// Created by libAntimony v2.8.0 function function_3(S, M, k, ko) k*ko*M*S; end function function_7(M, k, ko) k*ko*M; end function function_6(Substrate, k, Mod1, Mod, k1, kb) Substrate*(k*Mod1 + k1*Mod + kb); end function function_2(k, ko, sub, sub2) k*ko*sub*sub2; end function function_1(V, Mod, k, Ex, In_) (36*pi)^(1/3)*V^(2/3)*Mod*k*(Ex - In_); end function function_8(V, k, Sub) (36*pi)^(1/3)*V^(2/3)*k*Sub; end function function_4(ko, Mod, k, V, Sub) ko*Mod*k*(36*pi)^(1/3)*V^(2/3)*Sub; end function function_5(V, Mod, Vmax, Sub, Km) ((36*pi)^(1/3)*V^(2/3)*Mod*Vmax*Sub)/(Km + Sub); end model *MODEL1403280000() // Compartments and Species: compartment compartment_2, compartment_3, compartment_1, compartment_4; substanceOnly species $species_6 in compartment_2, species_5 in compartment_3; substanceOnly species species_10 in compartment_3, species_9 in compartment_3; substanceOnly species species_1 in compartment_4, species_15 in compartment_3; substanceOnly species species_11 in compartment_3, species_14 in compartment_3; substanceOnly species species_4 in compartment_1, species_3 in compartment_4; substanceOnly species species_7 in compartment_4, species_2 in compartment_4; // Assignment Rules: species_6 := piecewise(parameter_5, time < parameter_7, piecewise((parameter_5 + parameter_6)*exp((parameter_8 - time)/parameter_9), time > parameter_8, parameter_5 + parameter_6*(1 - exp((parameter_7 - time)/parameter_9))))*compartment_2; parameter_22 := piecewise(1, ModelValue_22 > 0, 0.2175); parameter_10 := (species_1/compartment_4 + species_2/compartment_4 + species_3/compartment_4)*Compartment_3*parameter_11*10^9 + species_4/compartment_1*Compartment_2*parameter_11*10^9; parameter_13 := species_1/compartment_4*Compartment_3*parameter_11*10^9; parameter_14 := species_2/compartment_4*Compartment_3*parameter_11*10^9; parameter_15 := species_3/compartment_4*Compartment_3*parameter_11*10^9; parameter_16 := species_4/compartment_1*Compartment_2*parameter_11*10^9; parameter_17 := (100*(species_10/compartment_3))/parameter_12; parameter_12 := species_9/compartment_3 + species_10/compartment_3; parameter_18 := (100*(species_15/compartment_3))/ModelValue_13; parameter_2 := (parameter_43*Metabolite_6)/Metabolite_9; parameter_3 := piecewise((parameter_33*Metabolite_5*(Metabolite_0 - Metabolite_9))/(Metabolite_6*Metabolite_9), parameter_25 > 0, 0); Asngpermil_ex := species_6/compartment_2*compartment_3*parameter_11*10^9; // Reactions: reaction_1: $species_6 -> species_1; function_1(compartment_3, species_11/compartment_3, parameter_33, species_6/compartment_2, species_1/compartment_4); reaction_4: species_9 => species_10; compartment_3*function_3(species_9/compartment_3, species_1/compartment_4, parameter_26, parameter_28); reaction_5: species_10 => species_9; parameter_27*species_10; reaction_6: species_15 => species_11; parameter_32*species_15; reaction_7: species_1 => species_2; parameter_41*species_1; reaction_8: species_2 => species_1; parameter_42*species_2; reaction_9: species_1 + species_7 => species_3; compartment_4*function_2(parameter_39, parameter_22, species_1/compartment_4, species_7/compartment_4); reaction_10: species_3 => species_4; function_4(parameter_38, species_5/compartment_3, parameter_36, compartment_1, species_3/compartment_4); reaction_13: => species_14; compartment_3*function_7(species_1/compartment_4, parameter_2, parameter_25); reaction_14: species_14 => ; parameter_43*species_14; reaction_15: species_1 => $species_6; function_5(compartment_3, species_14/compartment_3, parameter_34, species_1/compartment_4, parameter_35); reaction_16: species_11 => species_15; compartment_3*function_6(species_11/compartment_3, parameter_29, species_1/compartment_4, species_10/compartment_3, parameter_30, parameter_31); reaction_17: species_3 => species_1 + species_7; parameter_40*species_3; reaction_18: species_4 => species_3; function_8(compartment_1, parameter_37, species_4/compartment_1); // Species initializations: species_5 = piecewise(0.013151, parameter_25 > 0, 0.013151*parameter_24)*compartment_3; species_10 = piecewise((species_9/compartment_3*(species_1/compartment_4)*parameter_26)/parameter_27, parameter_28 > 0, 0)*compartment_3; species_9 = piecewise(0.167/((species_1/compartment_4*parameter_26)/parameter_27 + 1), parameter_28 > 0, 0.167)*compartment_3; species_1 = piecewise(parameter_4, parameter_25 > 0, 100)*compartment_4; species_15 = (species_11/compartment_3*(parameter_29*(species_1/compartment_4) + parameter_30*(species_10/compartment_3) + parameter_31))/parameter_32*compartment_3; species_11 = 0.03/((parameter_29*(species_1/compartment_4) + parameter_30*(species_10/compartment_3) + parameter_31)/parameter_32 + 1)*compartment_3; species_14 = piecewise((species_11/compartment_3*parameter_33*(species_6/compartment_2 - species_1/compartment_4))/((parameter_34*(species_1/compartment_4))/(parameter_35 + species_1/compartment_4)), parameter_25 > 0, 0)*compartment_3; species_4 = piecewise((parameter_36*(species_5/compartment_3)*(species_3/compartment_4))/parameter_37, parameter_38 > 0, 0)*compartment_1; species_3 = (parameter_39*parameter_22*(species_1/compartment_4)*(species_7/compartment_4))/parameter_40*compartment_4; species_7 = piecewise(parameter_19*parameter_22, parameter_25 > 0, piecewise(parameter_19*parameter_21, parameter_28 > 0, parameter_19*parameter_20))*compartment_4; species_2 = (parameter_41*(species_1/compartment_4))/parameter_42*compartment_4; // Compartment initializations: compartment_2 = 5e-011; compartment_3 = 5e-014; compartment_1 = 0.4*compartment_3; compartment_4 = 0.6*compartment_3; // Variable initializations: parameter_5 = 100; parameter_7 = 0; parameter_6 = 1000; parameter_8 = 3600; parameter_9 = 30; parameter_25 = 1; parameter_24 = 20; parameter_26 = 0.0757274; parameter_27 = 161.334; parameter_28 = 1; parameter_29 = 0.000257134; parameter_30 = 1102.15; parameter_31 = 0.0730991; parameter_32 = 0.0719168; parameter_33 = 0.00215551; parameter_34 = 1; parameter_35 = 5.16159e-006; parameter_36 = 3.49703e-006; parameter_37 = 1.92773e-007; parameter_38 = 1; parameter_39 = 0.202797; parameter_40 = 6.1432; parameter_4 = 13.1549; parameter_41 = 0.00880734; parameter_42 = 0.000656918; parameter_19 = 1600; parameter_21 = 2.82037; parameter_20 = 5.99924; Compartment_3 = compartment_4; parameter_11 = 74.9216; Compartment_2 = compartment_1; ModelValue_13 = parameter_1; parameter_1 = 0.0299643; parameter_43 = 9.01422e-013; Metabolite_6 = species_14; Metabolite_9 = species_1; Metabolite_5 = species_11; Metabolite_0 = species_6; ModelValue_22 = parameter_23; parameter_23 = 1; // Other declarations: var parameter_22, parameter_10, parameter_13, parameter_14, parameter_15; var parameter_16, parameter_17, parameter_12, parameter_18, parameter_2; var parameter_3, Asngpermil_ex; const compartment_2, compartment_3, compartment_1, compartment_4, parameter_5; const parameter_7, parameter_6, parameter_8, parameter_9, parameter_25; const parameter_24, parameter_26, parameter_27, parameter_28, parameter_29; const parameter_30, parameter_31, parameter_32, parameter_33, parameter_34; const parameter_35, parameter_36, parameter_37, parameter_38, parameter_39; const parameter_40, parameter_4, parameter_41, parameter_42, parameter_19; const parameter_21, parameter_20, Compartment_3, parameter_11, Compartment_2; const ModelValue_13, parameter_1, parameter_43, Metabolite_6, Metabolite_9; const Metabolite_5, Metabolite_0, ModelValue_22, parameter_23; // Unit definitions: unit substance = 1e-6 mole; // Display Names: compartment_2 is "Medium"; compartment_3 is "Cell"; compartment_1 is "Vac"; compartment_4 is "Cell-vac"; species_6 is "AsIIIex"; parameter_5 is "AsIIIex_initial"; parameter_7 is "AsIIIex_t1"; parameter_6 is "AsIIIex_shock"; parameter_8 is "AsIIex_t2"; parameter_9 is "AsIIIex_tm"; species_5 is "Ycf1"; parameter_25 is "v12_ko"; parameter_24 is "Ycf1_increase"; species_10 is "Hog1PP"; species_9 is "Hog1"; species_1 is "AsIIIin"; parameter_26 is "v4_k"; parameter_27 is "v5_k1"; parameter_28 is "v4_ko"; species_15 is "Fps1P"; species_11 is "Fps1"; parameter_29 is "v6_k"; parameter_30 is "v6_k1"; parameter_31 is "v6_kb"; parameter_32 is "v7_k1"; species_14 is "Acr3"; parameter_33 is "v1_k"; parameter_34 is "v14_Vmax"; parameter_35 is "v14_Km"; species_4 is "vAsGS3"; parameter_36 is "v10_k"; species_3 is "AsGS3"; parameter_37 is "v11_k"; parameter_38 is "v10_ko"; parameter_39 is "v8_k"; parameter_22 is "GSH_damping_factor"; species_7 is "GSH"; parameter_40 is "v9_k1"; parameter_4 is "D_AsIIIin_initial "; species_2 is "AsIIIProt"; parameter_41 is "v2_k1"; parameter_42 is "v3_k1"; parameter_19 is "GSH_wt"; parameter_21 is "GSH_Acr3"; parameter_20 is "GSH_Acr3Hog1D"; parameter_10 is "Asngpermil_tot"; Compartment_3 is "Initial for Cell-vac"; parameter_11 is "Asmolweight"; Compartment_2 is "Initial for Vac"; parameter_13 is "Asngpermil_in"; parameter_14 is "Asngpermil_pro"; parameter_15 is "Asngpermil_GS3"; parameter_16 is "Asngpermil_vac"; parameter_17 is "Hog1PPfit"; parameter_12 is "Hog1_SUM"; parameter_18 is "Fps1Pfit"; ModelValue_13 is "Initial for Fps1PPmax"; parameter_1 is "Fps1PPmax"; parameter_2 is "k18"; parameter_43 is "v13_k1"; Metabolite_6 is "Initial for Acr3"; Metabolite_9 is "Initial for AsIIIin"; parameter_3 is "k20"; Metabolite_5 is "Initial for Fps1"; Metabolite_0 is "Initial for AsIIIex"; ModelValue_22 is "Initial for ko-8"; parameter_23 is "ko-8"; reaction_1 is "v1"; reaction_4 is "v4"; reaction_5 is "v5"; reaction_6 is "v7"; reaction_7 is "v2"; reaction_8 is "v3"; reaction_9 is "v8"; reaction_10 is "v10"; reaction_13 is "v12"; reaction_14 is "v13"; reaction_15 is "v14"; reaction_16 is "v6"; reaction_17 is "v9"; reaction_18 is "v11"; end