MODEL7743315447
type: SBMLModel
parameter: 509049
species: 508762
parameter: 509045
parameter: 509085
species: 508813
reaction: 508910
parameter: 509037
parameter: 509029
parameter: 509069
parameter: 509091
parameter: 509053
compartment: 508752
parameter: 509041
parameter: 509033
parameter: 509073
is described by: http://identifiers.org/pubmed/18854041
species: 508864
parameter: 509025
reaction: 508974
parameter: 509021
parameter: 509061
parameter: 509089
parameter: 509016
curated: false
reaction: 508938
time units: 754168
parameter: 509039
parameter: 509093
species: 508834
parameter: 509077
parameter: 509081
reaction: 508985
parameter: 509065
parameter: 509027
reaction: 508898
name: Radulescu2008_NFkB_hierarchy_M_6_10_15
species: 508782
species: 508803
parameter: 509031
reaction: 508925
parameter: 509055
parameter: 509095
substance units: 106194
volume units: metaid_0000217
parameter: 509047
parameter: 509079
notes: NFkB model M(6,10,15) This is a model of NFkB pathway functioning from hierarchy of models of decreasing complexity, created to demonstrate application of model reduction methods proposed in Radulescu O, Gorban A., Zinovyev A., Lilienbaum. A. Robust simplifications of multiscale models in systems biology. Manuscript submitted. 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 z - number of parameters 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 pathway at the moment t=20 hours=72000 sec. 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: 509043
parameter: 509083
parameter: 509035
parameter: 509067
reaction: 508885
species: 508854
parameter: 509019
parameter: 509059
species: 508823
species: 508844
reaction: 509002
length unit: length
parameter: 509051
species: 508792
species: 508772
area units: area
compartment: 508753
parameter: 509075
parameter: 509071
reaction: 508951
species: 508875
parameter: 509023
parameter: 509063
parameter: 509087
reaction: 508963
parameter: 509057

509049
type: Parameter
constant: true
value: 0.0025

508762
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508753
name: IKBA

508753
type: Compartment
constant: true
size: NaN
spatial dimensions: 3.0
name: nucleus

509045
type: Parameter
constant: true
value: 18.4

509085
type: Parameter
constant: true
value: 2.0E-5
name: =k3*k9/k4

508813
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: mRNAA20

508752
type: Compartment
constant: true
size: NaN
spatial dimensions: 3.0

508910
type: Reaction
kinetic law: 811913
modifier: 811901
modifier: 811889
product: 811877
reactant: 811865
fast: false
reversible: false

508823
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: A20

508834
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.06
in compartment: 508752
name: NFKB.IKBA

811877
type: SpeciesReference
stoichiometry: 1.0
species: 508772

508772
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: sa13_degraded

811865
type: SpeciesReference
stoichiometry: 1.0
species: 508864

508864
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: IkB_alpha

509037
type: Parameter
constant: true
value: 1.25E-4

509029
type: Parameter
constant: true
value: 0.2

509069
type: Parameter
constant: true
value: 5.0E-4

509091
type: Parameter
constant: true
value: 5.0
name: cytoplasm/nucleus volume ratio

509053
type: Parameter
constant: true
value: 0.5

509041
type: Parameter
constant: true
value: 18.4

509033
type: Parameter
constant: true
value: 1.0

509073
type: Parameter
constant: true
value: 0.01

509025
type: Parameter
constant: true
value: 0.0015

508974
type: Reaction
kinetic law: 812129
product: 812117
reactant: 812105
fast: false
reversible: false

812117
type: SpeciesReference
stoichiometry: 1.0
species: 508854

508854
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: sa97_degraded

812105
type: SpeciesReference
stoichiometry: 1.0
species: 508823

509021
type: Parameter
constant: false
value: 2.5E-6

509061
type: Parameter
constant: true
value: 0.0

509089
type: Parameter
constant: true
value: 0.015
name: =k5/k4

509016
type: Parameter
constant: true
value: 0.0025

508938
type: Reaction
kinetic law: 812009
modifier: 811997
product: 811985
reactant: 811973
fast: false
reversible: false

