Difference between revisions of "Modelreduction"

From SYSOS

(New page: We provide here the code that was used to model order reduce the networks in the paper 'A systematic, algorithmic methodology for model reduction of large-scale biochemical networks' by Y...)
 
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We provide here the code that was used to model order reduce the networks in the paper 'A systematic, algorithmic methodology for model reduction of large-scale biochemical networks' by Yo-Cheng Chang and Antonis Papachristodoulou.
 
We provide here the code that was used to model order reduce the networks in the paper 'A systematic, algorithmic methodology for model reduction of large-scale biochemical networks' by Yo-Cheng Chang and Antonis Papachristodoulou.
  
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One zip file containing:
 
One zip file containing:
  
The SIMULINK model: YGlyco_mdl.mdl
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* The SIMULINK model: YGlyco_mdl.mdl
The S-function: YGlyco_sfun.mdl
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* The S-function: YGlyco_sfun.mdl
The Parameters: YGlyco_para.m
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* The Parameters: YGlyco_para.m
The vector field: YGlyco_eqs.m
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* The vector field: YGlyco_eqs.m
The ODE function: YGlycoode.m
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* The ODE function: YGlycoode.m
 
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* The reduction algorithm: YGlyco_reduction.m
The reduction algorithm: YGlyco_reduction.m
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* The system coordinate change function: findtransform.m
The system coordinate change function: findtransform.m
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* The norm coordinate change function: getQ.m
The norm coordinate change function: getQ.m
 
  
 
=The EGFR-MAPK Pathway=
 
=The EGFR-MAPK Pathway=
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One zip file containing:
 
One zip file containing:
  
The SIMULINK model: EGFRMAPK_mdl.mdl
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* The SIMULINK model: EGFRMAPK_mdl.mdl
The S-function: EGFRMAPK_sfun.mdl
+
* The S-function: EGFRMAPK_sfun.mdl
The Parameters: EGFRMAPK_para.m
+
* The Parameters: EGFRMAPK_para.m
The total concentrations: EGFRMAPK_init.m
+
* The total concentrations: EGFRMAPK_init.m
The ODE function: EGFRMAPKode.m
+
* The ODE function: EGFRMAPKode.m
 
+
* The reduction algorithm: EGFR_reduction.m
The reduction algorithm: EGFR_reduction.m
+
* The system coordinate change function: findtransform.m
The system coordinate change function: findtransform.m
+
* The norm coordinate change function: getQ.m
The norm coordinate change function: getQ.m
 

Revision as of 11:10, 15 December 2008

We provide here the code that was used to model order reduce the networks in the paper 'A systematic, algorithmic methodology for model reduction of large-scale biochemical networks' by Yo-Cheng Chang and Antonis Papachristodoulou.

The Yeast Glycolysis Pathway

One zip file containing:

  • The SIMULINK model: YGlyco_mdl.mdl
  • The S-function: YGlyco_sfun.mdl
  • The Parameters: YGlyco_para.m
  • The vector field: YGlyco_eqs.m
  • The ODE function: YGlycoode.m
  • The reduction algorithm: YGlyco_reduction.m
  • The system coordinate change function: findtransform.m
  • The norm coordinate change function: getQ.m

The EGFR-MAPK Pathway

One zip file containing:

  • The SIMULINK model: EGFRMAPK_mdl.mdl
  • The S-function: EGFRMAPK_sfun.mdl
  • The Parameters: EGFRMAPK_para.m
  • The total concentrations: EGFRMAPK_init.m
  • The ODE function: EGFRMAPKode.m
  • The reduction algorithm: EGFR_reduction.m
  • The system coordinate change function: findtransform.m
  • The norm coordinate change function: getQ.m