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BIOMD0000000259 - Tiago2010_FeMetabolism_FeDeficient

 

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Reference Publication
Publication ID: 20704761
Lopes TJ, Luganskaja T, Vujić Spasić M, Hentze MW, Muckenthaler MU, Schümann K, Reich JG.
Systems analysis of iron metabolism: the network of iron pools and fluxes.
BMC Syst Biol 2010; 4: 112
Max-Delbrueck-Centrum of Molecular Medicine, Berlin-Buch, Germany.  [more]
Model
Original Model: Iron Deficient Mice
Submitter: Tiago Jose da Silva Lopes
Submission ID: MODEL4152801381
Submission Date: 28 Sep 2009 16:46:44 UTC
Last Modification Date: 04 Apr 2014 14:45:23 UTC
Creation Date: 19 Aug 2010 10:30:00 UTC
Encoders:  Vijayalakshmi Chelliah
   Tiago Jose da Silva Lopes
set #1
bqbiol:isVersionOf Gene Ontology regulation of iron ion transport
Gene Ontology multicellular organismal iron ion homeostasis
Gene Ontology iron ion transport
bqbiol:hasTaxon Taxonomy Mus musculus
set #2
bqbiol:hasProperty Mathematical Modelling Ontology MAMO_0000046
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 Biology2010, 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 response and dynamics of iron s torage in parenchymal organs. Therefore, we could assess which parameters will change under dietary perturbations and study in quantitative terms when those changes take place.

This model corresponds to the Iron Deficient condition - Mice

This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2010 The BioModels Team.
For more information see the terms of use.
To cite BioModels Database, please use Le Novère N., Bornstein B., Broicher A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Published, Quantitative Kinetic Models of Biochemical and Cellular Systems Nucleic Acids Res., 34: D689-D691.

Model
Publication ID: 20704761 Submission Date: 28 Sep 2009 16:46:44 UTC Last Modification Date: 04 Apr 2014 14:45:23 UTC Creation Date: 19 Aug 2010 10:30:00 UTC
Mathematical expressions
Reactions
re1 re2 re3 re4
re5 re6 re7 re8
re9 re10 re11 re12
re14 re15 re16 re17
re18 re19 re22 re23
re24 re25 re26 re28
re29 re30 re31 re33
re34      
Physical entities
Compartments Species
Environment iron_Ions_Outside    
Organism iron_in_Plasma iron_in_Bone Marrow iron_in_RBC
iron_in_Spleen iron_in_Liver iron_in_Muscle
iron_in_Duodenum iron_in_Integument iron_in_Intestine
iron_in_Heart iron_in_Lungs iron_in_Kidneys
iron_in_Testes iron_in_Stomach iron_in_Fat
iron_in_Brain    
Reactions (29)
 
 re1 [iron_in_Plasma] → [iron_in_Bone Marrow];  
 
 re2 [iron_in_Bone Marrow] → [iron_in_RBC];  
 
 re3 [iron_in_RBC] → [iron_in_Spleen];  
 
 re4 [iron_in_Spleen] → [iron_in_Plasma];  
 
 re5 [iron_in_Bone Marrow] → [iron_in_Spleen];  
 
 re6 [iron_in_Plasma] → [iron_in_Liver];  
 
 re7 [iron_in_Liver] → [iron_in_Plasma];  
 
 re8 [iron_in_Plasma] → [iron_in_Muscle];  
 
 re9 [iron_in_Muscle] → [iron_in_Plasma];  
 
 re10 [iron_in_Plasma] → [iron_in_Duodenum];  
 
 re11 [iron_in_Plasma] → [iron_in_Intestine];  
 
 re12 [iron_in_Plasma] → [iron_in_Integument];  
 
 re14 [iron_in_Intestine] → [iron_Ions_Outside];  
 
 re15 [iron_in_Integument] → [iron_Ions_Outside];  
 
 re16 [iron_in_Plasma] → [iron_in_Heart];  
 
 re17 [iron_in_Heart] → [iron_in_Plasma];  
 
 re18 [iron_in_Plasma] → [iron_in_Lungs];  
 
 re19 [iron_in_Lungs] → [iron_in_Plasma];  
 
