MODEL7743528808
type: SBMLModel
parameter: metaid_0000059
reaction: metaid_0000148
parameter: metaid_0000031
species: metaid_0000125
reaction: metaid_0000139
parameter: metaid_0000058
parameter: metaid_0000082
name: Radulescu2008_NFkB_hierarchy_M_14_30_41
parameter: metaid_0000069
parameter: metaid_0000043
reaction: metaid_0000151
species: metaid_0000113
length unit: length
parameter: metaid_0000066
species: metaid_0000127
parameter: metaid_0000094
reaction: metaid_0000152
parameter: metaid_0000078
parameter: metaid_0000051
parameter: metaid_0000071
species: metaid_0000108
parameter: metaid_0000044
species: metaid_0000120
species: metaid_0000133
parameter: metaid_0000013
parameter: metaid_0000083
reaction: metaid_0000156
parameter: metaid_0000056
parameter: metaid_0000008
curated: false
parameter: metaid_0000080
parameter: metaid_0000067
notes: NFkB model M(14,30,41) 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.
compartment: metaid_0000104
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parameter: metaid_0000092
parameter: metaid_0000084
reaction: metaid_0000135
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species: metaid_0000115
species: metaid_0000123
substance units: 106194
parameter: metaid_0000017
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parameter: metaid_0000011
parameter: metaid_0000010
parameter: metaid_0000081
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parameter: metaid_0000035
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reaction: metaid_0000158
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species: metaid_0000130
species: metaid_0000110
reaction: metaid_0000140
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species: metaid_0000129
parameter: metaid_0000037
time units: 754168
parameter: metaid_0000028
parameter: metaid_0000040
parameter: metaid_0000102

metaid_0000059
type: Parameter
constant: true
value: 1.0E-4

metaid_0000148
type: Reaction
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product: 840266
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fast: false
reversible: false

840266
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metaid_0000113
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metaid_0000103
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metaid_0000114
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metaid_0000031
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value: 4.0E-4

metaid_0000125
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metaid_0000082
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metaid_0000069
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metaid_0000043
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value: 0.02

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reversible: false

840398
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metaid_0000119
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metaid_0000104
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metaid_0000066
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metaid_0000127
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name: NFkB:IKKa:Ikb_alpha

metaid_0000094
type: Parameter
constant: true
value: 6.7E-8
name: =k39*k36*kr66*k70*P0/(k37*kf66*(k38+k39))

metaid_0000152
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reactant: 840422
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metaid_0000078
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metaid_0000051
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value: 6.4E-5

metaid_0000071
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metaid_0000044
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metaid_0000120
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metaid_0000013
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metaid_0000083
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value: 18.4

metaid_0000156
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metaid_0000056
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metaid_0000008
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metaid_0000080
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metaid_0000067
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metaid_0000033
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metaid_0000092
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metaid_0000084
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metaid_0000135
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839669
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metaid_0000045
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metaid_0000115
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metaid_0000123
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metaid_0000017
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metaid_0000099
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value: 1.1957E-8
name: =P0*kr58*k62/kf58

metaid_0000096
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value: 0.003
name: =kr66/kf66

metaid_0000011
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metaid_0000010
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metaid_0000081
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metaid_0000154
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metaid_0000073
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metaid_0000035
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metaid_0000122
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metaid_0000015
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metaid_0000097
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value: 1.0E-10
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metaid_0000006
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value: 0.1

metaid_0000085
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metaid_0000158
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840686
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metaid_0000121
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840674
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metaid_0000047
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metaid_0000110
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metaid_0000140
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839923
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metaid_0000111
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839911
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metaid_0000116
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metaid_0000018
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metaid_0000109
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metaid_0000101
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name: =kr58/kf58

metaid_0000048
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value: 5.0E-5

metaid_0000020
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metaid_0000137
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839790
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metaid_0000039
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metaid_0000019
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metaid_0000037
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metaid_0000040
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metaid_0000102
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metaid_0000060
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metaid_0000049
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metaid_0000021
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metaid_0000160
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840758
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species: metaid_0000122

840746
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metaid_0000153
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metaid_0000075
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metaid_0000072
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metaid_0000022
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metaid_0000079
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metaid_0000009
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metaid_0000050
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metaid_0000041
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metaid_0000061
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metaid_0000034
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metaid_0000100
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metaid_0000070
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metaid_0000062
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metaid_0000093
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metaid_0000012
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metaid_0000036
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metaid_0000098
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metaid_0000016
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metaid_0000007
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metaid_0000089
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value: 2.0E-4

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metaid_0000055
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metaid_0000025
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metaid_0000005
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value: 1.0E-5

metaid_0000091
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value: 6.66E-6
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metaid_0000142
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840010
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metaid_0000134
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metaid_0000106
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metaid_0000090
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value: 2.0E-4

metaid_0000026
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value: 1.0E-4

metaid_0000095
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value: 0.0061
name: =kf68/kf64

metaid_0000146
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species: metaid_0000116

metaid_0000143
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reversible: false

840049
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species: metaid_0000115

840036
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species: metaid_0000117

metaid_0000038
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metaid_0000107
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constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000103
name: sa13_degraded

metaid_0000029
type: Parameter
constant: true
value: 5.0E-4

metaid_0000132
type: Species
constant: false
boundary condition: false
has only substance units: false
initial concentration: 4.9E-324
initial amount: NaN
in compartment: metaid_0000104
name: IKB_alpha

metaid_0000064
type: Parameter
constant: true
value: 2.0E-4

metaid_0000023
type: Parameter
constant: true
value: 3.0E-4

metaid_0000118
type: Species
constant: true
boundary condition: true
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: metaid_0000103
name: sa20_degraded

metaid_0000147
type: Reaction
kinetic law: 840242
product: 840230
product: 840218
reactant: 840205
fast: false
reversible: false

840230
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000116

840218
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000128

840205
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000127

metaid_0000163
type: Event
event assignment: 840878
delay: 840866
trigger: 840854
use values from trigger time: true
name: signal

840854
type: Trigger
persistant: true
initial value: true

metaid_0000138
type: Reaction
kinetic law: 839850
product: 839838
reactant: 839826
fast: false
reversible: false

839838
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000107

839826
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000108

metaid_0000076
type: Parameter
constant: true
value: 8.0E-13

metaid_0000068
type: Parameter
constant: true
value: 4.8E-4

metaid_0000027
type: Parameter
constant: true
value: 0.5

metaid_0000042
type: Parameter
constant: true
value: 5.0E-4

metaid_0000030
type: Parameter
constant: true
value: 0.0

metaid_0000144
type: Reaction
kinetic law: 840101
product: 840088
reactant: 840075
fast: false
reversible: false

840088
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000118

840075
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000116

metaid_0000136
type: Reaction
kinetic law: 839778
modifier: 839766
modifier: 839754
product: 839742
reactant: 839730
fast: false
reversible: false

839742
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000125

839730
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000132

metaid_0000054
type: Parameter
constant: true
value: 0.016

metaid_0000046
type: Parameter
constant: true
value: 0.01

metaid_0000065
type: Parameter
constant: true
value: 0.62