(* Generated by JWS Online *)

(* This is an experimental feature of JWS Online. Please report any mistakes.*)

(* Note that the following notable SBML entities or features are not supported in notebook outputyet: *)
    (* Events *)
    (* Constraints *)
    (* Units and UnitDefinitions *)
    (* AlgebraicRules *)
    (* conversionFactors *)

variables = {
DUSP[t], cFOS[t], cFOSm[t], cFOSp[t], pRSKn[t], pcFOS[t], ppERKn[t], x1[t], x2[t]
};

initialValues = {
DUSP[0] == 0.0, cFOS[0] == 0.0, cFOSm[0] == 0.0, cFOSp[0] == 0.0, pRSKn[0] == 0.0, pcFOS[0] == 0.0, ppERKn[0] == 0.0, x1[0] == 0.0, x2[0] == 0.0
};

rates = {
reaction\[LetterSpace]1, reaction\[LetterSpace]2, reaction\[LetterSpace]3, reaction\[LetterSpace]4, reaction\[LetterSpace]5, reaction\[LetterSpace]6, reaction\[LetterSpace]7, reaction\[LetterSpace]8, reaction\[LetterSpace]9
};

rateEquations = {
reaction\[LetterSpace]1 -> compartment*((K1*L)/tau1 - x1[t]/tau1), reaction\[LetterSpace]2 -> compartment*((K2*L)/tau2 - x2[t]/tau2), reaction\[LetterSpace]3 -> compartment*(ppERKc*reaction\[LetterSpace]3\[LetterSpace]k1 - reaction\[LetterSpace]3\[LetterSpace]k2*ppERKn[t] - reaction\[LetterSpace]3\[LetterSpace]k3*DUSP[t]*ppERKn[t]), reaction\[LetterSpace]4 -> compartment*reaction\[LetterSpace]4\[LetterSpace]k*ppERKn[t], reaction\[LetterSpace]5 -> compartment*(reaction\[LetterSpace]5\[LetterSpace]k4*ppERKn[t] - reaction\[LetterSpace]5\[LetterSpace]k5*pRSKn[t]), reaction\[LetterSpace]6 -> compartment*(-(k7*cFOSp[t]) + (ppERKn[t]*pRSKn[t])^reaction\[LetterSpace]6\[LetterSpace]n/(reaction\[LetterSpace]6\[LetterSpace]k6^reaction\[LetterSpace]6\[LetterSpace]n + (ppERKn[t]*pRSKn[t])^reaction\[LetterSpace]6\[LetterSpace]n)), reaction\[LetterSpace]7 -> compartment*(-(reaction\[LetterSpace]7\[LetterSpace]k8*cFOSm[t]) + k7*cFOSp[t]), reaction\[LetterSpace]8 -> compartment*(-(k11*ppERKc*cFOS[t]) - reaction\[LetterSpace]8\[LetterSpace]k10*cFOS[t] + reaction\[LetterSpace]8\[LetterSpace]k9*cFOSm[t] + k13*pcFOS[t]), reaction\[LetterSpace]9 -> compartment*(k11*ppERKc*cFOS[t] - k13*pcFOS[t] - reaction\[LetterSpace]9\[LetterSpace]k12*pcFOS[t])
};

parameters = {
K1 -> 1.09, K2 -> 2.89, L -> 1.0, k11 -> 0.11, k13 -> 0.06, k7 -> 0.5, tau1 -> 3.07, tau2 -> 472.0, reaction\[LetterSpace]3\[LetterSpace]k1 -> 15.0, reaction\[LetterSpace]3\[LetterSpace]k2 -> 50.0, reaction\[LetterSpace]3\[LetterSpace]k3 -> 14.0, reaction\[LetterSpace]4\[LetterSpace]k -> 1.0, reaction\[LetterSpace]5\[LetterSpace]k4 -> 0.1, reaction\[LetterSpace]5\[LetterSpace]k5 -> 0.15, reaction\[LetterSpace]6\[LetterSpace]k6 -> 0.13, reaction\[LetterSpace]6\[LetterSpace]n -> 1.1, reaction\[LetterSpace]7\[LetterSpace]k8 -> 0.08, reaction\[LetterSpace]8\[LetterSpace]k10 -> 0.3, reaction\[LetterSpace]8\[LetterSpace]k9 -> 0.3, reaction\[LetterSpace]9\[LetterSpace]k12 -> 0.001, compartment -> 1.0
};

assignments = {
ppERKc -> x1[t] - x2[t]
};

events = {

};

speciesAnnotations = {
pRSKn[t]->"http://identifiers.org/reactome/REACT\[LetterSpace]13229.1"
};

reactionAnnotations = {

};

units = {
{"time" -> "", "metabolite" -> "", "extent" -> ""}
};

(* Time evolution *)
odes = {
DUSP'[t] == 1.0*reaction\[LetterSpace]4 , cFOS'[t] == 1.0*reaction\[LetterSpace]8 , cFOSm'[t] == 1.0*reaction\[LetterSpace]7 , cFOSp'[t] == 1.0*reaction\[LetterSpace]6 , pRSKn'[t] == 1.0*reaction\[LetterSpace]5 , pcFOS'[t] == 1.0*reaction\[LetterSpace]9 , ppERKn'[t] == 1.0*reaction\[LetterSpace]3 , x1'[t] == 1.0*reaction\[LetterSpace]1 , x2'[t] == 1.0*reaction\[LetterSpace]2 
};
timeCourse = NDSolve[Join[odes, initialValues]//.rateEquations//.assignments//.parameters, variables, {t, 0, 100}];

(* Steady-state solution initialized with result of time evolution *)
findRootEquations = odes /.D[_[t],t]->0;
findRootVariables = Partition[Flatten[{#, #/.timeCourse/.t->100} &/@variables],2];
steadyStateVariables = FindRoot[findRootEquations//.rateEquations//.assignments//.parameters, findRootVariables, MaxIterations->100]
fluxes = #//.assignments//.parameters/.steadyStateVariables&/@rateEquations

(* Plot the time evolution of the variables *)
plotTable=Table[Plot[variables[[i]]/.parameters/.timeCourse,{t,0,100},PlotLegends->variables[[i]],PlotRange->Full],{i,Length[variables]}]