|
|
re055 |
[E] → [Ep];
{HP} , {E} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re066 |
[HP] → [HP];
{Edead} , {HP} , {Edead}
|
Math: |
(Details: ) |
Annotations: |
|
|
re059 |
[Ep] → [Edead];
{Th1} , {Th17} , {M1} , {Ep} , {Th1} , {Th17} , {M1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re105 |
[iDC] + [HP] → [eDC];
{iDC} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re074 |
[emT] → [iTreg];
{M2} , {tDC} , {emT} , {M2} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re063 |
[iDC] + [HP] → [eDC];
{iDC} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re058 |
[E] → [Edead];
{Th1} , {Th17} , {M1} , {E} , {Th1} , {Th17} , {M1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re070 |
[M0] → [M1];
{M1} , {eDC} , {Th1} , {Th17} , {Ep} , {M0} , {M1} , {eDC} , {Th1} , {Th17} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re073 |
[M0] → [M2];
{M2} , {iTreg} , {tDC} , {M0} , {M2} , {iTreg} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re072 |
[M2] → [M1];
{Th1} , {M1} , {eDC} , {Th17} , {Ep} , {M2} , {Th1} , {M1} , {eDC} , {Th17} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re077 |
[iDC] + [HP] → [tDC];
{iDC} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re078 |
[eDC] → [eDC];
{eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re079 |
[tDC] → [tDC];
{tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re080 |
[nT] → [Th17];
{eDC} , {eDCLB} , {nT} , {eDC} , {eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re081 |
[nT] → [Th1];
{eDC} , {nT} , {eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re082 |
[nT] → [iTreg];
{tDC} , {nT} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re083 |
[cmT] → [Th17];
{eDC} , {eDCLB} , {cmT} , {eDC} , {eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re084 |
[cmT] → [Th1];
{eDC} , {eDCLB} , {cmT} , {eDC} , {eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re085 |
[cmT] → [iTreg];
{tDC} , {cmT} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re087 |
[Th17] → [Th17];
{Th17}
|
Math: |
(Details: ) |
Annotations: |
|
|
re088 |
[Th1] → [Th1];
{Th1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re089 |
[iTreg] → [iTreg];
{iTreg}
|
Math: |
(Details: ) |
Annotations: |
|
|
re091 |
[iTreg] → [Th17];
{Th1} , {eDC} , {Th17} , {iTreg} , {Th1} , {eDC} , {Th17}
|
Math: |
(Details: ) |
Annotations: |
|
|
re093 |
[iTreg] → [Th17];
{Th17} , {eDC} , {M1} , {Th1} , {Ep} , {iTreg} , {Th17} , {eDC} , {M1} , {Th1} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re095 |
[Th17] → [emT];
{Th17}
|
Math: |
(Details: ) |
Annotations: |
|
|
re096 |
[Th1] → [emT];
{Th1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re097 |
[iTreg] → [emT];
{iTreg}
|
Math: |
(Details: ) |
Annotations: |
|
|
re098 |
[Th17] → [cmT];
{Th17}
|
Math: |
(Details: ) |
Annotations: |
|
|
re099 |
[Th1] → [cmT];
{Th1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re100 |
[iTreg] → [cmT];
{iTreg}
|
Math: |
(Details: ) |
Annotations: |
|
|
re060 |
[Ep] → [E];
{Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re057 |
[Edead] → [E];
{Edead}
|
Math: |
(Details: ) |
Annotations: |
|
|
re102 |
[HP] → 2.0 × [HP];
{HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re101 |
[HP] → ;
{HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re052 |
[HP] → 2.0 × [HP];
{HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re065 |
[HP] → ;
{HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re103 |
[emT] → [Th1];
{M1} , {eDC} , {eDCLB} , {emT} , {M1} , {eDC} , {eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re104 |
[emT] → [Th17];
{M1} , {eDC} , {eDCLB} , {emT} , {M1} , {eDC} , {eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re119 |
[Th17] → ;
{Th17}
|
Math: |
(Details: ) |
Annotations: |
|
|
re106 |
