684711
constant: false
value: NaN
name: r_12bNOp
type: Parameter

684725
constant: true
value: 5.8
name: GPX
type: Parameter

684771
constant: true
value: 100.0
name: k_15NO
type: Parameter

684761
constant: true
value: 6.0E-6
name: k_12aNO
type: Parameter

492357
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

492441
unit: 492477
unit: 492465
unit: 492453
name: flux
type: SBMLUnitsDef

684775
constant: true
value: 2.0E-4
name: k_17bNO
type: Parameter

684756
constant: true
value: 0.058
name: k_8NO
type: Parameter

492405
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

492513
exponent: 2.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

684658
constant: true
units: litre
size: 1.0
spatial dimensions: 3.0
type: Compartment

684739
constant: false
value: NaN
name: r_11NO
type: Parameter

492333
unit: 492357
unit: 492345
name: micromolar
type: SBMLUnitsDef

684735
constant: false
value: 10000.0
name: GSH
type: Parameter

684701
constant: false
value: 0.0
name: NO
type: Parameter

684731
constant: false
value: NaN
name: r_7NO
type: Parameter

W3 CDTF: Fri Jun 25 14:24:46 BST 2010

492393
unit: 492429
unit: 492417
unit: 492405
name: second_order_rate_constant
type: SBMLUnitsDef

