BIOMD0000000259
type: SBMLModel
time units: 506005
reaction: 196804
reaction: 196616
species: 196233
reaction: 196491
curated: true
species: 196251
species: 196395
compartment: 196141
reaction: 196867
name: Tiago2010_FeMetabolism_FeDeficient
species: 196359
reaction: 196993
is described by: http://identifiers.org/pubmed/20704761
reaction: 196742
is: MODEL4152801381
reaction: 196930
reaction: 196553
created:
  W3 CDTF: Thu Aug 19 11:30:00 BST 2010
reaction: 196909
reaction: 196846
reaction: 196637
area units: metaid_0000005
is version of: GO:0008152
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
reaction: 196783
reaction: 196763
reaction: 196679
reaction: 196721
species: 196269
species: 196377
species: 196413
reaction: 196972
species: 196195
notes: This a model from the article: Systems analysis of iron metabolism: the network of iron pools and fluxes Tiago JS Lopes, Tatyana Luganskaja, Maja Vujic-Spasic, Matthias W Hentze, Martina U Muckenthaler, K laus Schumann and Jens G Reich BMC Systems Biology 2010, Aug 13;4(1):112. 20704761 , Abstract: Background Every cell of the mammalian organism needs iron in numerous oxido-reductive processes as well as fo r transport and storage of oxygen. The versatility of ionic iron makes it a toxic entity which can catalyze the production of radicals that damage vital membranous and macromolecular assemblies in t he cell. The mammalian organism maintains therefore a complex regulatory network of iron uptake, ex cretion and intra-body distribution. Intracellular regulation in different cell types is intertwine d with a global hormonal signaling structure. Iron deficiency as well as excess of iron are frequen t and serious human disorders. They can affect every cell, but also the organism as a whole. Results Here, we present a kinematic model of the dynamic system of iron pools and fluxes. It is based on f errokinetic data and chemical measurements in C57BL6 wild-type mice maintained on iron-deficient, i ron-adequate, or iron-loaded diet. The tracer iron levels in major tissues and organs (16 compartme nt) were followed for 28 days. The evaluation resulted in a whole-body model of fractional clearanc e rates. The analysis permits calculation of absolute flux rates in the steady-state, of iron distr ibution into different organs, of tracer-accessible pool sizes and of residence times of iron in th e different compartments in response to three states of iron-repletion induced by the dietary regim e. Conclusions This mathematical model presents a comprehensive physiological picture of mice under three differen t diets with varying iron contents. The quantitative results reflect systemic properties of iron me tabolism: dynamic closedness, hierarchy of time scales, switch-over respon…
reaction: 196532
reaction: 196888
reaction: 197056
reaction: 196825
species: 196176
reaction: 197014
length unit: length
reaction: 196951
reaction: 196469
species: 196323
reaction: 196511
compartment: 196140
species: 196341
reaction: 196595
reaction: 196658
species: 196449
creator:
  ORG:
    orgname: Max Delbrueck Center for Molecular Medicine
  n:
    given: Tiago Jose
    family: da Silva Lopes
reaction: 196574
volume units: 506029
species: 196213
substance units: 505980
reaction: 197035
species: 196305
is version of: GO:0006826
reaction: 196700
modified:
  W3 CDTF: Tue May 15 22:57:46 BST 2012
species: 196431
occurs in: http://identifiers.org/taxonomy/10090
species: 196158
species: 196287

196804
type: Reaction
kinetic law: 530007
product: 529995
reactant: 529983
is version of: GO:0006826
fast: false
reversible: false

197104
type: LocalParameter
value: 0.79
name: 9kp_lun

529995
type: SpeciesReference
stoichiometry: 1.0
species: 196359

196359
type: Species
boundary condition: false
constant: false
occurs in: BTO:0000763
has only substance units: false
in compartment: 196141
initial concentration: NaN
is version of: CHEBI:24875
initial amount: 0.0
name: iron_in_Lungs
is version of: C00023

196141
type: Compartment
is version of: FMA:20394
constant: true
size: 1.0
spatial dimensions: 3.0
name: Organism

529983
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196158
type: Species
in compartment: 196141
boundary condition: false
has only substance units: false
is version of: CHEBI:24875
initial concentration: NaN
is version of: C00023
name: iron_in_Plasma
occurs in: BTO:0000131
constant: false
initial amount: 100.0

196616
type: Reaction
kinetic law: 529683
product: 529671
reactant: 529659
is version of: GO:0006826
fast: false
reversible: false

