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Three-Dimensional Cardiac Electrical Activity Simulation on Cluster and Grid Platforms

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High Performance Computing for Computational Science - VECPAR 2004 (VECPAR 2004)

Part of the book series: Lecture Notes in Computer Science ((LNTCS,volume 3402))

Abstract

Simulation of action potential propagation on cardiac tissues represents both a computational and memory intensive task. The use of detailed ionic cellular models, combined with its application into three-dimensional geometries turn simulation into a problem only affordable, in reasonable time, with High Performance Computing techniques. This paper presents a complete and efficient parallel system for the simulation of the action potential propagation on a three-dimensional parallelepiped modelization of a ventricular cardiac tissue. This simulator has been integrated into a Grid Computing system, what allows an increase of productivity in cardiac case studies by performing multiple concurrent parallel executions on distributed computational resources of a Grid.

The authors wish to thank the financial support received from (1) the Spanish Ministry of Science and Technology to develop the projects CAMAEC (TIC2001-2686) and GRID-IT (TIC2003-01318), and (2) the Universidad Politécnica de Valencia for the CAMAV project (20020418).

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References

  1. Foster, I., Kesselman, C., Tuecke, S.: The Anatomy of the Grid: Enabling Scalable Virtual Organizations. International Journal of High Performance Computing Applications 15(3), 200–222 (2001)

    Article  Google Scholar 

  2. Foster, I., Kesselman, C.: Globus: A Metacomputing Infrastructure Toolkit. Intl. J. Supercomputer Applications 11(2), 115–128 (1997)

    Article  Google Scholar 

  3. GridSystems, S.A.: InnerGrid Nitya Technical Specifications (2003)

    Google Scholar 

  4. Luo, C.H., Rudy, Y.: A Dynamic Model of the Cardiac Ventricular Action Potential. I Simulations of Ionic Currents and Concentration Changes. Circulation Research 74, 1071–1096 (1994)

    Google Scholar 

  5. Vigmond, E.J., Aguel, F., Trayanova, N.A.: Computational Techniques for Solving the Bidomain Equations in Three Dimensions. IEEE Transactions on Biomedical Engineering 49, 1260–1269 (2002)

    Article  Google Scholar 

  6. Balay, S., Buschelman, K., Gropp, W.D., Kaushik, D., Knepley, M., McInnes, L.C., Smith, B.F., Zhang, H.: PETSc User Manual. Technical Report ANL-95/11 - Revision 2.1.5, Argonne National Laboratory (2002)

    Google Scholar 

  7. Amestoy, P.R., Duff, I.S., L’Excellent, J.Y., Koster, J.: Multifrontal Massively Parallel Solver (MUMPS Version 4.3). User’s Guide (2003)

    Google Scholar 

  8. Karypis, G., Kumar, V.: METIS. In: A Software Package for Partitioning Unstructured Graphs, Partitioning Meshes and Computing Fill-reducing Orderings of Sparse Matrices. University of Minnesota. Version 4.0. (1998)

    Google Scholar 

  9. Gropp, W.D., Lusk, E.: User’s Guide for MPICH, a Portable Implementation of MPI. Mathematics and Computer Science Division, Argonne National Laboratory (1996)

    Google Scholar 

  10. Gropp, W., Lusk, E., Doss, N., Skjellum, A.: A High-Performance, Portable, Implementation of the MPI Message Passing Interface Standard. Parallel Computing 22, 789–828 (1996)

    Article  MATH  Google Scholar 

  11. Coronel, R.: Heterogeneity in Extracellular Potassium Concentration During Early Myocardial Ischaemia and Reperfusion: Implications for Arrhythmogenesis. Cardiovasc. Res. 28, 770–777 (1994)

    Article  Google Scholar 

  12. Weiss, J.N., Venkatesh, N., Lamp, S.T.: ATP-sensitive k  +  Channels and Cellular k  +  Loss in Hypoxic and Ischaemic Mammalian Ventricle. J. Physiol. 447, 649–673 (1994)

    Google Scholar 

  13. Ferrero Jr., J.M., Saiz, J., Ferrero, J.M., Thakor, N.: Simulation of Action Potentials from Metabolically Impaired Cardiac Myocytes. Role of ATP-sensitive K  +  Current. Circ. Res. 79, 208–221 (1996)

    Google Scholar 

  14. Yatani, A., Brown, A.M., Akaike, N.: Effects of Extracellular pH on Sodium Current in Isolated, Single Rat Ventricular Cells. J. Membr. Biol. 78, 163–168 (1984)

    Article  Google Scholar 

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Authors and Affiliations

  1. Departamento de Sistemas Informáticos y Computación, Universidad Politécnica de Valencia., Camino de Vera s/n, 46022, Valencia, Spain

    J. M. Alonso, V. Hernández & G. Moltó

  2. Departamento de Ingeniería Electrónica, Universidad Politécnica de Valencia., Camino de Vera s/n, 46022, Valencia, Spain

    J. M. Ferrero, M. Monserrat & J. Saiz

Authors
  1. J. M. Alonso
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  2. J. M. Ferrero
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  3. V. Hernández
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  4. G. Moltó
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  5. M. Monserrat
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  6. J. Saiz
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Editor information

Editors and Affiliations

  1. INP (ENSEEIHT); IRIT, University of Toulouse, rue Charles-Camichel, 31071, Toulouse CEDEX 7, France

    Michel Daydé

  2. Computer Science Department, University of Tennessee, 37996-3450, Knoxville, TN, USA

    Jack Dongarra

  3. EUIT Telecomunicación - DIATEL, Universidad Politécnica de Madrid, Ctra. Valencia, Km. 7, 28031, Madrid, Spain

    Vicente Hernández

  4. Faculdade de Engenharia da Universidade do Porto, Rua Dr. Roberto Frias s/n, 4200-465, Porto, Portugal

    José M. L. M. Palma

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© 2005 Springer-Verlag Berlin Heidelberg

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Alonso, J.M., Ferrero, J.M., Hernández, V., Moltó, G., Monserrat, M., Saiz, J. (2005). Three-Dimensional Cardiac Electrical Activity Simulation on Cluster and Grid Platforms . In: Daydé, M., Dongarra, J., Hernández, V., Palma, J.M.L.M. (eds) High Performance Computing for Computational Science - VECPAR 2004. VECPAR 2004. Lecture Notes in Computer Science, vol 3402. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11403937_18

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  • DOI: https://doi.org/10.1007/11403937_18

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-25424-9

  • Online ISBN: 978-3-540-31854-5

  • eBook Packages: Computer ScienceComputer Science (R0)

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