An Application of Graphical Numerical Accelerators in Simulations of Ion-Transport Through Biological Membranes

• Autorzy: Górecki A.
• Języki publikacji: EN

Abstrakty

EN

The modeling of ion-transport through biological membranes is important for understanding many life processes. The transmembrane potential and ion concentrations in the stationary state can be measured in in-vivo experiments. They can also be simulated within membrane models. Here we consider a basic model of ion transport that describes the time evolution of ion concentrations and potentials through a set of nonlinear ordinary differential equations. To reduce the computation time I have developed an application for simulation of the ion-flows through a membrane starting from an ensemble of initial conditions, optimized for a Graphical Processing Unit (GPU). The application has been designed for the CUDA (Compute Unified Device Architecture) technology. It is written in CUDA C programming language and runs on NVIDIA TESLA family of numerical accelerators. The calculation speed can be increased almost 1000 times compared with a sequential program running on the Central Processing Unit (CPU) of a typical PC.

Słowa kluczowe

EN

biological membranes; electrochemistry; differential equations integration; CUDA; TESLA

• Wydawca: Institute of Bioorganic Chemistry Scientific Publishers OWN, Polish Academy of Sciences
• Czasopismo: Computational Methods in Science and Technology
• Rocznik: 2013
• Tom: Vol. 19, No. 1
• Strony: 33--46
• Opis fizyczny: Bibliogr. 11 poz., rys.

Twórcy

autor

Górecki A.

• Warsaw University of Life Sciences WULS-SGGW, Nowoursynowska St. 159, 02-787 Warsaw, Poland

Bibliografia

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