BIOMD0000000184
type: SBMLModel
is: MODEL9223106020
parameter: metaid_0000004
parameter: metaid_0000015
reaction: metaid_0000028
curated: true
parameter: metaid_0000009
modified:
  W3 CDTF: Wed Jul 11 18:45:28 BST 2012
volume units: metaid_0000004
occurs in: http://identifiers.org/taxonomy/40674
parameter: metaid_0000016
compartment: metaid_0000017
units def: metaid_0000030
parameter: metaid_0000007
parameter: metaid_0000006
units def: metaid_0000032
species: metaid_0000019
parameter: metaid_0000012
compartment: metaid_0000033
reaction: metaid_0000023
units def: metaid_0000029
parameter: metaid_0000003
parameter: metaid_0000008
has part: GO:0019722
is described by: http://identifiers.org/pubmed/18275973
species: metaid_0000021
parameter: metaid_0000010
reaction: metaid_0000025
reaction: metaid_0000024
area units: metaid_0000005
units def: metaid_0000031
parameter: metaid_0000013
parameter: metaid_0000014
reaction: metaid_0000022
time units: metaid_0000055
creator:
  ORG:
    orgname: California Institute of Technology
  n:
    given: Harish
    family: Dharuri
created:
  W3 CDTF: Thu Aug 21 12:36:22 BST 2008
parameter: metaid_0000011
reaction: metaid_0000027
substance units: metaid_0000029
species: metaid_0000020
parameter: metaid_0000005
notes: The model reproduces the time profile of cytoplasmic Calcium as depicted in Fig 3 of the paper. Model successfully reproduced using Jarnac and MathSBML. 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.
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Lukas
    family: Endler
length unit: length
name: Lavrentovich2008_Ca_Oscillations
reaction: metaid_0000026

metaid_0000004
type: Parameter
constant: true
units: metaid_0000032
value: 0.5

metaid_0000032
type: SBMLUnitsDef
unit: 109516
name: sec_1

109516
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

metaid_0000015
type: Parameter
constant: true
units: metaid_0000030
value: 0.3

metaid_0000030
type: SBMLUnitsDef
unit: 109468
unit: 109456
name: uM

109468
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE

109456
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

metaid_0000028
type: Reaction
kinetic law: 109744
reactant: 109732
fast: false
reversible: false
name: IP3 degradation

109732
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000021
type: Species
is: C01245
name: IP3
initial concentration: 0.1
in compartment: metaid_0000017
has only substance units: false
constant: false
is: CHEBI:16595
initial amount: NaN
boundary condition: false

metaid_0000017
type: Compartment
is: GO:0005737
constant: true
size: 1.0
spatial dimensions: 3.0
name: Cytoplasm

metaid_0000009
type: Parameter
constant: true
units: dimensionless
value: 2.2

metaid_0000016
type: Parameter
constant: true
units: metaid_0000032
value: 0.08

metaid_0000007
type: Parameter
constant: true
units: dimensionless
value: 2.02

metaid_0000006
type: Parameter
constant: true
units: metaid_0000030
value: 0.15

metaid_0000019
type: Species
initial amount: NaN
is: C00076
has only substance units: false
boundary condition: false
initial concentration: 0.1
in compartment: metaid_0000017
name: Cytoplasmic Calcium
constant: false
is: CHEBI:29108

metaid_0000012
type: Parameter
constant: true
units: metaid_0000030
value: 0.1

metaid_0000033
type: Compartment
is: GO:0005783
constant: true
size: 1.0
spatial dimensions: 3.0
name: Endoplasmic Reticulum

metaid_0000023
type: Reaction
kinetic law: 109564
reactant: 109552
is version of: GO:0051481
fast: false
reversible: false
name: Calcium export from cell

109552
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000019

metaid_0000029
type: SBMLUnitsDef
unit: 109444
name: micro mole

109444
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

metaid_0000003
type: Parameter
constant: true
units: metaid_0000031
value: 0.05

metaid_0000031
type: SBMLUnitsDef
unit: 109504
unit: 109492
unit: 109480
name: uM_sec_1

109504
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: SECOND

109492
type: SBMLUnit
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE

109480
type: SBMLUnit
exponent: 1.0
scale: -6
multipler: 1.0
kind: MOLE

metaid_0000008
type: Parameter
constant: true
units: metaid_0000030
value: 0.15

metaid_0000010
type: Parameter
constant: true
units: metaid_0000030
value: 0.1

metaid_0000025
type: Reaction
kinetic law: 109648
product: 109636
reactant: 109624
is version of: GO:0005388
fast: false
reversible: false
name: serca

109636
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000020

metaid_0000020
type: Species
initial concentration: 1.5
in compartment: metaid_0000033
constant: false
initial amount: NaN
name: Calcium in ER
is: C00076
boundary condition: false
has only substance units: false
is: CHEBI:29108

109624
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000019

metaid_0000024
type: Reaction
kinetic law: 109612
modifier: 109600
product: 109588
reactant: 109576
is version of: GO:0048763
fast: false
reversible: false
name: CICR

109588
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000019

109576
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000020

metaid_0000013
type: Parameter
constant: true
units: metaid_0000032
value: 0.5

metaid_0000014
type: Parameter
constant: true
units: metaid_0000031
value: 0.05

metaid_0000022
type: Reaction
kinetic law: 109540
product: 109528
is version of: GO:0006816
is version of: GO:0007204
fast: false
reversible: false
name: vin

109528
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000019

metaid_0000011
type: Parameter
constant: true
units: metaid_0000031
value: 15.0

metaid_0000027
type: Reaction
kinetic law: 109720
modifier: 109708
product: 109696
is part of: GO:0032957
is version of: GO:0004435
fast: false
reversible: false
name: PLC

109696
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000021

metaid_0000005
type: Parameter
constant: true
units: metaid_0000032
value: 40.0

metaid_0000026
type: Reaction
kinetic law: 109684
product: 109672
reactant: 109660
is version of: GO:0007204
is version of: GO:0022840
fast: false
reversible: false
name: Leak flux

109672
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000019

109660
type: SpeciesReference
stoichiometry: 1.0
species: metaid_0000020