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Coupling of PDE and ODE Solvers in INMOST Parallel Platform: Application to Electrophysiology

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Supercomputing (RuSCDays 2019)

Part of the book series: Communications in Computer and Information Science ((CCIS,volume 1129))

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Abstract

Mathematical modeling of cardiac electrophysiology is one of important and widely developing problems in personalized medicine. In this paper we present numerical simulations of electrophysiology in a human heart ventricles using high performance computing. For cardiac electrophysiology equations monodomain model is used. This PDE problem is discretized by P1 finite elements with the first order accurate implicit time scheme. Ionic currents are described by system of ODEs from O’Hara–Rudy model, provided by CellML model repository. The whole problem is solved using the CVODE solver, Ani3D and INMOST platforms. Efficiency in numerical simulations on high performance systems is almost 50% on 192 cores.

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Acknowledgements

The research was supported by RFBR grants 17-01-00886 and 18-00-01524 (18-00-01661).

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Authors and Affiliations

  1. Marchuk Institute of Numerical Mathematics of the Russian Academy of Sciences, Moscow, 119333, Russia

    Alexey Chernyshenko, Alexander Danilov & Vasily Kramarenko

  2. Moscow Inistitute of Physics and Technology, Dolgoprudny, 141701, Russia

    Alexey Chernyshenko & Alexander Danilov

  3. Sechenov University, Moscow, 119991, Russia

    Alexander Danilov & Vasily Kramarenko

Authors
  1. Alexey Chernyshenko
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  2. Alexander Danilov
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  3. Vasily Kramarenko
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Corresponding author

Correspondence to Vasily Kramarenko .

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Editors and Affiliations

  1. Research Computing Center, Moscow State University, Moscow, Russia

    Vladimir Voevodin

  2. Research Computing Center, Moscow State University, Moscow, Russia

    Sergey Sobolev

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Chernyshenko, A., Danilov, A., Kramarenko, V. (2019). Coupling of PDE and ODE Solvers in INMOST Parallel Platform: Application to Electrophysiology. In: Voevodin, V., Sobolev, S. (eds) Supercomputing. RuSCDays 2019. Communications in Computer and Information Science, vol 1129. Springer, Cham. https://doi.org/10.1007/978-3-030-36592-9_16

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  • DOI: https://doi.org/10.1007/978-3-030-36592-9_16

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-36591-2

  • Online ISBN: 978-3-030-36592-9

  • eBook Packages: Computer ScienceComputer Science (R0)

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