197090
type: LocalParameter
value: 0.96
name: 8kp_mus

529671
type: SpeciesReference
stoichiometry: 1.0
species: 196251

196251
type: Species
initial amount: 0.0
boundary condition: false
occurs in: BTO:0001103
initial concentration: NaN
is version of: CHEBI:24875
is version of: C00023
has only substance units: false
in compartment: 196141
name: iron_in_Muscle
constant: false

529659
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196233
type: Species
is version of: CHEBI:24875
constant: false
boundary condition: false
name: iron_in_Liver
initial concentration: NaN
is version of: C00023
occurs in: BTO:0000759
initial amount: 0.0
has only substance units: false
in compartment: 196141

196491
type: Reaction
kinetic law: 529467
product: 529455
reactant: 529443
is version of: GO:0006826
fast: false
reversible: false

197080
type: LocalParameter
value: 1.85
name: 27kbon_rbc

529455
type: SpeciesReference
stoichiometry: 1.0
species: 196195

196195
type: Species
initial concentration: NaN
name: iron_in_RBC
constant: false
initial amount: 0.0
in compartment: 196141
boundary condition: false
has only substance units: false
occurs in: BTO:0000424
is version of: C00023
is version of: CHEBI:24875

529443
type: SpeciesReference
stoichiometry: 1.0
species: 196176

196176
type: Species
has only substance units: false
is version of: CHEBI:24875
constant: false
initial amount: 0.0
initial concentration: NaN
in compartment: 196141
is version of: C00023
name: iron_in_Bone Marrow
boundary condition: false
occurs in: BTO:0000141

196395
type: Species
occurs in: BTO:0001363
constant: false
initial amount: 0.0
has only substance units: false
is version of: C00023
boundary condition: false
name: iron_in_Testes
initial concentration: NaN
is version of: CHEBI:24875
in compartment: 196141

196867
type: Reaction
kinetic law: 530115
product: 530103
reactant: 530091
is version of: GO:0006826
fast: false
reversible: false

197109
type: LocalParameter
value: 0.2
name: 14kkid_p

530103
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530091
type: SpeciesReference
stoichiometry: 1.0
species: 196377

196377
type: Species
is version of: CHEBI:24875
initial amount: 0.0
is version of: C00023
in compartment: 196141
occurs in: BTO:0000671
has only substance units: false
name: iron_in_Kidneys
initial concentration: NaN
constant: false
boundary condition: false

196993
type: Reaction
kinetic law: 530331
product: 530319
reactant: 530307
is version of: GO:0006826
fast: false
reversible: false

197118
type: LocalParameter
value: 0.03
name: 11kp_bra

530319
type: SpeciesReference
stoichiometry: 1.0
species: 196449

196449
type: Species
has version: CHEBI:24875
in compartment: 196141
constant: false
initial amount: 0.0
has only substance units: false
occurs in: BTO:0000142
name: iron_in_Brain
has version: C00023
boundary condition: false
initial concentration: NaN

530307
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196742
type: Reaction
kinetic law: 529899
product: 529887
reactant: 529875
is version of: GO:0006826
fast: false
reversible: false

197099
type: LocalParameter
value: 0.03
name: 24kintg_out

529887
type: SpeciesReference
stoichiometry: 1.0
species: 196323

196323
type: Species
has only substance units: false
is version of: CHEBI:24875
initial amount: 0.0
is version of: C00023
name: iron_Ions_Outside
constant: false
occurs in: GO:0043245
in compartment: 196140
initial concentration: NaN
boundary condition: false

196140
type: Compartment
is version of: GO:0043245
constant: true
size: 1.0
spatial dimensions: 3.0
name: Environment

529875
type: SpeciesReference
stoichiometry: 1.0
species: 196287

196287
type: Species
initial concentration: NaN
is version of: CHEBI:24875
occurs in: BTO:0000634
initial amount: 0.0
in compartment: 196141
name: iron_in_Integument
boundary condition: false
has only substance units: false
is version of: C00023
constant: false

196930
type: Reaction
kinetic law: 530223
product: 530211
reactant: 530199
is version of: GO:0006826
fast: false
reversible: false

197114
type: LocalParameter
value: 0.09
name: 5kp_sto

530211
type: SpeciesReference
stoichiometry: 1.0
species: 196413

196413
type: Species
initial concentration: NaN
boundary condition: false
is version of: C00023
has only substance units: false
is version of: CHEBI:24875
name: iron_in_Stomach
initial amount: 0.0
in compartment: 196141
occurs in: BTO:0001307
constant: false