684705
constant: false
value: 0.1
name: CcOX
type: Parameter

684751
constant: true
value: 6700.0
name: k_4NO
type: Parameter

684721
constant: false
value: NaN
name: r_5NO
type: Parameter

684715
constant: false
value: NaN
name: r_15NO
type: Parameter

684712
constant: false
value: NaN
name: r_12bNOm
type: Parameter

684772
constant: true
value: 1.21
name: k_16NO
type: Parameter

684707
constant: false
value: NaN
name: r_1NO
type: Parameter

684776
constant: true
value: 0.05
name: FeLn_0
type: Parameter

684759
constant: true
value: 6.0E-4
name: k_10NO
type: Parameter

684755
constant: true
value: 2.0
name: k_7NO
type: Parameter

684741
constant: false
value: NaN
name: r_17NO
type: Parameter

492489
unit: 492526
unit: 492513
unit: 492501
name: rate2
type: SBMLUnitsDef

684745
constant: false
value: NaN
name: r_13NO
type: Parameter

684749
constant: true
value: 0.1
name: k_2NO
type: Parameter

684765
constant: true
value: 1600.0
name: k_13NO
type: Parameter

684736
constant: false
value: NaN
name: GSSG
type: Parameter

684769
constant: true
value: 2.0E-4
name: k_14NO
type: Parameter

684732
constant: false
value: NaN
name: r_8NO
type: Parameter

684752
constant: true
value: 2400.0
name: k_5NO
type: Parameter

492465
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

684716
constant: false
value: NaN
name: r_16NO
type: Parameter

492453
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

684763
constant: true
value: 81000.0
name: k_12bNOm
type: Parameter

492417
exponent: -1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

684744
constant: false
value: 0.0
name: N2O3
type: Parameter

684708
constant: false
value: NaN
name: r_4NO
type: Parameter

684727
constant: true
value: 1000.0
name: CO_2
type: Parameter

684737
constant: false
value: NaN
name: FeLnNO
type: Parameter

684773
constant: true
value: 66.0
name: k_17NO
type: Parameter

492369
unit: 492381
name: first_order_rate_constant
type: SBMLUnitsDef

684748
constant: true
value: 1.0
name: k_1NO
type: Parameter

684717
constant: false
value: 0.0
name: O_2m
type: Parameter

684768
constant: true
value: 50.0
name: k_m
type: Parameter

684733
constant: false
value: NaN
name: r_9NO
type: Parameter

684703
constant: true
value: 35.0
name: O_2
type: Parameter

492381
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

492345
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

492526
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

684723
constant: false
value: NaN
name: r_10NO
type: Parameter

684713
constant: false
value: NaN
name: r_14NO
type: Parameter

MODEL1006230064
parameter: 684701
parameter: 684739
rule: 684681
parameter: 684735
parameter: 684769
parameter: 684767
parameter: 684727
parameter: 684723
volume units: 290956
parameter: 684729
rule: 684697
rule: 684662
rule: 684665
rule: 684666
rule: 684669
rule: 684674
units def: 492369
parameter: 684720
parameter: 684776
rule: 684678
parameter: 684773
rule: 684686
parameter: 684771
parameter: 684708
notes: This a model from the article: Computational insights on the competing effects of nitric oxide in regulating apoptosis. Bagci EZ, Vodovotz Y, Billiar TR, Ermentrout B, Bahar I. PLoS One 2008 May 28;3(5):e2249 18509469 , Abstract: Despite the establishment of the important role of nitric oxide (NO) on apoptosis, a molecular-level understanding of the origin of its dichotomous pro- and anti-apoptotic effects has been elusive. We propose a new mathematical model for simulating the effects of nitric oxide (NO) on apoptosis. The new model integrates mitochondria-dependent apoptotic pathways with NO-related reactions, to gain insights into the regulatory effect of the reactive NO species N(2)O(3), non-heme iron nitrosyl species (FeL(n)NO), and peroxynitrite (ONOO(-)). The biochemical pathways of apoptosis coupled with NO-related reactions are described by ordinary differential equations using mass-action kinetics. In the absence of NO, the model predicts either cell survival or apoptosis (a bistable behavior) with shifts in the onset time of apoptotic response depending on the strength of extracellular stimuli. Computations demonstrate that the relative concentrations of anti- and pro-apoptotic reactive NO species, and their interplay with glutathione, determine the net anti- or pro-apoptotic effects at long time points. Interestingly, transient effects on apoptosis are also observed in these simulations, the duration of which may reach up to hours, despite the eventual convergence to an anti-apoptotic state. Our computations point to the importance of precise timing of NO production and external stimulation in determining the eventual pro- or anti-apoptotic role of NO. This model was taken from the CellML repository and automatically converted to SBML. The original model was: Bagci EZ, Vodovotz Y, Billiar TR, Ermentrout B, Bahar I. (2008) - version=1.0 The original CellML model was created by: Wendy Kang wkan014@aucklanduni.ac.nz The University of Auckland This model ori…
parameter: 684709
parameter: 684761
parameter: 684748
units def: 492333
units def: 492489
rule: 684693
rule: 684661
type: SBMLModel
area units: 291053
rule: 684670
parameter: 684777
rule: 684695
parameter: 684737
rule: 684682
parameter: 684736
rule: 684663
parameter: 684733
units def: 492393
rule: 684699
time units: 483804
parameter: 684731
parameter: 684765
rule: 684667
parameter: 684740
parameter: 684725
rule: 684675
parameter: 684721
rule: 684679
parameter: 684759
rule: 684698
rule: 684687
parameter: 684757
substance units: 178797
parameter: 684717
parameter: 684764
parameter: 684749
parameter: 684747
parameter: 684745
parameter: 684719
parameter: 684705
parameter: 684772
parameter: 684707
rule: 684691
parameter: 684744
parameter: 684704
rule: 684671
rule: 684690
parameter: 684751
parameter: 684752
rule: 684694
rule: 684683
parameter: 684768
parameter: 684728
rule: 684673
parameter: 684724

684743
constant: false
value: 0.0
name: GSNO
type: Parameter

684753
constant: true
value: 0.00135
name: k_6NO
type: Parameter

684709
constant: false
value: NaN
name: r_12aNO
type: Parameter

684764
constant: true
value: 1100.0
name: k_12bNOp
type: Parameter

684757
constant: true
value: 0.025
name: k_9NO
type: Parameter

684728
constant: true
value: 400.0
name: Cyt_c
type: Parameter

684747
constant: false
value: 0.05
name: FeLn
type: Parameter

684719
constant: true
value: 10.0
name: SOD
type: Parameter

684760
constant: true
value: 66.0
name: k_11NO
type: Parameter

684740
constant: false
value: NaN
name: r_m
type: Parameter

684767
constant: true
value: 320.0
name: v_m
type: Parameter

492477
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND
type: SBMLUnit

684704
constant: false
value: 0.0
name: NO_2
type: Parameter

492501
exponent: -2.0
scale: -6
multipler: 1.0
kind: MOLE
type: SBMLUnit

492429
exponent: 1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

684724
constant: false
value: 0.0
name: ONOO_m
type: Parameter

684729
constant: false
value: NaN
name: r_6NO
type: Parameter

684777
constant: true
value: 10000.0
name: GSH_0
type: Parameter

684720
constant: false
value: NaN
name: r_2NO
type: Parameter

ORG:
  orgname: The University of Auckland
n:
  given: Wendy
  family: Kang

orgname: The University of Auckland

W3 CDTF: Fri Jun 25 14:24:46 BST 2010

ORG:
  orgname: The University of Auckland
n:
  given: Wendy
  family: Kang

W3 CDTF: Fri Jun 25 14:24:46 BST 2010

W3 CDTF: Fri Jun 25 14:24:46 BST 2010

given: Wendy
family: Kang