Abstract
Cardiac modeling is here to stay. Computer models are being used in a variety of ways and support the tests of drugs, the development of new medical devices and non-invasive diagnostic techniques. Computer models have become valuable tools for the study and comprehension of the complex phenomena of cardiac electrophysiology. However, the complexity and the multidisciplinary nature of cardiac models still restrict its use to a few specialized research centers in the world. We propose a computational framework that provides support for cardiac electrophysiology modeling. This framework integrates different computer tools and allows one to bypass many complex steps during the development and use of cardiac models. The implementation of cardiac cell models is automatically provided by a tool that translates models described in CellML language to executable code that allows one to manipulate and solve the models numerically. The automatically generated cell models are integrated in an efficient 2-dimensional parallel cardiac simulator. The set up and use of the simulator is supported by a user-friendly graphical interface that offers the tasks of simulation configuration, parallel execution in a pool of connected computer clusters, storage of results and basic visualization. All these tools are being integrated in a Web portal that is connected to a pool of clusters. The Web portal allows one to develop and simulate cardiac models efficiently via this user-friendly integrated environment. As a result, the complex techniques and the know-how behind cardiac modeling are all taken care of by the web distributed applications.
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References
Henriquez, C.S.: Simulating the electrical behavior of cardiac tissue using the bidomain model. Crit. Rev. Biomed. Eng. 21, 1–77 (1993)
Hodgkin, A.L., Huxley, A.F.: A quantitative description of membrane current and its application to conduction and excitation in nerve. J. Physiol. 117, 500–544 (1952)
Gima, K., Rudy, Y.: Ionic current basis of electrocardiographic waveforms: a model study. Circ. Res. 90, 889–896 (2002)
Santos, R.W.D., et al.: Modelling the electrical propagation in cardiac tissue using detailed histological data. Biomedical Engineering 48, 476–478 (2003)
Santos, R.W.D., et al.: MCG to ECG source differences: measurements and a 2D computer model study. Journal Of Electrocardiology, 37 Suppl. (2004)
CellML biology, math, data, knowledge. Internet site address: http://www.cellml.org/
MPI (Message Passing Interface). Internet site address: http://www.mpi-forum.org/
Santos, R.W.D., et al.: Parallel Multigrid Preconditioner for the Cardiac Bidomain Model. IEEE Trans. Biomed. Eng. 51(11), 1960–1968 (2004)
Mathematical Markup Language (MathML) Version 2.0, 2nd edn., Internet site address: http://www.w3.org/TR/MathML2/
Lloyd, C.M., Halstead, M.D.B., Nielsen, P.F.: CellML: its future, present and past. Biophysics & Molecular Biology 85, 433–450 (2004)
FISIOCOMP: Laboratory of Computational Physiology, internet site address: http://, http://www.fisiocomp.ufjf.br/
Sepulveda, N.G., Roth, B.J., Wikswo Jr., J.P.: Current injection into a two-dimensional anistropic bidomain. Biophysical J. 55, 987–999 (1989)
Vigmond, E., Aguel, F., Trayanova, N.: Computational techniques for solving the bidomain equations in three dimensions. IEEE Trans. Biomed. Eng. 49, 1260–1269 (2002)
Sundnes, J., Lines, G., Tveito, A.: Efficient solution of ordinary differential equations modeling electrical activity in cardiac cells. Math. Biosci. 172(2), 55–72 (2001)
Keener, J., Bogar, K.: A numerical method for the solution of the bidomain equations in cardiac tissue. Chaos 8(1), 234–241 (1998)
Santos, R.W.D., et al.: Preconditioning techniques for the bidomain equations. Lecture Notes In Computational Science And Engineering 40, 571–580 (2004)
PETSc: Portable, Extensible Toolkit for Scientific Computation. Internet site address: http://www-unix.mcs.anl.gov/petsc/petsc-as/
Calgary University. Internet site address: http://www.ucalgary.ca/
NAPCI Rocks. Internet site address: http://www.rocksclusters.org/Rocks/
Muzikant, A.L., Henriquez, C.S.: Validation of three-dimensional conduction models using experimental mapping: are we getting closer? Prog. Biophys. Mol. Biol. 69, 205–223 (1998)
Krassowska, W., Neu, J.C.: Effective boundary conditions for syncytial tissues. IEEE Trans. Biomed. Eng 41, 143–150 (1994)
ten Tusscher, K.H.W.J., et al.: A model for human ventricular tissue. J. Physiol. 286, 1573–1589 (2004)
Henson, V.E., Yang, U.M.: BoomerAMG: a Parallel Algebraic Multigrid Solver and Preconditioner. Technical Report UCRL-JC-139098, Lawrence Livermore National Laboratory (2000)
Sun Microsystems. Internet site address: http://java.sun.com/products/jsp/
Apache Software Foundation. Internet site address: http://struts.apache.org/
The PHP Group. Internet site address: http://www.php.net/
MySQL AB. Internet site address: http://www.mysql.com/
The Apache Jakarta Project. Internet site address: http://jakarta.apache.org/tomcat/
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Martins, D.M.S. et al. (2007). A Computational Framework for Cardiac Modeling Based on Distributed Computing and Web Applications. In: Daydé, M., Palma, J.M.L.M., Coutinho, Á.L.G.A., Pacitti, E., Lopes, J.C. (eds) High Performance Computing for Computational Science - VECPAR 2006. VECPAR 2006. Lecture Notes in Computer Science, vol 4395. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-71351-7_42
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DOI: https://doi.org/10.1007/978-3-540-71351-7_42
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