→ [nT];
{eDC} , {eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re107 |
[nT] → ;
{nT}
|
Math: |
(Details: ) |
Annotations: |
|
|
re061 |
[HP] → [HP];
{Ep} , {HP} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re062 |
[iDC] + [HP] → [tDC];
{iDC} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re067 |
[HP] → ;
{Ep} , {M1} , {HP} , {Ep} , {M1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re053 |
[HP] → ;
{Ep} , {HP} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re068 |
→ [iDC];
{Ep} , {M1} , {eDC} , {Ep} , {M1} , {eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re069 |
→ [M0];
{M1} , {Ep} , {eDC} , {M1} , {Ep} , {eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re111 |
[iDC] → ;
{iDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re112 |
[M0] → ;
{M0}
|
Math: |
(Details: ) |
Annotations: |
|
|
re117 |
[M1] → ;
{M1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re118 |
[M2] → ;
{M2}
|
Math: |
(Details: ) |
Annotations: |
|
|
re120 |
[Th1] → ;
{Th1}
|
Math: |
(Details: ) |
Annotations: |
|
|
re121 |
[iTreg] → ;
{iTreg}
|
Math: |
(Details: ) |
Annotations: |
|
|
re071 |
[M1] → [M2];
{iTreg} , {M2} , {tDC} , {M1} , {iTreg} , {M2} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re094 |
[Th17] → [iTreg];
{iTreg} , {tDC} , {M2} , {Th17} , {iTreg} , {tDC} , {M2}
|
Math: |
(Details: ) |
Annotations: |
|
|
re092 |
[Th17] → [iTreg];
{iTreg} , {tDC} , {Th17} , {iTreg} , {tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re122 |
[M0] + [HP] → [M1];
{M0} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re123 |
[M0] + [HP] → [M2];
{M0} , {HP}
|
Math: |
(Details: ) |
Annotations: |
|
|
re116 |
[eDC] → ;
{eDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re124 |
[tDC] → ;
{tDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re127 |
[iDC] ↔ [iDC];
{iDC} , {iDC}
|
Math: |
(Details: ) |
Annotations: |
|
|
re128 |
[iDC] → [tDC];
{LB} , {iDC} , {LB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re129 |
[iDC] → [eDC];
{LB} , {iDC} , {LB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re130 |
[LB] → ;
{LB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re131 |
→ [iTreg]; |
Math: |
(Details: ) |
Annotations: |
|
|
re132 |
→ [Th1]; |
Math: |
(Details: ) |
Annotations: |
|
|
re133 |
→ [Th17]; |
Math: |
(Details: ) |
Annotations: |
|
|
re134 |
→ [iTreg]; |
Math: |
(Details: ) |
Annotations: |
|
|
re135 |
→ [Th1]; |
Math: |
(Details: ) |
Annotations: |
|
|
re136 |
→ [Th17]; |
Math: |
(Details: ) |
Annotations: |
|
|
re137 |
[eDCLB] → [eDCLB];
{eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re138 |
[eDCLB] → ;
{eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
re139 |
[E] → [Ep];
{Th1} , {Th17} , {eDC} , {M1} , {Ep} , {E} , {Th1} , {Th17} , {eDC} , {M1} , {Ep}
|
Math: |
(Details: ) |
Annotations: |
|
|
re140 |
[eDCLB] → ;
{eDCLB}
|
Math: |
(Details: ) |
Annotations: |
|
|
nTh1 creation |
[nT] → [nTh1];
{nT}
|
Math: |
(Details: ) |
|
nTh1 trans |
[nTh1] → [nTh1_LP];
{nTh1}
|
Math: |
(Details: ) |
|
nTh1_LP deg |
[nTh1_LP] → ;
{nTh1_LP}
|
Math: |
(Details: ) |
|
nTh1_LP expansion |
[nTh1_LP] → 2.0 × [nTh1_LP];
{nTh1_LP}
|
Math: |
(Details: ) |
|
nTh1 deg |
[nTh1] → ;
{nTh1}
|
Math: |
(Details: ) |
|
nTh17 creation |
[nT] → [nTh17];
{nT}
|
Math: |
(Details: ) |
|
nTh17 trans |
[nTh17] → [nTh17_LP];
{nTh17}
|
Math: |
(Details: ) |
|
nTh17_LP deg |
[nTh17_LP] → ;
{nTh17_LP}
|
Math: |
(Details: ) |
|
nTh17 deg |
[nTh17] → ;
{nTh17}
|
Math: |
(Details: ) |
|
nTreg creation |
[nT] → [nTreg];
{nT}
|
Math: |
(Details: ) |
|
nTreg trans |
[nTreg] → [nTreg_LP];
{nTreg}
|
Math: |
(Details: ) |
|
nTreg_LP deg |
[nTreg_LP] → ;
{nTreg_LP}
|
Math: |
(Details: ) |
|
nTreg deg |
[nTreg] → ;
{nTreg}
|
Math: |
(Details: ) |
|
Th17 to Treg |
