(* 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 = {
IkBa\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus[t], IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]1[t], IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]2[t], JNK[t], JNK\[LetterSpace]P[t], LPS[t], MSK1[t], MSK1\[LetterSpace]P[t], TNFR1\[LetterSpace]EL[t], TNFR1\[LetterSpace]cytoplasm[t], TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t], TNFa\[LetterSpace]TNFR1\[LetterSpace]cytoplasm[t], TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC[t], TNFa\[LetterSpace]mRNA\[LetterSpace]MC[t], TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]LSEC[t], TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]MC[t], p38[t], p38\[LetterSpace]P[t], p65\[LetterSpace]2P[t], p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t], p65\[LetterSpace]cytoplasm[t], p65\[LetterSpace]nucleus[t], s11[t], s14[t], s15[t], s16[t], s19[t], s3[t], s5[t], s8[t]
};

initialValues = {
IkBa\[LetterSpace]cytoplasm[0] == 0.472516225018224, IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm[0] == 4.0261471309602, IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus[0] == 0.000106927833215887, IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]1[0] == 6.17789756552652, IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]2[0] == 6.17789756552652, JNK[0] == 0.492851335694075, JNK\[LetterSpace]P[0] == 0.507148664305926, LPS[0] == 5.0, MSK1[0] == 14.9996753449188, MSK1\[LetterSpace]P[0] == 0.00032465508120628, TNFR1\[LetterSpace]EL[0] == 0.00122834645669292, TNFR1\[LetterSpace]cytoplasm[0] == 5.52755905511812*^-05, TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[0] == 0.0, TNFa\[LetterSpace]TNFR1\[LetterSpace]cytoplasm[0] == 0.0, TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC[0] == 0.0, TNFa\[LetterSpace]mRNA\[LetterSpace]MC[0] == 0.0, TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]LSEC[0] == 0.0, TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]MC[0] == 0.0, p38[0] == 0.701691465817923, p38\[LetterSpace]P[0] == 0.298308534182077, p65\[LetterSpace]2P[0] == 0.211595599589762, p65\[LetterSpace]IkBa\[LetterSpace]nucleus[0] == 0.875592507158422, p65\[LetterSpace]cytoplasm[0] == 0.000300053052727992, p65\[LetterSpace]nucleus[0] == 0.0149965911371502, s11[0] == 0.945032331339863, s14[0] == 0.29999263653113, s15[0] == 7.36346887033862*^-06, s16[0] == 0.0, s19[0] == 0.0437794842697899, s3[0] == 0.00386008654775653, s5[0] == 0.0706608526386937, s8[0] == 0.192980810254843
};

rates = {
Complex\[LetterSpace]association\[LetterSpace]c, Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]c, Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]n, Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]c, Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]n, Complex\[LetterSpace]nuclear\[LetterSpace]shuttle, IKK\[LetterSpace]phosphorylation, IkBa\[LetterSpace]degradation\[LetterSpace]c, IkBa\[LetterSpace]degradation\[LetterSpace]n, IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]c, IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]n, IkBa\[LetterSpace]mRNA\[LetterSpace]transport, IkBa\[LetterSpace]nuclear\[LetterSpace]shuttle, IkBa\[LetterSpace]phosphorylation, IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]1, IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]2, IkBa\[LetterSpace]translation, JNK\[LetterSpace]active\[LetterSpace]phosphorylation, JNK\[LetterSpace]basal\[LetterSpace]phosphorylation, JNK\[LetterSpace]dephosphorylation, LPS\[LetterSpace]LSEC\[LetterSpace]degradation, LPS\[LetterSpace]MC\[LetterSpace]degradation, MSK1\[LetterSpace]activation, MSK1\[LetterSpace]deactivation, TNFR1\[LetterSpace]shuttle, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation, TNFa\[LetterSpace]LSEC\[LetterSpace]translation, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation, TNFa\[LetterSpace]MC\[LetterSpace]translation, TNFa\[LetterSpace]TNFR1\[LetterSpace]association, TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation, TNFa\[LetterSpace]degradation, TNFa\[LetterSpace]internal\[LetterSpace]degradation, TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC\[LetterSpace]degradation, TNFa\[LetterSpace]mRNA\[LetterSpace]MC\[LetterSpace]degradation, basal\[LetterSpace]IKKb\[LetterSpace]phosphorylation, p38\[LetterSpace]active\[LetterSpace]phosphorylation, p38\[LetterSpace]basal\[LetterSpace]phosphorylation, p38\[LetterSpace]dephosphorylation, p65\[LetterSpace]2P\[LetterSpace]degradation, p65\[LetterSpace]2P\[LetterSpace]dephosphorylation\[LetterSpace]0, p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]c, p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]n, p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]c, p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]n, p65\[LetterSpace]P\[LetterSpace]phosphorylation\[LetterSpace]MSK1, p65\[LetterSpace]nuclear\[LetterSpace]shuttle, p65\[LetterSpace]phosphorylation\[LetterSpace]MSK1, p65\[LetterSpace]translation, re10, re14, re15, re17, re19, re3
};

rateEquations = {
Complex\[LetterSpace]association\[LetterSpace]c -> default*(IkBa\[LetterSpace]p65\[LetterSpace]association\[LetterSpace]k*IkBa\[LetterSpace]cytoplasm[t]*p65\[LetterSpace]cytoplasm[t] - IkBa\[LetterSpace]p65\[LetterSpace]dissociation\[LetterSpace]k*s19[t]), Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]c -> default*IkBa\[LetterSpace]deg\[LetterSpace]complex\[LetterSpace]cyt\[LetterSpace]k*s19[t], Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]n -> c1*IkBa\[LetterSpace]deg\[LetterSpace]complex\[LetterSpace]nuc\[LetterSpace]k*p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t], Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]c -> default*p65\[LetterSpace]degradation\[LetterSpace]k*s19[t], Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]n -> c1*p65\[LetterSpace]degradation\[LetterSpace]k*p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t], Complex\[LetterSpace]nuclear\[LetterSpace]shuttle -> IkBa\[LetterSpace]p65\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k*p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t] - IkBa\[LetterSpace]p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k*s19[t], IKK\[LetterSpace]phosphorylation -> default*Catalytic\[LetterSpace]activation\[LetterSpace]\[LetterSpace]irrev[s14[t], TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t], IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kM, IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax, IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kA], IkBa\[LetterSpace]degradation\[LetterSpace]c -> default*IkBa\[LetterSpace]deg\[LetterSpace]cyt\[LetterSpace]k*IkBa\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]degradation\[LetterSpace]n -> c1*IkBa\[LetterSpace]deg\[LetterSpace]nuc\[LetterSpace]k*s11[t], IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]c -> default*IkBa\[LetterSpace]mRNA\[LetterSpace]deg\[LetterSpace]cyt\[LetterSpace]k*IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]n -> c1*IkBa\[LetterSpace]mRNA\[LetterSpace]deg\[LetterSpace]nuc\[LetterSpace]k*IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus[t], IkBa\[LetterSpace]mRNA\[LetterSpace]transport -> IkBa\[LetterSpace]mRNA\[LetterSpace]transport\[LetterSpace]k*IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus[t], IkBa\[LetterSpace]nuclear\[LetterSpace]shuttle -> IkBa\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k*IkBa\[LetterSpace]cytoplasm[t] - IkBa\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k*s11[t], IkBa\[LetterSpace]phosphorylation -> default*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[IkBa\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]phosphorylation\[LetterSpace]kM, IkBa\[LetterSpace]phosphorylation\[LetterSpace]vmax], IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]1 -> c1*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]kbasal*IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]1[t], IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]2 -> c1*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]kbasal*IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]2[t], IkBa\[LetterSpace]translation -> default*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm[t], IkBa\[LetterSpace]translation\[LetterSpace]Km, IkBa\[LetterSpace]translation\[LetterSpace]vmax], JNK\[LetterSpace]active\[LetterSpace]phosphorylation -> default*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[JNK[t], JNK\[LetterSpace]active\[LetterSpace]phoshorylation\[LetterSpace]Km, JNK\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax], JNK\[LetterSpace]basal\[LetterSpace]phosphorylation -> default*JNK\[LetterSpace]basal\[LetterSpace]phosphorylation\[LetterSpace]k*JNK[t], JNK\[LetterSpace]dephosphorylation -> default*JNK\[LetterSpace]dephosphorylation\[LetterSpace]k*JNK\[LetterSpace]P[t], LPS\[LetterSpace]LSEC\[LetterSpace]degradation -> EL*LPS\[LetterSpace]LSEC\[LetterSpace]degradation\[LetterSpace]k*LPS[t], LPS\[LetterSpace]MC\[LetterSpace]degradation -> EL*LPS\[LetterSpace]MC\[LetterSpace]degradation\[LetterSpace]k*LPS[t], MSK1\[LetterSpace]activation -> c1*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[MSK1[t], MSK1\[LetterSpace]activation\[LetterSpace]kM, MSK1\[LetterSpace]activation\[LetterSpace]vmax], MSK1\[LetterSpace]deactivation -> c1*MSK1\[LetterSpace]dephosphorylation\[LetterSpace]k*MSK1\[LetterSpace]P[t], TNFR1\[LetterSpace]shuttle -> k\[LetterSpace]TNFR1\[LetterSpace]vessicle2outer\[LetterSpace]membrane\[LetterSpace]shuttle*TNFR1\[LetterSpace]cytoplasm[t] - k\[LetterSpace]TNFR1\[LetterSpace]outer\[LetterSpace]membrane2vessicle\[LetterSpace]shuttle*TNFR1\[LetterSpace]EL[t], TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation -> LSEC*TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]k*TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]LSEC[t], TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation -> LSEC*TNFa\[LetterSpace]transcription\[LetterSpace]initiation[TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]vA\[LetterSpace]LPS, LPS[t], TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kA\[LetterSpace]LPS], TNFa\[LetterSpace]LSEC\[LetterSpace]translation -> TNFa\[LetterSpace]LSEC\[LetterSpace]translation\[LetterSpace]k*TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC[t], TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation -> MC*TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]k*TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]MC[t], TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation -> MC*TNFa\[LetterSpace]transcription\[LetterSpace]initiation[TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]vA\[LetterSpace]LPS, LPS[t], TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kA\[LetterSpace]LPS], TNFa\[LetterSpace]MC\[LetterSpace]translation -> TNFa\[LetterSpace]MC\[LetterSpace]translation\[LetterSpace]k*TNFa\[LetterSpace]mRNA\[LetterSpace]MC[t], TNFa\[LetterSpace]TNFR1\[LetterSpace]association -> EL*(-(k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]dissociation*TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t]) + k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]association*s16[t]*TNFR1\[LetterSpace]EL[t]), TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation -> k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation*TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t], TNFa\[LetterSpace]degradation -> EL*TNFa\[LetterSpace]degradation\[LetterSpace]k*s16[t], TNFa\[LetterSpace]internal\[LetterSpace]degradation -> default*k\[LetterSpace]TNFa\[LetterSpace]internal\[LetterSpace]degradation*TNFa\[LetterSpace]TNFR1\[LetterSpace]cytoplasm[t], TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC\[LetterSpace]degradation -> LSEC*TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC\[LetterSpace]degradation\[LetterSpace]k*TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC[t], TNFa\[LetterSpace]mRNA\[LetterSpace]MC\[LetterSpace]degradation -> MC*TNFa\[LetterSpace]mRNA\[LetterSpace]MC\[LetterSpace]degradation\[LetterSpace]k*TNFa\[LetterSpace]mRNA\[LetterSpace]MC[t], basal\[LetterSpace]IKKb\[LetterSpace]phosphorylation -> default*IKKb\[LetterSpace]basal\[LetterSpace]phosphoylation\[LetterSpace]k*s14[t], p38\[LetterSpace]active\[LetterSpace]phosphorylation -> default*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[p38[t], p38\[LetterSpace]active\[LetterSpace]phoshorylation\[LetterSpace]Km, p38\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax], p38\[LetterSpace]basal\[LetterSpace]phosphorylation -> default*p38\[LetterSpace]basal\[LetterSpace]phosphorylation\[LetterSpace]k*p38[t], p38\[LetterSpace]dephosphorylation -> default*p38\[LetterSpace]dephosphorylation\[LetterSpace]k*p38\[LetterSpace]P[t], p65\[LetterSpace]2P\[LetterSpace]degradation -> c1*p65\[LetterSpace]degradation\[LetterSpace]k*p65\[LetterSpace]2P[t], p65\[LetterSpace]2P\[LetterSpace]dephosphorylation\[LetterSpace]0 -> c1*p65\[LetterSpace]2P\[LetterSpace]dephosphorylation*p65\[LetterSpace]2P[t], p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]c -> default*p65\[LetterSpace]degradation\[LetterSpace]k*s3[t], p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]n -> c1*p65\[LetterSpace]degradation\[LetterSpace]k*s8[t], p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]c -> c1*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]k*s8[t], p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]n -> default*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]k*s3[t], p65\[LetterSpace]P\[LetterSpace]phosphorylation\[LetterSpace]MSK1 -> c1*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[s8[t], p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kM, p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]vmax], p65\[LetterSpace]nuclear\[LetterSpace]shuttle -> p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k*p65\[LetterSpace]cytoplasm[t] - p65\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k*p65\[LetterSpace]nucleus[t], p65\[LetterSpace]phosphorylation\[LetterSpace]MSK1 -> c1*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[p65\[LetterSpace]nucleus[t], p65\[LetterSpace]MSK1\[LetterSpace]phosphorylation\[LetterSpace]kM, p65\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]vmax], p65\[LetterSpace]translation -> default*p65\[LetterSpace]mRNA*p65\[LetterSpace]translation\[LetterSpace]k, re10 -> c1*activated\[LetterSpace]Transcription\[LetterSpace]\[LetterSpace]1[IkBa\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal, IkBa\[LetterSpace]transcription\[LetterSpace]kA2\[LetterSpace]p65\[LetterSpace]P, s8[t], IkBa\[LetterSpace]transcription\[LetterSpace]kA\[LetterSpace]p65, p65\[LetterSpace]nucleus[t], p65\[LetterSpace]2P[t], IkBa\[LetterSpace]transcription\[LetterSpace]kA3\[LetterSpace]p65\[LetterSpace]2P], re14 -> default*IkBa\[LetterSpace]p\[LetterSpace]active\[LetterSpace]degradation\[LetterSpace]k*s5[t], re15 -> default*Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[s19[t], IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]kM, IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]vmax], re17 -> default*IKKb\[LetterSpace]dephopshorylation\[LetterSpace]k*s15[t], re19 -> c1*(-(IkBa\[LetterSpace]p65\[LetterSpace]dissociation\[LetterSpace]k*p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t]) + IkBa\[LetterSpace]p65\[LetterSpace]association\[LetterSpace]k*p65\[LetterSpace]nucleus[t]*s11[t]), re3 -> p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k*s3[t] - p65\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k*s8[t]
};

parameters = {
IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kA -> 0.719768509273427, IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kM -> 5.0, IKKb\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax -> 992.489864002052, IKKb\[LetterSpace]basal\[LetterSpace]phosphoylation\[LetterSpace]k -> 1.00000000222045*^-07, IKKb\[LetterSpace]dephopshorylation\[LetterSpace]k -> 0.00407406675412333, IkBa\[LetterSpace]deg\[LetterSpace]complex\[LetterSpace]cyt\[LetterSpace]k -> 1*^-05, IkBa\[LetterSpace]deg\[LetterSpace]complex\[LetterSpace]nuc\[LetterSpace]k -> 1.00000000002221*^-05, IkBa\[LetterSpace]deg\[LetterSpace]cyt\[LetterSpace]k -> 1.52811252693767*^-05, IkBa\[LetterSpace]deg\[LetterSpace]nuc\[LetterSpace]k -> 1*^-05, IkBa\[LetterSpace]mRNA\[LetterSpace]deg\[LetterSpace]cyt\[LetterSpace]k -> 0.000204295016355302, IkBa\[LetterSpace]mRNA\[LetterSpace]deg\[LetterSpace]nuc\[LetterSpace]k -> 5*^-05, IkBa\[LetterSpace]mRNA\[LetterSpace]transport\[LetterSpace]k -> 0.0001, IkBa\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k -> 0.005, IkBa\[LetterSpace]p65\[LetterSpace]association\[LetterSpace]k -> 0.0323167309116097, IkBa\[LetterSpace]p65\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k -> 0.000100000000000222, IkBa\[LetterSpace]p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k -> 0.00199999999999978, IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]kM -> 0.5, IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]kcat -> 35.4633298809972, IkBa\[LetterSpace]p\[LetterSpace]active\[LetterSpace]degradation\[LetterSpace]k -> 0.00329668590741014, IkBa\[LetterSpace]phosphorylation\[LetterSpace]kM -> 0.109722103897208, IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]kbasal -> 0.00216351669101177, IkBa\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal -> 1*^-06, IkBa\[LetterSpace]transcription\[LetterSpace]kA2\[LetterSpace]p65\[LetterSpace]P -> 0.000100000000000222, IkBa\[LetterSpace]transcription\[LetterSpace]kA3\[LetterSpace]p65\[LetterSpace]2P -> 0.000100000000000222, IkBa\[LetterSpace]transcription\[LetterSpace]kA\[LetterSpace]p65 -> 0.888503709645383, IkBa\[LetterSpace]translation\[LetterSpace]Km -> 9.80157474422967, IkBa\[LetterSpace]translation\[LetterSpace]vmax -> 0.000830201042958578, JNK\[LetterSpace]active\[LetterSpace]phoshorylation\[LetterSpace]Km -> 0.00100000000000022, JNK\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kcat -> 791828.514880157, JNK\[LetterSpace]basal\[LetterSpace]phosphorylation\[LetterSpace]k -> 0.000999999999999778, JNK\[LetterSpace]dephosphorylation\[LetterSpace]k -> 0.000971808407241833, LPS\[LetterSpace]LSEC\[LetterSpace]degradation\[LetterSpace]k -> 0.000230610474560969, LPS\[LetterSpace]MC\[LetterSpace]degradation\[LetterSpace]k -> 0.000117891832873459, MSK1\[LetterSpace]activation\[LetterSpace]kM -> 0.332175, MSK1\[LetterSpace]dephosphorylation\[LetterSpace]k -> 0.00961219681165222, MSK1\[LetterSpace]phosphorylation\[LetterSpace]kcat -> 1.06928110615404*^-05, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]k -> 1.00000000022204*^-06, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kA\[LetterSpace]LPS -> 1.07890107243052, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal -> 0.0, TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]vA\[LetterSpace]LPS -> 1.22197303679613*^-05, TNFa\[LetterSpace]LSEC\[LetterSpace]translation\[LetterSpace]k -> 2.17056328697255*^-05, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]k -> 1.00000000022204*^-06, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kA\[LetterSpace]LPS -> 0.826687919847419, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]kbasal -> 0.0, TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation\[LetterSpace]vA\[LetterSpace]LPS -> 5.90149401714897*^-06, TNFa\[LetterSpace]MC\[LetterSpace]translation\[LetterSpace]k -> 2.16243947067119*^-06, TNFa\[LetterSpace]degradation\[LetterSpace]k -> 0.000161877075794809, TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC\[LetterSpace]degradation\[LetterSpace]k -> 0.590975155351609, TNFa\[LetterSpace]mRNA\[LetterSpace]MC\[LetterSpace]degradation\[LetterSpace]k -> 0.0513700937478488, k\[LetterSpace]IkBa -> 141486.09791093, k\[LetterSpace]IkBa\[LetterSpace]P -> 534775.710753531, k\[LetterSpace]IkBa\[LetterSpace]mRNA -> 6962.47635118251, k\[LetterSpace]JNK\[LetterSpace]P -> 103421.387362462, k\[LetterSpace]MSK\[LetterSpace]P -> 2507839664.71384, k\[LetterSpace]TNFR1\[LetterSpace]outer\[LetterSpace]membrane2vessicle\[LetterSpace]shuttle -> 1.8*^-05, k\[LetterSpace]TNFR1\[LetterSpace]vessicle2outer\[LetterSpace]membrane\[LetterSpace]shuttle -> 