964550
stoichiometry: 1.0
species: COPASI7
type: SpeciesReference

COPASI11
notes: Precursor of interleukin 17
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: COPASI2
name: pIL-17
type: Species

964599
value: 0.384846
name: K
type: LocalParameter

964659
stoichiometry: 1.0
species: COPASI9
type: SpeciesReference

964854
value: 1.0E-6
name: K1
type: LocalParameter

COPASI24
modifier: 102357
modifier: 102345
modifier: 102321
kinetic law: 964927
reactant: 964879
product: 964891
modifier: 102333
type: Reaction
name: pIL-17 -> IL-17
reversible: true
modifier: 964915
modifier: 964903
fast: false

964963
value: 0.1
name: n1
type: LocalParameter

964526
value: 89.763
name: K
type: LocalParameter

MODEL1210260004
species: COPASI9
reaction: COPASI22
parameter: COPASI18
species: COPASI11
reaction: COPASI21
rule: 964406
parameter: COPASI15
substance units: substance
function def: COPASI26
function def: COPASI25
reaction: COPASI23
name: 1 Reactant, 1 inhibitor, 1 activator
rule: 964442
name: Viladomiu2012 - PPARgamma role in C.diff associated disease
volume units: volume
rule: 964430
species: COPASI8
parameter: COPASI16
species: COPASI7
parameter: COPASI14
species: COPASI13
species: COPASI5
parameter: COPASI19
species: COPASI12
area units: area
notes: "Modeling the Role of Peroxisome Proliferator-Activated Receptor γ and MicroRNA-146 in Mucosal Immune Responses to Clostridium difficile" Monica Viladomiu1,2, Raquel Hontecillas1,2, Mireia Pedragosa1,2, Adria Carbo1,2, Stefan Hoops1,2, Pawel Michalak4,5, Katarzyna Michalak4, Richard L. Guerrant2,3, James K. Roche2,3, Cirle A. Warren2,3, Josep Bassaganya-Riera1,2* 1) Nutritional Immunology and Molecular Medicine Laboratory, Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, United States of America, 2) Center for Modeling Immunity to Enteric Pathogens, Virginia Tech, Blacksburg, Virginia, United States of America, 3) Division of Infectious Disease and International Health, Center for Global Health, University of Virginia, Charlottesville, Virginia, United States of America, 4) Medical Informatics and Systems Division, Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, United States of America, 5) Department of Biological Sciences, Virginia Tech, Blacksburg, Virginia, United States of America E-mail: jbassaga@vt.edu This model represents the interaction between Cdiff, miRNA146b, NCOA4, PPARg, IL10 and IL17. Simulation studies show an aberrant expression of miRNA146b with increasing concentrations of Cdiff over time, which results in decreased PPARg activation due to NCOA4 inhibition. As a final result, PPARg is unable to modulate effector and regulatory responses, since results show an upregulation of IL17 expression and downregulation of IL10 production.
function def: COPASI27
length unit: length
curated: false
reaction: COPASI24
compartment: COPASI2
species: COPASI4
species: COPASI3
is described by: http://identifiers.org/pubmed/23071818
species: COPASI10
rule: 964418
parameter: COPASI17
name: 1 Reactant, 1 inhibitor
reaction: COPASI20
type: SBMLModel
species: COPASI6
name: 1 Reactant, 1 Activator
time units: time

COPASI20
modifier: 102189
product: 964466
modifier: 102165
name: pmiR-146b -> miR-146b
type: Reaction
fast: false
reactant: 964455
modifier: 102177
modifier: 964478
kinetic law: 964490
reversible: true

COPASI4
notes: miRNA 146b
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.568
initial amount: NaN
in compartment: COPASI2
name: miR-146b
type: Species

964635
value: 5.9841E-4
name: c0
type: LocalParameter

COPASI8
notes: Peroxisome proliferator receptor gamma
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.00379635306159362
initial amount: NaN
in compartment: COPASI2
name: PPARg
type: Species