[nTh17_LP] → [nTreg_LP];
{nTh17_LP}
|
Math: |
(Details: ) |
|
|
|
Assignment Rule (name: parameter_2) |
vHP2 = 1-parameter_1 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_5) |
aTh1 = 1-ModelValue_3 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_11) |
ath1 = 1E-6-ModelValue_10 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_16) |
tcmT = parameter_13*parameter_14*0.6 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_15) |
toemT = parameter_13*0.4*parameter_14 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_2) |
TotalDC = s9+species_1+s25+s4 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_3) |
TotalM = s22+s19+s21 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_4) |
TotalT = s13+s16+s15+s17 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_6) |
TotalDC = s26+s27 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_8) |
TotalT = s31+s30+s33+s29+s28 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: species_9) |
TotalT-s = 0.01*(s31+s30+s33+(s28+s29)/parameter_70) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_17) |
pt = parameter_49*1/(1+parameter_51*s33) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_18) |
pT = parameter_50*1/(1+parameter_51*s15+parameter_52*s6) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_22) |
Stim_emT_Th17 = parameter_4*parameter_48 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_23) |
Stim_emT_Th1 = parameter_48*parameter_5 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_24) |
Stim_emT_iTreg = parameter_3*parameter_48 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_25) |
Stim_cmT_Th1 = parameter_5*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_26) |
Stim_cmT_Th17 = parameter_4*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_27) |
Stim_cmT_iTreg = parameter_3*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_28) |
Stim_t_Th1 = parameter_11*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_29) |
Stim_t_Th17 = parameter_12*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_30) |
Stim_t_iTreg = parameter_10*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_37) |
cyto_change = parameter_7*parameter_36 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_54) |
HP_Ep_Lumen = parameter_7*parameter_39 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_55) |
iDCtoeDC_Lumen = parameter_1*parameter_107 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_56) |
iDCtotDC_Lumen = parameter_2*parameter_47 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_57) |
iDCtoeDC_LP = parameter_1*parameter_107 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_58) |
iDCtotDC_LP = parameter_2*parameter_48 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_59) |
M0toM1_LP = parameter_1*parameter_48 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_60) |
M0toM2_LP = parameter_2*parameter_48 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_79) |
new_iTreg_GLN = parameter_17*(parameter_27*s29+parameter_30*s28)*s27 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_64) |
T_deactivation = (1-parameter_14)*parameter_13 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_67) |
iTreg NS (rel) = s33/species_8 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_68) |
Th1 NS (rel) = s31/species_8 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_69) |
Th17 NS (rel) = s30/species_8 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_71) |
iTreg S (rel) = s33/species_9 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_72) |
Th1 S (rel) = s31/species_9 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_73) |
Th17 S (rel) = s30/species_9 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_75) |
vLB2 = 1-parameter_74 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_77) |
