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BIOMD0000000099 - Laub1998_SpontaneousOscillations

 

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Reference Publication
Publication ID: 9843585
Laub MT, Loomis WF.
A molecular network that produces spontaneous oscillations in excitable cells of Dictyostelium.
Mol. Biol. Cell 1998 Dec; 9(12): 3521-3532
Center for Molecular Genetics, Department of Biology, University of California, San Diego, La Jolla, California 92093, USA.  [more]
Model
Original Model: JWS logo
Submitter: Enuo He
Submission ID: MODEL4515710981
Submission Date: 21 Mar 2007 23:52:31 UTC
Last Modification Date: 25 Feb 2015 12:35:01 UTC
Creation Date: 21 Mar 2007 13:23:30 UTC
Encoders:  Enuo He
set #1
bqbiol:isVersionOf Gene Ontology cAMP-mediated signaling
set #2
bqbiol:hasProperty Mathematical Modelling Ontology MAMO_0000046
set #3
bqbiol:hasTaxon Taxonomy Dictyostelium
Notes

This is model according to the paper "A Molecular Network That Produces Spontaneous Oscillations in Excitalbe Cells of Dictyostelium. Figure 3 has been reproduced by Copasi 4.0.20(development) ". However four of the parameters have been changed , see details in notes.


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.

Model
Publication ID: 9843585 Submission Date: 21 Mar 2007 23:52:31 UTC Last Modification Date: 25 Feb 2015 12:35:01 UTC Creation Date: 21 Mar 2007 13:23:30 UTC
Mathematical expressions
Reactions
k1 k2 k3 k4
k5 k6 k7 k8
k9 k10 k11 k12
k13 k14    
Physical entities
Compartments Species
Extracellular Ex_cAMP    
Intracellular In_cAMP PKA REGA
ACA CAR1 ERK2
Global parameters
k1 k2 k3 k4
k5 k6 k7 k8
k9 k10 k11 k12
k13 k14    
Reactions (14)
 
 k1  → [ACA];   {ERK2}
 
 k2 [ACA] → ;  
 
 k3  → [PKA];   {In_cAMP}
 
 k4 [PKA] → ;  
 
 k5  → [ERK2];   {CAR1}
 
 k6 [ERK2] → ;   {PKA}
 
 k7  → [REGA];  
 
 k8 [REGA] → ;   {ERK2}
 
 k9  → [In_cAMP];   {ACA}
 
 k10 [In_cAMP] → ;   {REGA}
 
 k11  → [Ex_cAMP];   {ACA}
 
 k12 [Ex_cAMP] → ;  
 
 k13  → [CAR1];   {Ex_cAMP}
 
 k14 [CAR1] → ;   {PKA}
 
 Extracellular Spatial dimensions: 3.0  Compartment size: 1.0
 
 Ex_cAMP
Compartment: Extracellular
Initial concentration: 0.0
 
 Intracellular Spatial dimensions: 3.0  Compartment size: 1.0
 
 In_cAMP
Compartment: Intracellular
Initial concentration: 1.0
 
 PKA
Compartment: Intracellular
Initial concentration: 1.0
 
 REGA
Compartment: Intracellular
Initial concentration: 2.5
 
 ACA
Compartment: Intracellular
Initial concentration: 1.4
 
 CAR1
Compartment: Intracellular
Initial concentration: 1.5
 
 ERK2
Compartment: Intracellular
Initial concentration: 1.6
 
Global Parameters (14)
 
   k1
Value: 1.4
Constant
 
   k2
Value: 0.9
Constant
 
   k3
Value: 2.5
Constant
 
   k4
Value: 1.5
Constant
 
   k5
Value: 0.6
Constant
 
   k6
Value: 0.8
Constant
 
   k7
Value: 2.0
Constant
 
   k8
Value: 1.3
Constant
 
 k9
Value: 0.29
Constant
 
   k10
Value: 1.0
Constant
 
 k11
Value: 0.6
Constant
 
   k12
Value: 3.1
Constant
 
 k13
Value: 33.0
Constant
 
 k14
Value: 4.5
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000099

Curator's comment: (updated: 21 Mar 2007 22:40:08 GMT)

Figure 3 upper has been reproduced by Copasi 4.0.10 (development).

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