//Created by libAntimony v2.4 model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__environment(time_) // Variable initializations: time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc13_Cdc2(Cdc13_Cdc2, kwee, ki, kcdc25, kir, k2, k4, mass, Cdc13_P_Cdc2, Rum1_Cdc13_Cdc2, Rum1, time_) // Rate Rules: Cdc13_Cdc2' = (k1 * mass + kcdc25 * Cdc13_P_Cdc2 + Rum1_Cdc13_Cdc2 * (kir + k4)) - (kwee * Cdc13_Cdc2 + ki * Cdc13_Cdc2 * Rum1 + k2 * Cdc13_Cdc2); // Variable initializations: Cdc13_Cdc2 = 1; k1 = 0.03; kwee = ; ki = ; kcdc25 = ; kir = ; k2 = ; k4 = ; mass = ; Cdc13_P_Cdc2 = ; Rum1_Cdc13_Cdc2 = ; Rum1 = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc13_P_Cdc2(Cdc13_P_Cdc2, kwee, kcdc25, k2, Cdc13_Cdc2, time_) // Rate Rules: Cdc13_P_Cdc2' = kwee * Cdc13_Cdc2 - (kcdc25 * Cdc13_P_Cdc2 + k2 * Cdc13_P_Cdc2); // Variable initializations: Cdc13_P_Cdc2 = 0; kwee = ; kcdc25 = ; k2 = ; Cdc13_Cdc2 = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Rum1_Cdc13_Cdc2(Rum1_Cdc13_Cdc2, ki, kir, k2c, k4, Cdc13_Cdc2, Rum1, time_) // Rate Rules: Rum1_Cdc13_Cdc2' = ki * Rum1 * Cdc13_Cdc2 - Rum1_Cdc13_Cdc2 * (k4 + k2c + kir); // Variable initializations: Rum1_Cdc13_Cdc2 = 0; ki = ; kir = ; k2c = ; k4 = ; Cdc13_Cdc2 = ; Rum1 = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Rum1(Rum1, ki, kir, k2c, k4, Cdc13_Cdc2, Rum1_Cdc13_Cdc2, time_) // Rate Rules: Rum1' = (k3 + Rum1_Cdc13_Cdc2 * (kir + k2c)) - (k4 * Rum1 + ki * Cdc13_Cdc2 * Rum1); // Variable initializations: Rum1 = 0; k3 = 0.15; ki = ; kir = ; k2c = ; k4 = ; Cdc13_Cdc2 = ; Rum1_Cdc13_Cdc2 = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc25P(Cdc25P, ks, MPF, time_) // Assignment Rules: k25r := k25r_ + ks; // Rate Rules: Cdc25P' = (k25 * MPF * (1 - Cdc25P)) / ((J25 + 1) - Cdc25P) - (k25r * Cdc25P) / (J25r + Cdc25P); // Variable initializations: Cdc25P = 0; k25 = 0.5; k25r_ = 0.2; J25 = 0.2; J25r = 0.2; ks = ; MPF = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Wee1(Wee1, ks, MPF, time_) // Assignment Rules: kwr := kwr_ + ks; // Rate Rules: Wee1' = (kwr * (1 - Wee1)) / ((Jwr + 1) - Wee1) - (kw * MPF * Wee1) / (Jw + Wee1); // Variable initializations: Wee1 = 0; kw = 0.5; kwr_ = 0.2; Jw = 0.2; Jwr = 0.2; ks = ; MPF = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Mik1(Mik1, ks, time_) // Assignment Rules: kmr := kmr_ + ks; // Rate Rules: Mik1' = (kmr * (1 - Mik1)) / ((Jmr + 1) - Mik1) - (km * Mik1) / (Jm + Mik1); // Variable initializations: Mik1 = 0; km = 0.1; kmr_ = 0; Jm = 0.2; Jmr = 0.2; ks = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__AAE_total(AAE_total, kad, MPF, time_) // Rate Rules: AAE_total' = kas * MPF - kad * AAE_total; // Variable initializations: AAE_total = 2; kas = 0.25; kad = ; MPF = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__AAE(AAE, AAE_total, kad, MPF, time_) // Assignment Rules: kai := kai_ + kx; // Rate Rules: AAE' = ((kaa + kaa_ * MPF) * (AAE_total - AAE)) / ((Jaa + AAE_total) - AAE) - ((kai * AAE) / (Jai + AAE) + kad * AAE); // Variable initializations: AAE = 2; kaa = 0.001; kaa_ = 1; kai_ = 0.25; kx = 0; Jaa = 0.1; Jai = 0.1; AAE_total = ; kad = ; MPF = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__APC(APC, Puc1, MPF, AAE, mass, time_) // Rate Rules: APC' = ((kapr + kapr_ * AAE) * (1 - APC)) / ((Japr + 1) - APC) - (kap * (Puc1 * mass + MPF) * APC) / (Jap + APC); // Variable initializations: APC = 0; kapr = 0.04; kapr_ = 3; kap = 4; Japr = 0.01; Jap = 0.01; Puc1 = ; MPF = ; AAE = ; mass = ; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__mass(mass, time_) // Rate Rules: mass' = mu * mass; // Variable initializations: mass = 1; mu = 