Excitation-contraction coupling/mitochondrial energetics (ECME) model (Cortassa et al. 2006)

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Accession:105383
"An intricate network of reactions is involved in matching energy supply with demand in the heart. This complexity arises because energy production both modulates and is modulated by the electrophysiological and contractile activity of the cardiac myocyte. Here, we present an integrated mathematical model of the cardiac cell that links excitation-contraction coupling with mitochondrial energy generation. The dynamics of the model are described by a system of 50 ordinary differential equations. The formulation explicitly incorporates cytoplasmic ATP-consuming processes associated with force generation and ion transport, as well as the creatine kinase reaction. Changes in the electrical and contractile activity of the myocyte are coupled to mitochondrial energetics through the ATP, Ca21, and Na1 concentrations in the myoplasmic and mitochondrial matrix compartments. ..."
Reference:
1 . Cortassa S, Aon MA, O'Rourke B, Jacques R, Tseng HJ, Marban E, Winslow RL (2006) An integrated model of cardiac mitochondrial energy metabolism and calcium dynamics. Biophys J 84:2734-55 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Neuron or other electrically excitable cell; Electrogenic pump;
Brain Region(s)/Organism:
Cell Type(s): Heart cell;
Channel(s): I L high threshold; I Sodium; I Potassium; Na/Ca exchanger; I_SERCA;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: C or C++ program;
Model Concept(s): Activity Patterns; Temporal Pattern Generation; Signaling pathways; Calcium dynamics;
Implementer(s):
Search NeuronDB for information about:  I L high threshold; I Sodium; I Potassium; Na/Ca exchanger; I_SERCA;
This is the readme for the model associated with

Cortassa S, Aon MA, O'Rourke B, Jacques R, Tseng HJ, Marban E, Winslow
RL (2006) An integrated model of cardiac mitochondrial energy
metabolism and calcium dynamics. Biophys J 84:2734-55


Our ECME model in C++ contains the source files and the CVODE version
that we use as integrator to run it.

In order to run it, you need to establish the model parameters in file
"parameter", the running parameter in file "control" and it requires
also the file "initial_conditions".

It will save the output in the files "states", "currents",
"derivatives" and "ss_conditions". All those files are ASCII (text)
files.

The model code is actually in the file "model.cpp" there are some
files like "exp.cpp" that correspond to older versions of the code and
I believe we do not use them any longer.

There are three modes of running: the numeric mode, the average mode
and the MCA mode. They differ in the output. I guess what you need to
use is the numeric mode that gives you the states, currents, etc as a
function of time.

In order to compile it we used Microsoft visual studio 2003. And as
accessory library we need the "Boost library" and the version of it
that we are using is: 1.31.0.  After you install the boost library you
may need to include the paths in the project if it is installed in a
different location than the default.

I am not including these here for reasons of room.

Please, do not hesitate to contact me when you need further
assistance.

Sonia Cortassa

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