(* 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 = {
CYCDcdk4[t], CYCDcdk4p27[t], CYCEcdk2p27[t], E2F[t], aCYCEcdk2[t], aCYCEcdk20[t], aCYCEcdk21[t], iCYCEcdk2[t], p27[t], pRB[t], pRBE2F[t]
};

initialValues = {
CYCDcdk4[0] == 0.0, CYCDcdk4p27[0] == 0.0, CYCEcdk2p27[0] == 1.0, E2F[0] == 0.0, aCYCEcdk2[0] == 0.0, aCYCEcdk20[0] == 5.0, aCYCEcdk21[0] == 0.01, iCYCEcdk2[0] == 0.01, p27[0] == 2.0, pRB[0] == 0.05, pRBE2F[0] == 1.95
};

rates = {
v\[LetterSpace]1, v\[LetterSpace]10, v\[LetterSpace]11, v\[LetterSpace]12, v\[LetterSpace]13, v\[LetterSpace]14, v\[LetterSpace]15, v\[LetterSpace]16, v\[LetterSpace]17, v\[LetterSpace]18, v\[LetterSpace]19, v\[LetterSpace]2, v\[LetterSpace]20, v\[LetterSpace]21, v\[LetterSpace]22, v\[LetterSpace]23, v\[LetterSpace]24, v\[LetterSpace]25, v\[LetterSpace]26, v\[LetterSpace]27, v\[LetterSpace]3, v\[LetterSpace]4, v\[LetterSpace]5, v\[LetterSpace]6, v\[LetterSpace]7, v\[LetterSpace]8, v\[LetterSpace]9
};

rateEquations = {
v\[LetterSpace]1 -> k1*aCYCEcdk2[t]*pRBE2F[t] + k1a*CYCDcdk4[t]*pRBE2F[t] + k1aa*CYCDcdk4p27[t]*pRBE2F[t], v\[LetterSpace]10 -> kmin6*CYCDcdk4[t], v\[LetterSpace]11 -> k7, v\[LetterSpace]12 -> k8*aCYCEcdk2[t]*p27[t], v\[LetterSpace]13 -> k9*aCYCEcdk2[t]*p27[t], v\[LetterSpace]14 -> k10*CYCEcdk2p27[t], v\[LetterSpace]15 -> k17*aCYCEcdk20[t]*CYCDcdk4[t], v\[LetterSpace]16 -> k18*E2F[t], v\[LetterSpace]17 -> k19*CYCDcdk4[t]*p27[t], v\[LetterSpace]18 -> k20*CYCDcdk4p27[t], v\[LetterSpace]19 -> k21*aCYCEcdk2[t]^2, v\[LetterSpace]2 -> kmin1*E2F[t]*pRB[t], v\[LetterSpace]20 -> k22*p27[t], v\[LetterSpace]21 -> k23, v\[LetterSpace]22 -> k24*aCYCEcdk20[t], v\[LetterSpace]23 -> k25/(1 + k25a*pRB[t]), v\[LetterSpace]24 -> k26/(1 + k26a*aCYCEcdk20[t]), v\[LetterSpace]25 -> k27, v\[LetterSpace]26 -> k28*pRB[t], v\[LetterSpace]27 -> k29*aCYCEcdk21[t], v\[LetterSpace]3 -> k2*aCYCEcdk2[t]*iCYCEcdk2[t], v\[LetterSpace]4 -> kmin2*aCYCEcdk2[t], v\[LetterSpace]5 -> k3a + k3*E2F[t], v\[LetterSpace]6 -> k4, v\[LetterSpace]7 -> kmin4*E2F[t], v\[LetterSpace]8 -> k5*iCYCEcdk2[t], v\[LetterSpace]9 -> k6
};

parameters = {
k1 -> 0.1, k10 -> 0.035, k17 -> 3.5, k18 -> 1*^-05, k19 -> 0.05, k1a -> 0.5, k1aa -> 0.5, k2 -> 0.1, k20 -> 0.01, k21 -> 0.1, k22 -> 0.001, k23 -> 0.2, k24 -> 0.1, k25 -> 0.01, k25a -> 0.02, k26 -> 0.01, k26a -> 0.1, k27 -> 0.01, k28 -> 0.01, k29 -> 0.001, k3 -> 1.42, k3a -> 0.0, k4 -> 1*^-06, k5 -> 0.02, k6 -> 0.018, k7 -> 1*^-05, k8 -> 2.0, k9 -> 2.0, kmin1 -> 0.001, kmin2 -> 1.0, kmin4 -> 0.016, kmin6 -> 5.0, xvar -> 0.0, default\[LetterSpace]compartment -> 1.0
};

assignments = {

};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
CYCDcdk4'[t] == 1.0*v\[LetterSpace]18 +1.0*v\[LetterSpace]9 -1.0*v\[LetterSpace]10 -1.0*v\[LetterSpace]15 -1.0*v\[LetterSpace]17, CYCDcdk4p27'[t] == 1.0*v\[LetterSpace]17 -1.0*v\[LetterSpace]18, CYCEcdk2p27'[t] == 1.0*v\[LetterSpace]13 -1.0*v\[LetterSpace]14, E2F'[t] == 1.0*v\[LetterSpace]16 +1.0*v\[LetterSpace]6 +1.0*v\[LetterSpace]1 -1.0*v\[LetterSpace]7 -1.0*v\[LetterSpace]2, aCYCEcdk2'[t] == 1.0*v\[LetterSpace]3 +1.0*v\[LetterSpace]14 -1.0*v\[LetterSpace]13 -1.0*v\[LetterSpace]4 -1.0*v\[LetterSpace]19, aCYCEcdk20'[t] == 1.0*v\[LetterSpace]23 +1.0*v\[LetterSpace]21 -1.0*v\[LetterSpace]22 -1.0*v\[LetterSpace]15, aCYCEcdk21'[t] == 1.0*v\[LetterSpace]1 -1.0*v\[LetterSpace]27, iCYCEcdk2'[t] == 1.0*v\[LetterSpace]4 +1.0*v\[LetterSpace]5 -1.0*v\[LetterSpace]3 -1.0*v\[LetterSpace]8, p27'[t] == 1.0*v\[LetterSpace]11 +1.0*v\[LetterSpace]18 +1.0*v\[LetterSpace]14 -1.0*v\[LetterSpace]12 -1.0*v\[LetterSpace]13 -1.0*v\[LetterSpace]20 -1.0*v\[LetterSpace]17, pRB'[t] == 1.0*v\[LetterSpace]24 +1.0*v\[LetterSpace]25 +1.0*v\[LetterSpace]27 -1.0*v\[LetterSpace]2 -1.0*v\[LetterSpace]26, pRBE2F'[t] == 1.0*v\[LetterSpace]2 -1.0*v\[LetterSpace]1
};
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]}]