Wholecell Toy Model
Model version: 9
FBA submodel
DFBA fba submodel. Unbalanced metabolites are encoded via exchange fluxes.
Description
This is a toy model for coupling models with different modeling frameworks via comp.
This file has been produced by
Matthias Koenig.
Terms of use
Copyright © 2017 Matthias Koenig
Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:
- Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.
- Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
Model : toy_fba
CreatorMatthias, Koenig, Humboldt University Berlin, konigmatt@googlemail.com
Created: 2017-04-28 12:24
Modified: 2017-04-28 12:24
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type | UnitDefinitions [9] | name | units | sbo | cvterm |
---|---|---|---|---|---|
UnitDefinition | s | ||||
UnitDefinition | kg | ||||
UnitDefinition | m | ||||
UnitDefinition | m2 | ||||
UnitDefinition | m3 | ||||
UnitDefinition | mM | ||||
UnitDefinition | per_s | ||||
UnitDefinition | item_per_s | ||||
UnitDefinition | item_per_m3 |
type | Compartments [3] | name | size | constant | spatial dimensions | unit | derived unit | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|
Compartment | extern | external compartment | 1.0 | T | 3 | m3 | |||
Compartment | cell | cell | 1.0 | T | 3 | m3 | |||
Compartment | membrane | membrane | 1.0 | T | 2 | m2 |
type | Species [4] | name | compartment | boundary condition | constant | initial amount | initial concentration | substance units | derived units | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|---|---|
Species | A | A |
extern | F | F | 0.0 | item | ||||
Species | C | C |
extern | F | F | 0.0 | item | ||||
Species | B1 | B1 |
cell | F | F | 0.0 | item | ||||
Species | B2 | B2 |
cell | F | F | 0.0 | item |
type | Parameters [7] | name | value | unit | derived unit | constant | sbo | cvterm |
---|---|---|---|---|---|---|---|---|
Parameter | ub_R1 | 1.0 | item_per_s | T | ||||
Parameter | zero | 0.0 | item_per_s | T | ||||
Parameter | ub_default | 1000.0 | item_per_s | T | ||||
Parameter | lb_EX_A | -1000.0 | item_per_s | T | ||||
Parameter | ub_EX_A | 1000.0 | item_per_s | T | ||||
Parameter | lb_EX_C | -1000.0 | item_per_s | T | ||||
Parameter | ub_EX_C | 1000.0 | item_per_s | T |
type | Reactions [5] | name | equation | modifiers | formula | derived units | sbo | cvterm | |
---|---|---|---|---|---|---|---|---|---|
Reaction | R1 | A import (R1) | ⇆ | A ⇆ B1 | |||||
Reaction | R2 | B1 <-> B2 (R2) | ⇆ | B1 ⇆ B2 | |||||
Reaction | R3 | B2 export (R3) | ⇆ | B2 ⇆ C | |||||
Reaction | EX_A | ⇆ | A ⇆ | ||||||
Reaction | EX_C | ⇆ | C ⇆ |