0.0004, k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]association -> 16.833, k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation -> 0.00077, k\[LetterSpace]TNFa\[LetterSpace]internal\[LetterSpace]degradation -> 8.15877575483622*^-05, k\[LetterSpace]p38\[LetterSpace]P -> 212229.814667102, k\[LetterSpace]p65 -> 0.102372088824604, k\[LetterSpace]p65\[LetterSpace]P -> 2736942.70014217, p38\[LetterSpace]active\[LetterSpace]phoshorylation\[LetterSpace]Km -> 5.63943100353927, p38\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kcat -> 1000000.0, p38\[LetterSpace]basal\[LetterSpace]phosphorylation\[LetterSpace]k -> 0.000254830975439548, p38\[LetterSpace]dephosphorylation\[LetterSpace]k -> 0.000599422075477218, p65\[LetterSpace]MSK1\[LetterSpace]phosphorylation\[LetterSpace]kM -> 0.972449055455997, p65\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kcat -> 2.74002381945741, p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]k -> 0.000746701258489332, p65\[LetterSpace]degradation\[LetterSpace]k -> 1.328912101*^-05, p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k -> 0.0005, p65\[LetterSpace]translation\[LetterSpace]k -> 1.68*^-06, p65\[LetterSpace]mRNA -> 1.0, EL -> 2.59*^-06, LSEC -> 4.7*^-07, MC -> 3.5*^-07, c1 -> 8*^-07, default -> 1.3*^-05
};

assignments = {
TNFa\[LetterSpace]transcription\[LetterSpace]initiation[kbasal_,vA_,A_,kA_] -> kbasal + (A*vA)/(A + kA), activated\[LetterSpace]Transcription\[LetterSpace]\[LetterSpace]1[k1_,k2_,Modifier_,k3_,Modifier2_,Modifier3_,k4_] -> k1 + k2*Modifier + k3*Modifier2 + k4*Modifier3, Henri\[LetterSpace]Michaelis\[LetterSpace]Menten\[LetterSpace]\[LetterSpace]irreversible[substrate_,Km_,V_] -> (substrate*V)/(Km + substrate), Catalytic\[LetterSpace]activation\[LetterSpace]\[LetterSpace]irrev[substrate_,Activator_,Kms_,V_,Ka_] -> (Activator*substrate*V)/((Activator + Ka)*(Kms + substrate)), unscaled\[LetterSpace]JNK\[LetterSpace]P -> default*JNK\[LetterSpace]P[t], unscaled\[LetterSpace]p38\[LetterSpace]P -> default*p38\[LetterSpace]P[t], k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]dissociation -> 0.000019*k\[LetterSpace]TNFa\[LetterSpace]TNFR1\[LetterSpace]association, p65\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k -> 0.02*p65\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k, IkBa\[LetterSpace]phosphorylation\[LetterSpace]kcat -> IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]kcat, p65\[LetterSpace]2P\[LetterSpace]dephosphorylation -> p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]k, scaled\[LetterSpace]JNK\[LetterSpace]P -> k\[LetterSpace]JNK\[LetterSpace]P*unscaled\[LetterSpace]JNK\[LetterSpace]P, unscaled\[LetterSpace]MSK\[LetterSpace]P -> c1*MSK1\[LetterSpace]P[t], scaled\[LetterSpace]MSK\[LetterSpace]P -> k\[LetterSpace]MSK\[LetterSpace]P*unscaled\[LetterSpace]MSK\[LetterSpace]P, unscaled\[LetterSpace]p65\[LetterSpace]P -> default*s3[t] + c1*s8[t], p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]vmax -> p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kcat*MSK1\[LetterSpace]P[t], IkBa\[LetterSpace]p65\[LetterSpace]dissociation\[LetterSpace]k -> 0.003*IkBa\[LetterSpace]p65\[LetterSpace]association\[LetterSpace]k, IkBa\[LetterSpace]nuclear\[LetterSpace]export\[LetterSpace]k -> 0.5*IkBa\[LetterSpace]nuclear\[LetterSpace]import\[LetterSpace]k, scaled\[LetterSpace]IkBa\[LetterSpace]mRNA -> k\[LetterSpace]IkBa\[LetterSpace]mRNA*unscaled\[LetterSpace]IkBa\[LetterSpace]mRNA, unscaled\[LetterSpace]IkBa\[LetterSpace]P -> default*s5[t], scaled\[LetterSpace]IkBa\[LetterSpace]P -> k\[LetterSpace]IkBa\[LetterSpace]P*unscaled\[LetterSpace]IkBa\[LetterSpace]P, scaled\[LetterSpace]IkBa -> k\[LetterSpace]IkBa*unscaled\[LetterSpace]IkBa, p65\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]vmax -> p65\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kcat*MSK1\[LetterSpace]P[t], unscaled\[LetterSpace]IkBa -> c1*(p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t] + s11[t]) + default*(IkBa\[LetterSpace]cytoplasm[t] + s19[t] + s5[t]), JNK\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax -> JNK\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kcat*TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t], unscaled\[LetterSpace]IkBa\[LetterSpace]mRNA -> default*IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm[t] + c1*IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus[t], scaled\[LetterSpace]p65\[LetterSpace]P -> k\[LetterSpace]p65\[LetterSpace]P*unscaled\[LetterSpace]p65\[LetterSpace]P, scaled\[LetterSpace]p65 -> k\[LetterSpace]p65*unscaled\[LetterSpace]p65, p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kM -> p65\[LetterSpace]MSK1\[LetterSpace]phosphorylation\[LetterSpace]kM, p65\[LetterSpace]P\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kcat -> p65\[LetterSpace]MSK1\[LetterSpace]phosphrylation\[LetterSpace]kcat, scaled\[LetterSpace]p38\[LetterSpace]P -> k\[LetterSpace]p38\[LetterSpace]P*unscaled\[LetterSpace]p38\[LetterSpace]P, unscaled\[LetterSpace]p65 -> default*(p65\[LetterSpace]cytoplasm[t] + s19[t] + s3[t]) + c1*(p65\[LetterSpace]2P[t] + p65\[LetterSpace]IkBa\[LetterSpace]nucleus[t] + p65\[LetterSpace]nucleus[t] + s8[t]), MSK1\[LetterSpace]activation\[LetterSpace]vmax -> MSK1\[LetterSpace]phosphorylation\[LetterSpace]kcat*p38\[LetterSpace]P[t], IkBa\[LetterSpace]phosphorylation\[LetterSpace]vmax -> IkBa\[LetterSpace]phosphorylation\[LetterSpace]kcat*s15[t], IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]vmax -> IkBa\[LetterSpace]p65\[LetterSpace]phosphorylation\[LetterSpace]kcat*s15[t], p38\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]vmax -> p38\[LetterSpace]active\[LetterSpace]phosphorylation\[LetterSpace]kcat*TNFa\[LetterSpace]TNFR1\[LetterSpace]EL[t]
};

events = {

};

speciesAnnotations = {

};

reactionAnnotations = {

};

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

(* Time evolution *)
odes = {
IkBa\[LetterSpace]cytoplasm'[t] == 1.0*Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]c +1.0*IkBa\[LetterSpace]translation -1.0*Complex\[LetterSpace]association\[LetterSpace]c -1.0*IkBa\[LetterSpace]degradation\[LetterSpace]c -1.0*IkBa\[LetterSpace]nuclear\[LetterSpace]shuttle -1.0*IkBa\[LetterSpace]phosphorylation, IkBa\[LetterSpace]mRNA\[LetterSpace]cytoplasm'[t] == 1.0*IkBa\[LetterSpace]mRNA\[LetterSpace]transport +1.0*IkBa\[LetterSpace]translation -1.0*IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]c -1.0*IkBa\[LetterSpace]translation, IkBa\[LetterSpace]mRNA\[LetterSpace]nucleus'[t] == 1.0*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]2 -1.0*IkBa\[LetterSpace]mRNA\[LetterSpace]degradation\[LetterSpace]n -1.0*IkBa\[LetterSpace]mRNA\[LetterSpace]transport, IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]1'[t] == 1.0*re10 -1.0*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]1, IkBa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]2'[t] == 1.0*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]1 -1.0*IkBa\[LetterSpace]transcription\[LetterSpace]elongation\[LetterSpace]2, JNK'[t] == 1.0*JNK\[LetterSpace]dephosphorylation -1.0*JNK\[LetterSpace]active\[LetterSpace]phosphorylation -1.0*JNK\[LetterSpace]basal\[LetterSpace]phosphorylation, JNK\[LetterSpace]P'[t] == 1.0*JNK\[LetterSpace]active\[LetterSpace]phosphorylation +1.0*JNK\[LetterSpace]basal\[LetterSpace]phosphorylation -1.0*JNK\[LetterSpace]dephosphorylation, LPS'[t] ==  -1.0*LPS\[LetterSpace]LSEC\[LetterSpace]degradation -1.0*LPS\[LetterSpace]MC\[LetterSpace]degradation, MSK1'[t] == 1.0*MSK1\[LetterSpace]deactivation -1.0*MSK1\[LetterSpace]activation, MSK1\[LetterSpace]P'[t] == 1.0*MSK1\[LetterSpace]activation -1.0*MSK1\[LetterSpace]deactivation, TNFR1\[LetterSpace]EL'[t] == 1.0*TNFR1\[LetterSpace]shuttle -1.0*TNFa\[LetterSpace]TNFR1\[LetterSpace]association, TNFR1\[LetterSpace]cytoplasm'[t] == 1.0*TNFa\[LetterSpace]internal\[LetterSpace]degradation -1.0*TNFR1\[LetterSpace]shuttle, TNFa\[LetterSpace]TNFR1\[LetterSpace]EL'[t] == 1.0*TNFa\[LetterSpace]TNFR1\[LetterSpace]association -1.0*TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation, TNFa\[LetterSpace]TNFR1\[LetterSpace]cytoplasm'[t] == 