAB m-file that generates Figures 7 and 8 using data produced by CalC script `Fig7_8.par` above. + + +♦ [process2D.m](http://web.njit.edu/%7Ematveev/Scripts/MvsN/process2D.m) +A simple MATLAB data parsing script required by MATLAB m-files `Fig1.m` and `Fig7_8.m`. + + +--- + +Supported in part by the **National Science Foundation** grant **DMS 0817703** to Victor Matveev + + +Victor Matveev +This server is running a [Redhat](http://www.redhat.com/) distribution of [Linux](http://www.linux.org/). + +--- +Last modified: January 8, 2010 +Converted README to Markdown: June 2, 2025 diff --git a/index.html b/index.html deleted file mode 100644 index 43f161a..0000000 --- a/index.html +++ /dev/null @@ -1,156 +0,0 @@ - - - - - - - - - -Code for manuscript "Ca<sup>2+</sup> current vs. -Ca<sup>2+</sup> channel cooperativity of exocytosis" (2009) -Matveev Bertram Sherman - - - - - - - - - - - -
Model Code: Ca2+ current vs. Ca2+ channel cooperativity
CalC Download CalC Manual CalC Scripts CalC Publications Victor's Homepage

-
- - - - - - - - - - - - - - - - - - - - - -
- - -The scripts following below reproduce the simulation results presented in the manuscript: -

-
-Victor V. Matveev, Richard Bertram and Arthur Sherman (2009)
-Ca2+ current vs. Ca2+ channel cooperativity of exocytosis
-Journal of Neuroscience, 29(39): 12196-12209. -[ Abstract ] -[ Full Text ] -
-
-
-
-♦ Fig1.par - -This CalC script generates the first figure of the manuscript. It requires a single command-line parameters, the -total buffer concentration (in μM) (e.g. run calc Fig1.par 100). The simulation -produces an ASCII data file with five columns: -(1) single-channel Ca2+ current (varied from 0.001 to 1 pA); -(2) maximal release produced by a 1ms-long -current pulse; -(3) corresponding maximal [Ca2+] at release site, 30 nm from channel; -(4) maximal volume-averaged [Ca2+]; -(5) time to peak release after simulation start. - -

-
-♦ Fig1.m - -A MATLAB m-file that generates Figure 1 using data produced by CalC script Fig1.par above. - -

-
-♦ Fig7_8.par - -This CalC script generates data for Figures 7 and 8 of the manuscript. The simulation -produces an ASCII data file used by MATLAB script Fig7_8.m below. -

-
-♦ Fig7_8.m - -A MATLAB m-file that generates Figures 7 and 8 using data produced by CalC script Fig7_8.par above. - -

-
-♦ process2D.m - -A simple MATLAB data parsing script required by MATLAB m-files and Fig1.m and Fig7_8.m. - -

-
- -
-
-Supported in part by the National Science Foundation grant -DMS 0817703 to Victor Matveev -

- - - - -
- -Victor Matveev - -
- -This server is running a -Redhat distribution of -Linux. -
- - -Last modified: January 8, 2010 - - - - \ No newline at end of file