530199
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196553
type: Reaction
kinetic law: 529575
product: 529563
reactant: 529551
is version of: GO:0006826
fast: false
reversible: false

197085
type: LocalParameter
value: 0.56
name: 28kbon_spl

529563
type: SpeciesReference
stoichiometry: 1.0
species: 196213

196213
type: Species
is version of: CHEBI:24875
name: iron_in_Spleen
occurs in: BTO:0001281
in compartment: 196141
initial amount: 0.0
constant: false
is version of: C00023
has only substance units: false
initial concentration: NaN
boundary condition: false

529551
type: SpeciesReference
stoichiometry: 1.0
species: 196176

196909
type: Reaction
kinetic law: 530187
product: 530175
reactant: 530163
is version of: GO:0006826
fast: false
reversible: false

197112
type: LocalParameter
value: 0.05
name: 22ktes_p

530175
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530163
type: SpeciesReference
stoichiometry: 1.0
species: 196395

196846
type: Reaction
kinetic law: 530079
product: 530067
reactant: 530055
is version of: GO:0006826
fast: false
reversible: false

197107
type: LocalParameter
value: 0.42
name: 2kp_kid

530067
type: SpeciesReference
stoichiometry: 1.0
species: 196377

530055
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196637
type: Reaction
kinetic law: 529719
product: 529707
reactant: 529695
is version of: GO:0006826
fast: false
reversible: false

197091
type: LocalParameter
value: 0.03
name: 18kmus_p

529707
type: SpeciesReference
stoichiometry: 1.0
species: 196158

529695
type: SpeciesReference
stoichiometry: 1.0
species: 196251

196783
type: Reaction
kinetic law: 529971
product: 529959
reactant: 529947
is version of: GO:0006826
fast: false
reversible: false

197102
type: LocalParameter
value: 0.06
name: 21khea_p

529959
type: SpeciesReference
stoichiometry: 1.0
species: 196158

529947
type: SpeciesReference
stoichiometry: 1.0
species: 196341

196341
type: Species
is version of: C00023
is version of: CHEBI:24875
in compartment: 196141
constant: false
initial amount: 0.0
occurs in: BTO:0000562
initial concentration: NaN
has only substance units: false
boundary condition: false
name: iron_in_Heart

196763
type: Reaction
kinetic law: 529935
product: 529923
reactant: 529911
is version of: GO:0006826
fast: false
reversible: false

197101
type: LocalParameter
value: 0.11
name: 12kp_hea

529923
type: SpeciesReference
stoichiometry: 1.0
species: 196341

529911
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196679
type: Reaction
kinetic law: 529791
product: 529779
reactant: 529767
is version of: GO:0006826
fast: false
reversible: false

197094
type: LocalParameter
value: 0.98
name: 3kp_int

529779
type: SpeciesReference
stoichiometry: 1.0
species: 196305

196305
type: Species
constant: false
is version of: C00023
initial amount: 0.0
initial concentration: NaN
name: iron_in_Intestine
has only substance units: false
boundary condition: false
occurs in: BTO:0000648
is version of: CHEBI:24875
in compartment: 196141

529767
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196721
type: Reaction
kinetic law: 529863
product: 529851
reactant: 529839
is version of: GO:0006826
fast: false
reversible: false

197098
type: LocalParameter
value: 0.3
name: 25kint_out

529851
type: SpeciesReference
stoichiometry: 1.0
species: 196323

529839
type: SpeciesReference
stoichiometry: 1.0
species: 196305

196269
type: Species
initial concentration: NaN
occurs in: BTO:0000365
is version of: C00023
in compartment: 196141
initial amount: 0.0
constant: false
has only substance units: false
boundary condition: false
is version of: CHEBI:24875
name: iron_in_Duodenum

196972
type: Reaction
kinetic law: 530295
product: 530283
reactant: 530271
is version of: GO:0006826
fast: false
reversible: false

197117
type: LocalParameter
value: 0.1
name: 17kfat_p

530283
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530271
type: SpeciesReference
stoichiometry: 1.0
species: 196431

196431
type: Species
has only substance units: false
boundary condition: false
initial amount: 0.0
occurs in: BTO:0001487
in compartment: 196141
initial concentration: NaN
is version of: CHEBI:24875
constant: false
name: iron_in_Fat
is version of: C00023

