形式的に記述されたODE解法スキームに基づくCellMLシミュレーションコード生成システム
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| Published in | 生体医工学 Vol. 50; no. 1; pp. 68 - 77 |
|---|---|
| Main Authors | , , , , , , , |
| Format | Journal Article |
| Language | Japanese |
| Published |
公益社団法人 日本生体医工学会
10.02.2012
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| Online Access | Get full text |
| ISSN | 1347-443X 1881-4379 |
| DOI | 10.11239/jsmbe.50.68 |
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| Author | 山下, 義陽 川端, 真成 嶋吉, 隆夫 プンザラン, フロレンシオ ラスティ 國枝, 義敏 天野, 晃 副島, 直樹 桑原, 寛明 |
|---|---|
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| References | 14. Luo CH, Rudy Y:A model of the ventricular cardiac action potential. depolarization, re-polarization, and their interaction. Circ Res. 68:1501-1526, 1991. 20. Ascher UM, Petzold LR:Computer Methods for Ordinary Differential Equations and Differential-Algebraic Equations Society for Industrial and Applied Mathematics, Philadelphia, 1998. 10. Winfree AT:Varieties-of spiral wave behavior:an experimentalist's approach to the theory of excitable media. Chaos. 1:303-334, 1991. 15. Luo CH, Rudy Y:A dynamic model of the cardiac ventricular action potential. i. simulations of ionic currents and concentration changes. Circ Res. 74:1071-96, 1994. 2. Cuellar AA, Lloyd CM, Nielsen PF, Bullivant DP, Nickerson DP, Hunter PJ:An overview of cellml 1.1, a biological model description language. Simulation. 79(12):740-747, 2003. 9. Fitzhugh R:Impulses and physiological states in theoretical models of nerve membrane. Biophys J. 1:445-446, 1961. 3. Hucka M, Kitano H, et al:The systems biology markup language (sbml):A medium for representation and exchange of biochemical network models. Bioinformatics. 19(4):524-531, 2003. 11. 嶋吉隆夫, 天野晃, 松田哲也:細胞モデルの微分代数方程式に対する可解な計算条件の効率的設定手法. 情報処理学会論文誌. 52:2412-2421, 2011. 12. CellML Compiler:http://sourceforge.net/projects/cellmlcompiler/. 1. Hunter P, Robbins P, Noble D:The IUPS human physiome project. Eur J Physiol. 445(1):1-9, 2002. 18. Burrage K:Parallel and sequential methods for ordinary differential equations. Oxford University Press, Oxford, UK, 1995. 13. 嶋吉隆夫, 天野晃, 松田哲也:記述言語を用いた細胞生理学実験シミュレーション手法. 生体医工学. 46(1):77-84, 2008. 19. Herd JR, Postak JN, Russell WE, Steward KR:Software cost estimation study:Study results, Final Technical Report, RADCTR77-220, vol.I. Doty Associates Inc., Rockville, MD, 1977. 17. NVIDIA:NVIDIA CUDA C Programming Guide. NVIDIA Corp., 2011. 5. Garny A, Nickerson DP, et al:Cellml and associated tools and techniques. Phil Trans R Soc A. 366(1878):3017-3043, 2008. 4. Asai Y, Suzuki Y, Kido Y, Oka H, Heien E, Nakanishi M, Urai T, Hagihara K, Kurachi Y, Nomura T:Specifications of insilicoML 1.0:A multilevel biophysical model description language. J Physiol Sci. 58(7):447-458, 2008. 8. Missan S, McDonald TF:Cese:Cell electrophysiology simulation environment. Appl Bioinformatics. 4(2):155-6, 2005. 6. Garny A, Noble D, Hunter PJ, Kohl P:Cellular open resource (cor):current status and future directions. Philos Transact A Math Phys Eng Sci. 367(1895):1885-905, 2009. 7. Nickerson DP, Corrias A, Buist ML:Reference descriptions of cellular electrophysiology models. Bioinformatics. 24(8):1112-1114, 2008. 16. Matsuoka S, Sarai N, Kuratomi S, Ono K, Noma A:Role of individual ionic current systems in ventricular cells hypothesized by a model study. JJP. 53:105-123, 2003. |