iDCtotDC_LB = parameter_75*parameter_76 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_78) |
iDCtoeDC_LB = parameter_74*parameter_107 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_82) |
new_emT_iTreg = parameter_18*parameter_24*(s25+s21)*s17 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_96) |
ath1LB = 1E-6-parameter_95 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_98) |
aTh1LB = 1-parameter_97 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_100) |
Stim_emT_Th1LB = parameter_48*parameter_98 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_83) |
new_emT_Th1 = parameter_18*(parameter_23*(s19+s9)*s17+s17*species_18*parameter_100) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_99) |
Stim_emT_Th17LB = parameter_48*parameter_97 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_84) |
new_emT_Th17 = parameter_18*(parameter_22*(s19+s9)*s17+s17*species_18*parameter_99) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_101) |
Stim_cmT_Th1LB = parameter_53*parameter_98 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_102) |
Stim_cmT_Th17LB = parameter_53*parameter_97 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_103) |
Stim_t_Th1LB = parameter_53*parameter_96 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_80) |
new_Th1_GLN = parameter_17*((parameter_25*s29+parameter_28*s28)*s26+(s29*parameter_101+s28*parameter_103)*species_20) |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_104) |
Stim_t_Th17LB = parameter_95*parameter_53 |
Math: |
(Details: ) |
|
|
Assignment Rule (name: parameter_81) |
new_Th17_GLN = parameter_17*((parameter_26*s29+parameter_29*s28)*s26+species_20*(s29*parameter_102+s28*parameter_104)) |
Math: |
(Details: ) |
|
|
|
|
2nd Dose |
HP = s1+species_7*parameter_6 |
LB = species_10+species_11 |
|
Trigger: |
time >= 2 |
Annotations: |
|
|
3rd Dose |
HP = s1+species_7*parameter_6 |
LB = species_10+species_11 |
|
Trigger: |
time >= 4 |
Annotations: |
|
|
|
|
Constant flux (irreversible) |
lambda(v, v) |
Math: |
 |
|
|
1 reactant, 3 activators, KVW |
lambda(Vf, r1, A1, n1, A2, n2, A3, n3, Vf*r1*(n1*A1+n2*A2+n3*A3)) |
Math: |
 |
|
|
1sub 1 activator 1 parameter |
lambda(substrate, a1, k1, substrate*a1*k1) |
Math: |
 |
|
|
1sub 2 activators 2 parameters |
lambda(substrate, k1, a1, k2, a2, substrate*(k1*a1+k2*a2)) |
Math: |
 |
|
|
Constant Flux, 3 activators |
lambda(c, k, A, n, kA, B, kB, C, kC, c+k*(A^n/(A^n+kA^n)+B^n/(B^n+kB^n)+C^n/(C^n+kC^n))) |
Math: |
 |
|
|
Constant Flux, 1 activator |
lambda(k, A, n, kA, c, c+k*A^n/(A^n+kA^n)) |
Math: |
 |
|
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1 sub 5 activators |
lambda(k, substrate, A, n, kA, B, kB, C, kC, D, kD, E, kE, k*substrate*(A^n/(A^n+kA^n)+B^n/(B^n+kB^n)+C^n/(C^n+kC^n)+D^n/(D^n+kD^n)+E^n/(E^n+kE^n))) |
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1 sub 3 activators |
lambda(k, substrate, A, n, kA, B, kB, C, kC, k*substrate*(A^n/(A^n+kA^n)+B^n/(B^n+kB^n)+C^n/(C^n+kC^n))) |
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1 sub 2 activators |
lambda(k, substrate, A, n, kA, B, kB, k*substrate*(A^n/(A^n+kA^n)+B^n/(B^n+kB^n))) |
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bact repo |
lambda(k, sub, c, k*sub/(c+sub)) |
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iDC_Ep replenishment |
lambda(V, s, k, P, V*(s-k*P)) |
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1 sub 2 act 2 params 1 const |
lambda(substrate, k, k1, a1, k2, a2, substrate*k*(k1*a1+k2*a2)) |
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1 sub 3 activators 3 parameters |
lambda(substrate, k1, a1, k2, a2, k3, a3, substrate*(k1*a1+k2*a2+k3*a3)) |
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