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Model : diauxic_top

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

SBML model


iddiauxic_top
nameTop level model
versionL3V1
timeh
substancemmol
extentmmol
volumel
aream2
lengthm
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 [5] 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
dummy_S dummy_S
bioreactor 0.0 mmol 10 3 mole litre

Parameters [16] name value unit derived unit constant sbo cvterm
dt fba timestep 0.01 h 3600 s
Y biomass [g_per_l] 1.0 g_per_l g litre
O2_ref O2 reference 0.21 mmol_per_l 10 3 mole litre
kLa O2 mass transfer 7.5 per_h 1 3600 s
EX_Glcxt 1.0 mmol_per_h 10 3 mole 3600 s
EX_Ac 1.0 mmol_per_h 10 3 mole 3600 s
EX_O2 1.0 mmol_per_h 10 3 mole 3600 s
EX_X 1.0 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

Rules [5]   assignment derived units sbo cvterm
EX_Glcxt = dummy_EX_Glcxt 10 3 mole 3600 s
EX_Ac = dummy_EX_Ac 10 3 mole 3600 s
EX_O2 = dummy_EX_O2 10 3 mole 3600 s
EX_X = dummy_EX_X 10 3 mole 3600 s
Y = 1 X g litre

Reactions [5] name equation modifiers formula derived units sbo cvterm
dummy_EX_Glcxt EX_Glcxt dummy ➞ dummy_S
dummy_EX_O2 EX_O2 dummy ➞ dummy_S
dummy_EX_Ac EX_Ac dummy ➞ dummy_S
dummy_EX_X EX_X dummy ➞ dummy_S
vO2_transfer oxygen transfer ⇆ O2 kLa O2_ref O2 bioreactor 10 3 mole 3600 s