1.0*TNFa\[LetterSpace]TNFR1\[LetterSpace]internalisation -1.0*TNFa\[LetterSpace]internal\[LetterSpace]degradation, TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC'[t] == 1.0*TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation +1.0*TNFa\[LetterSpace]LSEC\[LetterSpace]translation -1.0*TNFa\[LetterSpace]LSEC\[LetterSpace]translation -1.0*TNFa\[LetterSpace]mRNA\[LetterSpace]LSEC\[LetterSpace]degradation, TNFa\[LetterSpace]mRNA\[LetterSpace]MC'[t] == 1.0*TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation +1.0*TNFa\[LetterSpace]MC\[LetterSpace]translation -1.0*TNFa\[LetterSpace]MC\[LetterSpace]translation -1.0*TNFa\[LetterSpace]mRNA\[LetterSpace]MC\[LetterSpace]degradation, TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]LSEC'[t] == 2.0*TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]initiation -1.0*TNFa\[LetterSpace]LSEC\[LetterSpace]transcription\[LetterSpace]elongation, TNFa\[LetterSpace]pre\[LetterSpace]mRNA\[LetterSpace]MC'[t] == 2.0*TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]initiation -1.0*TNFa\[LetterSpace]MC\[LetterSpace]transcription\[LetterSpace]elongation, p38'[t] == 1.0*p38\[LetterSpace]dephosphorylation -1.0*p38\[LetterSpace]active\[LetterSpace]phosphorylation -1.0*p38\[LetterSpace]basal\[LetterSpace]phosphorylation, p38\[LetterSpace]P'[t] == 1.0*p38\[LetterSpace]active\[LetterSpace]phosphorylation +1.0*p38\[LetterSpace]basal\[LetterSpace]phosphorylation -1.0*p38\[LetterSpace]dephosphorylation, p65\[LetterSpace]2P'[t] == 1.0*p65\[LetterSpace]P\[LetterSpace]phosphorylation\[LetterSpace]MSK1 +1.0*p65\[LetterSpace]phosphorylation\[LetterSpace]MSK1 -1.0*p65\[LetterSpace]2P\[LetterSpace]degradation -1.0*p65\[LetterSpace]2P\[LetterSpace]dephosphorylation\[LetterSpace]0, p65\[LetterSpace]IkBa\[LetterSpace]nucleus'[t] == 1.0*re19 -1.0*Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]n -1.0*Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]n -1.0*Complex\[LetterSpace]nuclear\[LetterSpace]shuttle, p65\[LetterSpace]cytoplasm'[t] == 1.0*Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]c +1.0*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]n +1.0*p65\[LetterSpace]translation -1.0*Complex\[LetterSpace]association\[LetterSpace]c -1.0*p65\[LetterSpace]nuclear\[LetterSpace]shuttle, p65\[LetterSpace]nucleus'[t] == 1.0*Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]n +1.0*p65\[LetterSpace]2P\[LetterSpace]dephosphorylation\[LetterSpace]0 +1.0*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]c +1.0*p65\[LetterSpace]nuclear\[LetterSpace]shuttle -1.0*p65\[LetterSpace]phosphorylation\[LetterSpace]MSK1 -1.0*re19, s11'[t] == 1.0*Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]n +1.0*IkBa\[LetterSpace]nuclear\[LetterSpace]shuttle -1.0*IkBa\[LetterSpace]degradation\[LetterSpace]n -1.0*re19, s14'[t] == 1.0*re17 -1.0*IKK\[LetterSpace]phosphorylation -1.0*basal\[LetterSpace]IKKb\[LetterSpace]phosphorylation, s15'[t] == 1.0*IKK\[LetterSpace]phosphorylation +1.0*basal\[LetterSpace]IKKb\[LetterSpace]phosphorylation -1.0*re17, s16'[t] == 1.0*TNFa\[LetterSpace]LSEC\[LetterSpace]translation +1.0*TNFa\[LetterSpace]MC\[LetterSpace]translation -1.0*TNFa\[LetterSpace]TNFR1\[LetterSpace]association -1.0*TNFa\[LetterSpace]degradation, s19'[t] == 1.0*Complex\[LetterSpace]association\[LetterSpace]c +1.0*Complex\[LetterSpace]nuclear\[LetterSpace]shuttle -1.0*Complex\[LetterSpace]degradation\[LetterSpace]IkBa\[LetterSpace]c -1.0*Complex\[LetterSpace]degradation\[LetterSpace]p65\[LetterSpace]c -1.0*re15, s3'[t] == 1.0*re15 -1.0*p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]c -1.0*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]n -1.0*re3, s5'[t] == 1.0*IkBa\[LetterSpace]phosphorylation +1.0*re15 -1.0*re14, s8'[t] == 1.0*re3 -1.0*p65\[LetterSpace]P\[LetterSpace]degradation\[LetterSpace]n -1.0*p65\[LetterSpace]P\[LetterSpace]dephosphorylation\[LetterSpace]c -1.0*p65\[LetterSpace]P\[LetterSpace]phosphorylation\[LetterSpace]MSK1
};
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]}]