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2015 | 3 | 1 |

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Membrane-Channel Protein System Mesh Construction for Finite Element Simulations

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We present a method of constructing the volume meshes of the membrane-channel protein system for finite element simulation of ion channels. The membrane channel system consists of the solvent region and the membrane-protein region. Our method focuses on labeling the tetrahedra in the solvent and membrane-protein regions and collecting the interface triangles between different regions. It contains two stages. Firstly, a volume mesh conforming the surface of the channel protein is generated by the surface and volume mesh generation tools: TMSmesh and TetGen. Then a walk-and-detect algorithm is used to identify the pore region to embed the membrane correctly. This method is shown to be robust because of its independence of the pore structure of the ion channels. In addition, we can also get the information of whether the ion channel is open or closed by the walk-and-detect algorithm. An on-line meshing procedure will be available at our website







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  • State Key Laboratory of Scientific and Engineering Computing, Academy of Mathematics and Systems Science,
    National Center for Mathematics and Interdisciplinary Sciences, Chinese Academy of Sciences, Beijing 100190, China
  • State Key Laboratory of Scientific and Engineering Computing, Academy of Mathematics and Systems Science,
    National Center for Mathematics and Interdisciplinary Sciences, Chinese Academy of Sciences, Beijing 100190, China
  • National Center for NanoScience and Technology, Chinese Academy of Sciences, Beijing 100190, China
  • Center for System Biology, Department of Mathematics, Soochow University, Suzhou 215006, China
  • State Key Laboratory of Scientific and Engineering Computing, Academy of Mathematics and Systems Science,
    National Center for Mathematics and Interdisciplinary Sciences, Chinese Academy of Sciences, Beijing 100190, China


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