196532
type: Reaction
kinetic law: 529539
product: 529527
reactant: 529515
is version of: GO:0006826
fast: false
reversible: false

197083
type: LocalParameter
value: 14.61
name: 23kspl_p

529527
type: SpeciesReference
stoichiometry: 1.0
species: 196158

529515
type: SpeciesReference
stoichiometry: 1.0
species: 196213

196888
type: Reaction
kinetic law: 530151
product: 530139
reactant: 530127
is version of: GO:0006826
fast: false
reversible: false

197111
type: LocalParameter
value: 0.04
name: 13kp_tes

530139
type: SpeciesReference
stoichiometry: 1.0
species: 196395

530127
type: SpeciesReference
stoichiometry: 1.0
species: 196158

197056
type: Reaction
kinetic law: 530439
product: 530427
reactant: 530415
is version of: GO:0006826
fast: false
reversible: false

197123
type: LocalParameter
value: 0.18
name: 16ksto_out

530427
type: SpeciesReference
stoichiometry: 1.0
species: 196323

530415
type: SpeciesReference
stoichiometry: 1.0
species: 196413

196825
type: Reaction
kinetic law: 530043
product: 530031
reactant: 530019
is version of: GO:0006826
fast: false
reversible: false

197106
type: LocalParameter
value: 0.41
name: 19klung_p

530031
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530019
type: SpeciesReference
stoichiometry: 1.0
species: 196359

197014
type: Reaction
kinetic law: 530367
product: 530355
reactant: 530343
is version of: GO:0006826
fast: false
reversible: false

197120
type: LocalParameter
value: 0.02
name: 20kbra_p

530355
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530343
type: SpeciesReference
stoichiometry: 1.0
species: 196449

196951
type: Reaction
kinetic law: 530259
product: 530247
reactant: 530235
is version of: GO:0006826
fast: false
reversible: false

197115
type: LocalParameter
value: 0.04
name: 7kp_fat

530247
type: SpeciesReference
stoichiometry: 1.0
species: 196431

530235
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196469
type: Reaction
kinetic law: 529431
product: 529419
reactant: 529407
is version of: GO:0006826
fast: false
reversible: false

197078
type: LocalParameter
value: 13.22
name: 1kp_bon

529419
type: SpeciesReference
stoichiometry: 1.0
species: 196176

529407
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196511
type: Reaction
kinetic law: 529503
product: 529491
reactant: 529479
is version of: GO:0006826
fast: false
reversible: false

197082
type: LocalParameter
value: 0.03
name: 29krbc_spl

529491
type: SpeciesReference
stoichiometry: 1.0
species: 196213

529479
type: SpeciesReference
stoichiometry: 1.0
species: 196195

196595
type: Reaction
kinetic law: 529647
product: 529635
reactant: 529623
is version of: GO:0006826
fast: false
reversible: false

197088
type: LocalParameter
value: 0.25
name: 15kliv_p

529635
type: SpeciesReference
stoichiometry: 1.0
species: 196158

529623
type: SpeciesReference
stoichiometry: 1.0
species: 196233

196658
type: Reaction
kinetic law: 529755
product: 529743
reactant: 529731
is version of: GO:0006826
fast: false
reversible: false

197093
type: LocalParameter
value: 0.02
name: 10kp_duo

529743
type: SpeciesReference
stoichiometry: 1.0
species: 196269

529731
type: SpeciesReference
stoichiometry: 1.0
species: 196158

196574
type: Reaction
kinetic law: 529611
product: 529599
reactant: 529587
is version of: GO:0006826
fast: false
reversible: false

197086
type: LocalParameter
value: 2.27
name: 4kp_liv

529599
type: SpeciesReference
stoichiometry: 1.0
species: 196233

529587
type: SpeciesReference
stoichiometry: 1.0
species: 196158

197035
type: Reaction
kinetic law: 530403
product: 530391
reactant: 530379
is version of: GO:0006826
fast: false
reversible: false

197122
type: LocalParameter
value: 0.17
name: 26kduo_p

530391
type: SpeciesReference
stoichiometry: 1.0
species: 196158

530379
type: SpeciesReference
stoichiometry: 1.0
species: 196269

196700
type: Reaction
kinetic law: 529827
product: 529815
reactant: 529803
is version of: GO:0006826
fast: false
reversible: false

197096
type: LocalParameter
value: 1.04
name: 6kp_intg

529815
type: SpeciesReference
stoichiometry: 1.0
species: 196287

529803
type: SpeciesReference
stoichiometry: 1.0
species: 196158