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Model : diauxic_bounds

Creator
Matthias, Koenig, Humboldt University Berlin, konigmatt@googlemail.com
Created: 2017-03-17 21:17
Modified: 2017-03-17 21:17

SBML model


iddiauxic_bounds
nameODE bounds submodel
versionL3V1
timeh
substancemmol
extentmmol
volumel
aream2
lengthm
FunctionDefinitions [2] name math sbo cvterm
max minimum of arguments x y x x y y
min maximum of arguments x y x x y y

UnitDefinitions [12] name units sbo cvterm
h 3600 s
g g
m m
m2 m 2
l litre
mmol 10 3 mole
per_h 1 3600 s
mmol_per_h 10 3 mole 3600 s
mmol_per_l 10 3 mole litre
l_per_mmol litre 10 3 mole
g_per_l g litre
g_per_mmol g 10 3 mole

Compartments [1] name size constant spatial dimensions unit derived unit sbo cvterm
bioreactor bioreactor 1.0 3 l litre

Species [4] name compartment boundary condition constant initial amount initial concentration substance units derived units sbo cvterm
Glcxt glucose
bioreactor 10.8 mmol 10 3 mole litre
Ac acetate
bioreactor 0.4 mmol 10 3 mole litre
O2 oxygen
bioreactor 0.21 mmol 10 3 mole litre
X biomass
bioreactor 0.001 mmol 10 3 mole litre

Parameters [17] name value unit derived unit constant sbo cvterm
dt fba timestep 0.01 h 3600 s
zero zero bound 0.0 mmol_per_h 10 3 mole 3600 s
lb_default default lower bound -1000.0 mmol_per_h 10 3 mole 3600 s
ub_default default upper bound 1000.0 mmol_per_h 10 3 mole 3600 s
lb_EX_Ac -1000.0 mmol_per_h 10 3 mole 3600 s
ub_EX_Ac 1000.0 mmol_per_h 10 3 mole 3600 s
lb_EX_Glcxt -1000.0 mmol_per_h 10 3 mole 3600 s
ub_EX_Glcxt 1000.0 mmol_per_h 10 3 mole 3600 s
lb_EX_O2 -1000.0 mmol_per_h 10 3 mole 3600 s
ub_EX_O2 1000.0 mmol_per_h 10 3 mole 3600 s
lb_EX_X -1000.0 mmol_per_h 10 3 mole 3600 s
ub_EX_X 1000.0 mmol_per_h 10 3 mole 3600 s
lb_kin_EX_Glcxt -1000.0 mmol_per_h 10 3 mole 3600 s
lb_kin_EX_O2 -1000.0 mmol_per_h 10 3 mole 3600 s
Vmax_EX_O2 15.0 mmol_per_h 10 3 mole 3600 s
Vmax_EX_Glcxt 10.0 mmol_per_h 10 3 mole 3600 s
Km_EX_Glcxt Km_vGlcxt 0.015 mmol_per_l 10 3 mole litre

Rules [6]   assignment derived units sbo cvterm
lb_kin_EX_Glcxt = Vmax_EX_Glcxt Glcxt Km_EX_Glcxt Glcxt 0.001 mole 3600 s
lb_kin_EX_O2 = Vmax_EX_O2 10 3 mole 3600 s
lb_EX_Ac = max lb_default Ac bioreactor dt 10 3 mole 3600 s
lb_EX_Glcxt = max lb_kin_EX_Glcxt Glcxt bioreactor dt 10 3 mole 3600 s
lb_EX_O2 = max lb_kin_EX_O2 O2 bioreactor dt 10 3 mole 3600 s
lb_EX_X = max lb_default X bioreactor dt 10 3 mole 3600 s