(* 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 = {
TFPI[t], VIIa\[LetterSpace]TF[t], VIIa\[LetterSpace]TF\[LetterSpace]X[t], VIIa\[LetterSpace]TF\[LetterSpace]Xa[t], X[t], Xa[t], Xa\[LetterSpace]TFPI[t], Xa\[LetterSpace]TFPI\[LetterSpace]VIIa\[LetterSpace]TF[t]
};

initialValues = {
TFPI[0] == 2.399999, VIIa\[LetterSpace]TF[0] == 0.9999997, VIIa\[LetterSpace]TF\[LetterSpace]X[0] == 0.0, VIIa\[LetterSpace]TF\[LetterSpace]Xa[0] == 0.0, X[0] == 169.9999, Xa[0] == 0.0, Xa\[LetterSpace]TFPI[0] == 0.0, Xa\[LetterSpace]TFPI\[LetterSpace]VIIa\[LetterSpace]TF[0] == 0.0
};

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

rateEquations = {
reaction\[LetterSpace]1 -> compartment*(-(reaction\[LetterSpace]1\[LetterSpace]k2*VIIa\[LetterSpace]TF\[LetterSpace]X[t]) + reaction\[LetterSpace]1\[LetterSpace]k1*VIIa\[LetterSpace]TF[t]*X[t]), reaction\[LetterSpace]2 -> compartment*reaction\[LetterSpace]2\[LetterSpace]k1*VIIa\[LetterSpace]TF\[LetterSpace]X[t], reaction\[LetterSpace]3 -> compartment*(reaction\[LetterSpace]3\[LetterSpace]k1*VIIa\[LetterSpace]TF\[LetterSpace]Xa[t] - reaction\[LetterSpace]3\[LetterSpace]k2*VIIa\[LetterSpace]TF[t]*Xa[t]), reaction\[LetterSpace]4 -> compartment*(reaction\[LetterSpace]4\[LetterSpace]k1*TFPI[t]*Xa[t] - reaction\[LetterSpace]4\[LetterSpace]k2*Xa\[LetterSpace]TFPI[t]), reaction\[LetterSpace]5 -> compartment*(reaction\[LetterSpace]5\[LetterSpace]k1*VIIa\[LetterSpace]TF[t]*Xa\[LetterSpace]TFPI[t] - reaction\[LetterSpace]5\[LetterSpace]k2*Xa\[LetterSpace]TFPI\[LetterSpace]VIIa\[LetterSpace]TF[t])
};

parameters = {
reaction\[LetterSpace]1\[LetterSpace]k1 -> 5.0, reaction\[LetterSpace]1\[LetterSpace]k2 -> 770.0, reaction\[LetterSpace]2\[LetterSpace]k1 -> 420.0, reaction\[LetterSpace]3\[LetterSpace]k1 -> 770.0, reaction\[LetterSpace]3\[LetterSpace]k2 -> 5.0, reaction\[LetterSpace]4\[LetterSpace]k1 -> 0.054, reaction\[LetterSpace]4\[LetterSpace]k2 -> 0.02, reaction\[LetterSpace]5\[LetterSpace]k1 -> 0.44, reaction\[LetterSpace]5\[LetterSpace]k2 -> 0.066, compartment -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {
TFPI[t]->"http://identifiers.org/uniprot/P10646", X[t]->"http://identifiers.org/uniprot/P00742", Xa[t]->"http://identifiers.org/uniprot/P00742"
};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
TFPI'[t] ==  -1.0*reaction\[LetterSpace]4, VIIa\[LetterSpace]TF'[t] == 1.0*reaction\[LetterSpace]3 -1.0*reaction\[LetterSpace]1 -1.0*reaction\[LetterSpace]5, VIIa\[LetterSpace]TF\[LetterSpace]X'[t] == 1.0*reaction\[LetterSpace]1 -1.0*reaction\[LetterSpace]2, VIIa\[LetterSpace]TF\[LetterSpace]Xa'[t] == 1.0*reaction\[LetterSpace]2 -1.0*reaction\[LetterSpace]3, X'[t] ==  -1.0*reaction\[LetterSpace]1, Xa'[t] == 1.0*reaction\[LetterSpace]3 -1.0*reaction\[LetterSpace]4, Xa\[LetterSpace]TFPI'[t] == 1.0*reaction\[LetterSpace]4 -1.0*reaction\[LetterSpace]5, Xa\[LetterSpace]TFPI\[LetterSpace]VIIa\[LetterSpace]TF'[t] == 1.0*reaction\[LetterSpace]5 
};
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]}]