%********************************************************************************** % % CalC version 4.9.8, script "FCT_Fig9.par" % Victor Matveev, January 19, 2004 % % "Facilitation through Buffer Saturation: % Constraints on Endogenous Buffering Properties" % V. Matveev, A. Sherman and R. Zucker % Biophys. J. (2004) 86:2691-2709 % % This script produces the data for the parameter-sweep plots in Fig. 9A. It is % based on the "FCT_Fig5.par", corresponding to the mobile buffer case, and requires % a command-line parameter specifying the buffering capacity (kappa0). To reproduce % Fig. 9A, execute % % calc FCT_Fig9.par 500 % % the resulting file will be called "FCT_vs_Btotal_and_kon_fixed500", and will consist % of 8 data columns, in the format "Btotal kon P1at1 P5at1 P1at2 P5at2 P1at3 P5at3", % where "P1ati" and "P5ati" are the sizes of the 1st and 5th [Ca2+] transients at % site "i". Then start gnuplot, and type % % splot 'FCT_vs_Btotal_and_kon_fixed500' u 1:2:($6/$5) w lines % % This will make a surface plot of the ratio of the 6th and 5st columns, equal to % the P5/P1 value at site "2". %================================================================================== % % See Fig. 5 for the explanation of the setting below: Buffer.D = 0.0 % Immobile buffer kmin = 0.025 % The binding rate will vary from 0.025/(uM ms) kmax = 0.5 % to 0.5/(uM ms) dK = 0.025 % with steps of 0.025/(uM ms) BTmin = 1000 % The buffer concentration will be varied from 1 mM BTmax = 22000 % to 22 mM, with steps of 1 mM (22 steps total) dB = 1000 % Name of the output file (see FCT_Fig5.par): outfile = "FCT_vs_Btotal_and_kon_fixed" kappa % Apart from the presence of a second buffer, the simulations are equivalent to % the ones contained in "FCT_Fig5.par" path = "" % If running under Windows, specify here the path to the % directory containing the script imported below fname = path "FCT_Fig5.par" include fname % Import the simulation parameters from the main script, % which defines everything but the buffer's parameters: %==================================================================================