 re22 [iron_in_Plasma] → [iron_in_Kidneys];  
 
 re23 [iron_in_Kidneys] → [iron_in_Plasma];  
 
 re24 [iron_in_Plasma] → [iron_in_Testes];  
 
 re25 [iron_in_Testes] → [iron_in_Plasma];  
 
 re26 [iron_in_Plasma] → [iron_in_Stomach];  
 
 re28 [iron_in_Plasma] → [iron_in_Fat];  
 
 re29 [iron_in_Fat] → [iron_in_Plasma];  
 
 re30 [iron_in_Plasma] → [iron_in_Brain];  
 
 re31 [iron_in_Brain] → [iron_in_Plasma];  
 
 re33 [iron_in_Duodenum] → [iron_in_Plasma];  
 
 re34 [iron_in_Stomach] → [iron_Ions_Outside];  
 
 Environment Spatial dimensions: 3.0  Compartment size: 1.0
 
 iron_Ions_Outside
Compartment: Environment
Initial amount: 0.0
 
 Organism Spatial dimensions: 3.0  Compartment size: 1.0
 
 iron_in_Plasma
Compartment: Organism
Initial amount: 100.0
 
 iron_in_Bone Marrow
Compartment: Organism
Initial amount: 0.0
 
 iron_in_RBC
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Spleen
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Liver
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Muscle
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Duodenum
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Integument
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Intestine
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Heart
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Lungs
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Kidneys
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Testes
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Stomach
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Fat
Compartment: Organism
Initial amount: 0.0
 
 iron_in_Brain
Compartment: Organism
Initial amount: 0.0
 
re1 (1)
 
   1kp_bon
Value: 13.22
Constant
 
re2 (1)
 
   27kbon_rbc
Value: 1.85
Constant
 
re3 (1)
 
   29krbc_spl
Value: 0.03
Constant
 
re4 (1)
 
   23kspl_p
Value: 14.61
Constant
 
re5 (1)
 
   28kbon_spl
Value: 0.56
Constant
 
re6 (1)
 
   4kp_liv
Value: 2.27
Constant
 
re7 (1)
 
   15kliv_p
Value: 0.25
Constant
 
re8 (1)
 
   8kp_mus
Value: 0.96
Constant
 
re9 (1)
 
   18kmus_p
Value: 0.03
Constant
 
re10 (1)
 
   10kp_duo
Value: 0.02
Constant
 
re11 (1)
 
   3kp_int
Value: 0.98
Constant
 
re12 (1)
 
   6kp_intg
Value: 1.04
Constant
 
re14 (1)
 
   25kint_out
Value: 0.3
Constant
 
re15 (1)
 
   24kintg_out
Value: 0.03
Constant
 
re16 (1)
 
   12kp_hea
Value: 0.11
Constant
 
re17 (1)
 
   21khea_p
Value: 0.06
Constant
 
re18 (1)
 
   9kp_lun
Value: 0.79
Constant
 
re19 (1)
 
   19klung_p
Value: 0.41
Constant
 
re22 (1)
 
   2kp_kid
Value: 0.42
Constant
 
re23 (1)
 
   14kkid_p
Value: 0.2
Constant
 
re24 (1)
 
   13kp_tes
Value: 0.04
Constant
 
re25 (1)
 
   22ktes_p
Value: 0.05
Constant
 
re26 (1)
 
   5kp_sto
Value: 0.09
Constant
 
re28 (1)
 
   7kp_fat
Value: 0.04
Constant
 
re29 (1)
 
   17kfat_p
Value: 0.1
Constant
 
re30 (1)
 
   11kp_bra
Value: 0.03
Constant
 
re31 (1)
 
   20kbra_p
Value: 0.02
Constant
 
re33 (1)
 
   26kduo_p
Value: 0.17
Constant
 
re34 (1)
 
   16ksto_out
Value: 0.18
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000259

Curator's comment: (updated: 19 Aug 2010 11:24:37 BST)

This model corresponds to the Iron Deficient model described in the reference publication. The model reproduces the plots in the first column (Diet: Iron Deficient) of figures 2 and 3. The model was integrated and simulated using Copasi v4.5.31

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