| References_xml | – reference: 4. Asai Y, Suzuki Y, Kido Y, Oka H, Heien E, Nakanishi M, Urai T, Hagihara K, Kurachi Y, Nomura T:Specifications of insilicoML 1.0:A multilevel biophysical model description language. J Physiol Sci. 58(7):447-458, 2008. – reference: 15. Luo CH, Rudy Y:A dynamic model of the cardiac ventricular action potential. i. simulations of ionic currents and concentration changes. Circ Res. 74:1071-96, 1994. – reference: 18. Burrage K:Parallel and sequential methods for ordinary differential equations. Oxford University Press, Oxford, UK, 1995. – reference: 9. Fitzhugh R:Impulses and physiological states in theoretical models of nerve membrane. Biophys J. 1:445-446, 1961. – reference: 19. Herd JR, Postak JN, Russell WE, Steward KR:Software cost estimation study:Study results, Final Technical Report, RADCTR77-220, vol.I. Doty Associates Inc., Rockville, MD, 1977. – reference: 8. Missan S, McDonald TF:Cese:Cell electrophysiology simulation environment. Appl Bioinformatics. 4(2):155-6, 2005. – reference: 13. 嶋吉隆夫, 天野晃, 松田哲也:記述言語を用いた細胞生理学実験シミュレーション手法. 生体医工学. 46(1):77-84, 2008. – reference: 1. Hunter P, Robbins P, Noble D:The IUPS human physiome project. Eur J Physiol. 445(1):1-9, 2002. – reference: 14. Luo CH, Rudy Y:A model of the ventricular cardiac action potential. depolarization, re-polarization, and their interaction. Circ Res. 68:1501-1526, 1991. – reference: 7. Nickerson DP, Corrias A, Buist ML:Reference descriptions of cellular electrophysiology models. Bioinformatics. 24(8):1112-1114, 2008. – reference: 5. Garny A, Nickerson DP, et al:Cellml and associated tools and techniques. Phil Trans R Soc A. 366(1878):3017-3043, 2008. – reference: 6. Garny A, Noble D, Hunter PJ, Kohl P:Cellular open resource (cor):current status and future directions. Philos Transact A Math Phys Eng Sci. 367(1895):1885-905, 2009. – reference: 10. Winfree AT:Varieties-of spiral wave behavior:an experimentalist's approach to the theory of excitable media. Chaos. 1:303-334, 1991. – reference: 2. Cuellar AA, Lloyd CM, Nielsen PF, Bullivant DP, Nickerson DP, Hunter PJ:An overview of cellml 1.1, a biological model description language. Simulation. 79(12):740-747, 2003. – reference: 20. Ascher UM, Petzold LR:Computer Methods for Ordinary Differential Equations and Differential-Algebraic Equations Society for Industrial and Applied Mathematics, Philadelphia, 1998. – reference: 16. Matsuoka S, Sarai N, Kuratomi S, Ono K, Noma A:Role of individual ionic current systems in ventricular cells hypothesized by a model study. JJP. 53:105-123, 2003. – reference: 11. 嶋吉隆夫, 天野晃, 松田哲也:細胞モデルの微分代数方程式に対する可解な計算条件の効率的設定手法. 情報処理学会論文誌. 52:2412-2421, 2011. – reference: 12. CellML Compiler:http://sourceforge.net/projects/cellmlcompiler/. – reference: 3. Hucka M, Kitano H, et al:The systems biology markup language (sbml):A medium for representation and exchange of biochemical network models. Bioinformatics. 19(4):524-531, 2003. – reference: 17. NVIDIA:NVIDIA CUDA C Programming Guide. NVIDIA Corp., 2011. |
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| Title | 形式的に記述されたODE解法スキームに基づくCellMLシミュレーションコード生成システム |
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