964455
stoichiometry: 1.0
species: COPASI5
type: SpeciesReference

964731
value: 4.6671
name: K
type: LocalParameter

964502
value: 0.0568
name: c0
type: LocalParameter

COPASI15
constant: true
value: 1.0
name: Bactin
type: Parameter

964755
stoichiometry: 1.0
species: COPASI10
type: SpeciesReference

964719
value: 0.0270105
name: c1
type: LocalParameter

964707
value: 1.41678E-4
name: c0
type: LocalParameter

964611
value: 18.0
name: n
type: LocalParameter

COPASI19
constant: false
value: -1.96342127958466E-34
name: IL17_ratio
type: Parameter

COPASI10
notes: Precursor of interleukin 10
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: COPASI2
name: pIL-10
type: Species

964867
value: 0.1
name: Vr
type: LocalParameter

COPASI21
modifier: 102201
modifier: 964575
type: Reaction
name: pNCOA4 -> NCOA4
modifier: 102213
product: 964563
reversible: true
modifier: 102225
fast: false
reactant: 964550
kinetic law: 964587

COPASI3
notes: Clostridium difficile
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.0
initial amount: NaN
in compartment: COPASI2
name: Cdiff
type: Species

COPASI18
constant: false
value: 2.29881987622278E-5
name: IL10_ratio
type: Parameter

964538
value: 0.1
name: Vr
type: LocalParameter

COPASI7
notes: Precursor of NCOA4
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: COPASI2
name: pNCOA4
type: Species

COPASI14
constant: true
value: 2.0
name: HillCoeff
type: Parameter

964466
stoichiometry: 1.0
species: COPASI4
type: SpeciesReference

964951
value: 996.619
name: K
type: LocalParameter

964842
value: 0.1
name: n1
type: LocalParameter

964818
value: 3.30707E-6
name: Vf
type: LocalParameter

964514
value: 20.9518
name: c1
type: LocalParameter

964647
value: 47.9736
name: c1
type: LocalParameter

COPASI17
constant: false
value: 0.00379635306159362
name: PPARg_ratio
type: Parameter

964671
stoichiometry: 1.0
species: COPASI8
type: SpeciesReference

COPASI2
constant: true
size: 1.0
spatial dimensions: 3.0
name: default
type: Compartment

964976
value: 7.80698E-6
name: K1
type: LocalParameter

964743
value: 0.1
name: Vr
type: LocalParameter

COPASI22
fast: false
modifier: 102237
name: pPPARg -> PPARg
type: Reaction
modifier: 964683
kinetic law: 964695
reactant: 964659
reversible: true
product: 964671
modifier: 102249
modifier: 102261

COPASI13
notes: Interleukin 17
constant: false
boundary condition: false
has only substance units: false
initial concentration: -1.96342127958466E-34
initial amount: NaN
in compartment: COPASI2
name: IL-17
type: Species

COPASI6
notes: NCOA4, a PPARg co-activator
constant: false
boundary condition: false
has only substance units: false
initial concentration: 0.439999130655188
initial amount: NaN
in compartment: COPASI2
name: NCOA4
type: Species

964623
value: 0.1
name: Vr
type: LocalParameter

COPASI9
notes: Precursor of PPARg
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: COPASI2
name: pPPARg
type: Species

964563
stoichiometry: 1.0
species: COPASI6
type: SpeciesReference

964767
stoichiometry: 1.0
species: COPASI12
type: SpeciesReference

COPASI16
constant: false
value: 0.439999130655188
name: NCOA4_ratio
type: Parameter

964987
value: 0.06
name: Vr
type: LocalParameter

COPASI23
type: Reaction
modifier: 964779
modifier: 102273
kinetic law: 964803
reactant: 964755
fast: false
reversible: true
name: pIL-10 -> IL-10
modifier: 964791
modifier: 102309
product: 964767
modifier: 102297
modifier: 102285

964879
stoichiometry: 1.0
species: COPASI11
type: SpeciesReference

COPASI5
notes: Precursor of miRNA 146b
constant: true
boundary condition: true
has only substance units: false
initial concentration: 1.0
initial amount: NaN
in compartment: COPASI2
name: p-miR-146b
type: Species

964830
value: 1000.0
name: K
type: LocalParameter

COPASI12
notes: Interleukin 10
constant: false
boundary condition: false
has only substance units: false
initial concentration: 2.29881987622278E-5
initial amount: NaN
in compartment: COPASI2
name: IL-10
type: Species

964939
value: 0.06
name: Vf
type: LocalParameter

964891
stoichiometry: 1.0
species: COPASI13
type: SpeciesReference