0.005776; time_ = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k2(k2, APC) // Assignment Rules: k2 := V2 * (1 - APC) + V2_ * APC; // Variable initializations: V2 = 0.03; V2_ = 1; APC = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k2c(k2c, APC) // Assignment Rules: k2c := V2c * (1 - APC) + V2c_ * APC; // Variable initializations: V2c = 0.03; V2c_ = 0.16; APC = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k4(k4, MPF, Puc1, mass) // Assignment Rules: k4 := k4_ + k4__ * (Puc1 * mass + MPF); // Variable initializations: k4_ = 0.15; k4__ = 20; MPF = ; Puc1 = ; mass = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__kcdc25(kcdc25, Cdc25P) // Assignment Rules: kcdc25 := V25 * (1 - Cdc25P) + V25_ * Cdc25P; // Variable initializations: V25 = 0.01; V25_ = 0.4; Cdc25P = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__kwee(kwee, Wee1, Mik1) // Assignment Rules: kwee := Vwee * ((1 - Wee1) * 1 + Vwee_ * Wee1 + Vmik * (1 - Mik1)) * 1 + Vmik_ * Mik1; // Variable initializations: Vwee = 0.01; Vwee_ = 0.93; Vmik = 0.002; Vmik_ = 0.2; Wee1 = ; Mik1 = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__MPF(MPF, Cdc13_Cdc2, Cdc13_P_Cdc2) // Assignment Rules: MPF := Cdc13_Cdc2 + alpha * Cdc13_P_Cdc2; // Variable initializations: alpha = 0.1; Cdc13_Cdc2 = ; Cdc13_P_Cdc2 = ; end model novak_csikasznagy_gyorffy_chen_tyson_1998_version01__parameters(ks, ki, kir, kad, Puc1, APC) // Assignment Rules: ks := piecewise( 0.5 , APC <= 0.2 , 0 ); // Variable initializations: ki = 200; kir = 1; kad = 0.1; Puc1 = 0.013; APC = ; end model *novak_csikasznagy_gyorffy_chen_tyson_1998_version01____main() // Sub-modules, and any changes to those submodules: environment: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__environment(time_); Cdc13_Cdc2: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc13_Cdc2(Cdc13_Cdc20, kwee0, ki, kcdc250, kir, k20, k40, mass0, Cdc13_P_Cdc20, Rum1_Cdc13_Cdc20, Rum10, time_); Cdc13_P_Cdc2: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc13_P_Cdc2(Cdc13_P_Cdc20, kwee0, kcdc250, k20, Cdc13_Cdc20, time_); Rum1_Cdc13_Cdc2: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Rum1_Cdc13_Cdc2(Rum1_Cdc13_Cdc20, ki, kir, k2c0, k40, Cdc13_Cdc20, Rum10, time_); Rum1: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Rum1(Rum10, ki, kir, k2c0, k40, Cdc13_Cdc20, Rum1_Cdc13_Cdc20, time_); Cdc25P: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Cdc25P(Cdc25P0, ks, MPF0, time_); Wee1: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Wee1(Wee10, ks, MPF0, time_); Mik1: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__Mik1(Mik10, ks, time_); AAE_total: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__AAE_total(AAE_total0, kad, MPF0, time_); AAE: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__AAE(AAE0, AAE_total0, kad, MPF0, time_); APC: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__APC(APC0, Puc1, MPF0, AAE0, mass0, time_); mass: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__mass(mass0, time_); k2: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k2(k20, APC0); k2c: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k2c(k2c0, APC0); k4: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__k4(k40, MPF0, Puc1, mass0); kcdc25: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__kcdc25(kcdc250, Cdc25P0); kwee: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__kwee(kwee0, Wee10, Mik10); MPF: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__MPF(MPF0, Cdc13_Cdc20, Cdc13_P_Cdc20); parameters: novak_csikasznagy_gyorffy_chen_tyson_1998_version01__parameters(ks, ki, kir, kad, Puc1, APC0); end