MODEL7743212613
type: SBMLModel
parameter: 494399
parameter: 494381
parameter: 494443
reaction: 494309
parameter: 494441
parameter: 494419
volume units: metaid_0000217
parameter: 494387
parameter: 494431
time units: 754168
parameter: 494407
parameter: 494363
parameter: 494375
species: 494185
parameter: 494435
species: 494226
parameter: 494367
parameter: 494379
species: 494205
parameter: 494411
parameter: 494423
parameter: 494437
parameter: 494393
parameter: 494425
parameter: 494417
reaction: 494350
name: Radulescu2008_NFkB_hierarchy_M_5_8_12
parameter: 494405
compartment: 494147
species: 494176
parameter: 494395
reaction: 494281
parameter: 494429
parameter: 494385
reaction: 494333
reaction: 494296
parameter: 494389
parameter: 494373
parameter: 494433
parameter: 494377
parameter: 494369
parameter: 494421
species: 494236
parameter: 494439
species: 494246
parameter: 494391
reaction: 494322
length unit: length
parameter: 494415
parameter: 494427
species: 494195
reaction: 494257
reaction: 494270
parameter: 494403
parameter: 494397
substance units: 106194
notes: NFkB model M(5,8,12) - minimal model This is a model of NFkB pathway functioning from hierarchy of models of decreasing complexity, created to demonstrate application of model reduction methods Radulescu O, Gorban A., Zinovyev A., Lilienbaum. A. Robust simplifications of multiscale models in The models are provided in CellDesigner v3.5 format. The name of the model M(x,y,z) should be deciphered as following x - number of species y - number of reactions Simulation protocol: The model can be simulated in CellDesigner directly, or in any simulator supporting events. The simulation period should be set up in 40 hours (t=144000 sec). The 'signal' event applies signal to the For additional information please contact Andrei.Zinovyev at curie.fr This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2011 The BioModels.net Team. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.. To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.
parameter: 494383
curated: false
species: 494156
area units: area
parameter: 494371
compartment: 494145
parameter: 494409
parameter: 494365
species: 494216
species: 494166
parameter: 494413
is described by: http://identifiers.org/pubmed/18854041
parameter: 494401

494399
type: Parameter
constant: true
value: 0.5

494381
type: Parameter
constant: true
value: 0.1

494443
type: Parameter
constant: true
value: 6.25E-4
name: =k16*k20/k17

494309
type: Reaction
kinetic law: 803869
modifier: 803857
product: 803845
reactant: 803833
fast: false
reversible: false

494246
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494147
name: NFKB

494147
type: Compartment
constant: true
size: NaN
spatial dimensions: 3.0
name: nucleus

803845
type: SpeciesReference
stoichiometry: 1.0
species: 494205

494205
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: A20

494145
type: Compartment
constant: true
size: NaN
spatial dimensions: 3.0

803833
type: SpeciesReference
stoichiometry: 1.0
species: 494195

494195
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494147
name: A20

494441
type: Parameter
constant: true
value: 1.359E-4
name: =kv*kr23/kf14

494419
type: Parameter
constant: true
value: 0.01

494387
type: Parameter
constant: true
value: 18.4

494431
type: Parameter
constant: true
value: 2.0E-5
name: =k3*k9/k4

494407
type: Parameter
constant: true
value: 0.0

494363
type: Parameter
constant: true
value: 0.0025

494375
type: Parameter
constant: true
value: 0.2

494185
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: mRNAIKBA

494435
type: Parameter
constant: true
value: 0.015
name: =k5/k4

494226
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: sa97_degraded

494367
type: Parameter
constant: false
value: 2.5E-6

494379
type: Parameter
constant: true
value: 1.0

494411
type: Parameter
constant: true
value: 0.5

494423
type: Parameter
constant: true
value: 5.0E-7

494437
type: Parameter
constant: true
value: 5.0
name: cytoplasm/nucleus volume ratio