508875
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508753
name: NFKB

811985
type: SpeciesReference
stoichiometry: 1.0
species: 508813

811973
type: SpeciesReference
stoichiometry: 1.0
species: 508803

508803
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508753
name: A20

509039
type: Parameter
constant: true
value: 2.0E-5

509093
type: Parameter
constant: true
value: 0.001
name: =kf23

509077
type: Parameter
constant: true
value: 5.0E-7

509081
type: Parameter
constant: true
value: 1.359E-4
name: =kf15/kf13

508985
type: Reaction
kinetic law: 812189
modifier: 812177
modifier: 812165
product: 812153
reactant: 812141
fast: false
reversible: false

812153
type: SpeciesReference
stoichiometry: 5.0
species: 508875

812141
type: SpeciesReference
stoichiometry: 1.0
species: 508834

509065
type: Parameter
constant: true
value: 0.5

509027
type: Parameter
constant: true
value: 1.25E-4

508898
type: Reaction
kinetic law: 811853
product: 811841
reactant: 811829
fast: false
reversible: false

811841
type: SpeciesReference
stoichiometry: 1.0
species: 508782

508782
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: sa12_degraded

811829
type: SpeciesReference
stoichiometry: 1.0
species: 508792

508792
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: mRNAIKBA

509031
type: Parameter
constant: true
value: 0.1

508925
type: Reaction
kinetic law: 811961
product: 811949
product: 811937
reactant: 811925
fast: false
reversible: false

811949
type: SpeciesReference
stoichiometry: 1.0
species: 508792

811937
type: SpeciesReference
stoichiometry: 1.0
species: 508864

811925
type: SpeciesReference
stoichiometry: 1.0
species: 508792

509055
type: Parameter
constant: true
value: 4.0E-4

509095
type: Parameter
constant: true
value: 1.359E-4
name: =kv*kr23/kf14

509047
type: Parameter
constant: true
value: 0.0

509079
type: Parameter
constant: true
value: 3.397E-9
name: =kf15*k3*k9/k4/kf13

509043
type: Parameter
constant: true
value: 0.0

509083
type: Parameter
constant: true
value: 0.015
name: =k5/k4

509035
type: Parameter
constant: true
value: 0.1

509067
type: Parameter
constant: true
value: 0.001

508885
type: Reaction
kinetic law: 811817
modifier: 811805
product: 811793
reactant: 811781
fast: false
reversible: false

811793
type: SpeciesReference
stoichiometry: 1.0
species: 508792

811781
type: SpeciesReference
stoichiometry: 1.0
species: 508762

509019
type: Parameter
constant: true
value: 1.25E-4

509059
type: Parameter
constant: true
value: 5.0E-7

508844
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 508752
name: sa96_degraded

509002
type: Reaction
kinetic law: 812237
product: 812225
reactant: 812213
reactant: 812201
fast: false
reversible: false

812225
type: SpeciesReference
stoichiometry: 1.0
species: 508834

812213
type: SpeciesReference
stoichiometry: 1.0
species: 508864

812201
type: SpeciesReference
stoichiometry: 5.0
species: 508875

509051
type: Parameter
constant: true
value: 0.0

509075
type: Parameter
constant: true
value: 0.0

509071
type: Parameter
constant: true
value: 4.0E-4

508951
type: Reaction
kinetic law: 812057
product: 812045
product: 812033
reactant: 812021
fast: false
reversible: false

812045
type: SpeciesReference
stoichiometry: 1.0
species: 508813

812033
type: SpeciesReference
stoichiometry: 1.0
species: 508823

812021
type: SpeciesReference
stoichiometry: 1.0
species: 508813

509023
type: Parameter
constant: true
value: 0.1

509063
type: Parameter
constant: true
value: 1.0E-4

509087
type: Parameter
constant: true
value: 1.359E-4
name: =kf15/kf13

508963
type: Reaction
kinetic law: 812093
product: 812081
reactant: 812069
fast: false
reversible: false

812081
type: SpeciesReference
stoichiometry: 1.0
species: 508844

812069
type: SpeciesReference
stoichiometry: 1.0
species: 508813

509057
type: Parameter
constant: true
value: 3.0E-4