494393
type: Parameter
constant: true
value: 0.0

494425
type: Parameter
constant: true
value: 3.397E-9
name: =kf15*k3*k9/k4/kf13

494417
type: Parameter
constant: true
value: 4.0E-4

494350
type: Reaction
kinetic law: 804013
product: 804001
reactant: 803989
reactant: 803977
fast: false
reversible: false

804001
type: SpeciesReference
stoichiometry: 1.0
species: 494216

494216
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.06
in compartment: 494145
name: NFKB.IKBA

803989
type: SpeciesReference
stoichiometry: 1.0
species: 494236

494236
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: IkB_alpha

803977
type: SpeciesReference
stoichiometry: 5.0
species: 494246

494405
type: Parameter
constant: true
value: 5.0E-7

494176
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: sa12_degraded

494395
type: Parameter
constant: true
value: 0.0025

494281
type: Reaction
kinetic law: 803773
modifier: 803761
modifier: 803749
product: 803737
reactant: 803725
fast: false
reversible: false

803737
type: SpeciesReference
stoichiometry: 1.0
species: 494166

494166
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494145
name: sa13_degraded

803725
type: SpeciesReference
stoichiometry: 1.0
species: 494236

494429
type: Parameter
constant: true
value: 0.015
name: =k5/k4

494385
type: Parameter
constant: true
value: 2.0E-5

494333
type: Reaction
kinetic law: 803965
modifier: 803953
modifier: 803941
product: 803929
reactant: 803917
fast: false
reversible: false

803929
type: SpeciesReference
stoichiometry: 5.0
species: 494246

803917
type: SpeciesReference
stoichiometry: 1.0
species: 494216

494296
type: Reaction
kinetic law: 803821
product: 803809
product: 803797
reactant: 803785
fast: false
reversible: false

803809
type: SpeciesReference
stoichiometry: 1.0
species: 494185

803797
type: SpeciesReference
stoichiometry: 1.0
species: 494236

803785
type: SpeciesReference
stoichiometry: 1.0
species: 494185

494389
type: Parameter
constant: true
value: 0.0

494373
type: Parameter
constant: true
value: 1.25E-4

494433
type: Parameter
constant: true
value: 1.359E-4
name: =kf15/kf13

494377
type: Parameter
constant: true
value: 0.1

494369
type: Parameter
constant: true
value: 0.1

494421
type: Parameter
constant: true
value: 0.0

494439
type: Parameter
constant: true
value: 0.001
name: =kf23

494391
type: Parameter
constant: true
value: 18.4

494322
type: Reaction
kinetic law: 803905
product: 803893
reactant: 803881
fast: false
reversible: false

803893
type: SpeciesReference
stoichiometry: 1.0
species: 494226

803881
type: SpeciesReference
stoichiometry: 1.0
species: 494205

494415
type: Parameter
constant: true
value: 5.0E-4

494427
type: Parameter
constant: true
value: 1.359E-4
name: =kf15/kf13

494257
type: Reaction
kinetic law: 803677
modifier: 803665
product: 803653
reactant: 803641
fast: false
reversible: false

803653
type: SpeciesReference
stoichiometry: 1.0
species: 494185

803641
type: SpeciesReference
stoichiometry: 1.0
species: 494156

494156
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 494147
name: IKBA

494270
type: Reaction
kinetic law: 803713
product: 803701
reactant: 803689
fast: false
reversible: false

803701
type: SpeciesReference
stoichiometry: 1.0
species: 494176

803689
type: SpeciesReference
stoichiometry: 1.0
species: 494185

494403
type: Parameter
constant: true
value: 3.0E-4

494397
type: Parameter
constant: true
value: 0.0

494383
type: Parameter
constant: true
value: 1.25E-4

494371
type: Parameter
constant: true
value: 0.0015

494409
type: Parameter
constant: true
value: 1.0E-4

494365
type: Parameter
constant: true
value: 1.25E-4

494413
type: Parameter
constant: true
value: 0.001

494401
type: Parameter
constant: true
value: 4.0E-4