Improved delay-leaping simulation algorithm for biochemical reaction systems with delays
文献类型：期刊论文
| 作者 | Yi, N; Zhuang, G; Da, L; Wang, YF |
| 刊名 | JOURNAL OF CHEMICAL PHYSICS
 |
| 出版日期 | 2012 |
| 卷号 | 136期号:14页码:144108-144108 |
| 通讯作者 | Wang, YF (reprint author), Shanghai Univ, Dept Math, Shanghai 200444, Peoples R China.,wzhshyina@shu.edu.cn ; zhuanggang@shu.edu.cn ; lda@sibs.ac.cn ; yifei_wang@staff.shu.edu.cn |
| 英文摘要 | In biochemical reaction systems dominated by delays, the simulation speed of the stochastic simulation algorithm depends on the size of the wait queue. As a result, it is important to control the size of the wait queue to improve the efficiency of the simulation. An improved accelerated delay stochastic simulation algorithm for biochemical reaction systems with delays, termed the improved delay-leaping algorithm, is proposed in this paper. The update method for the wait queue is effective in reducing the size of the queue as well as shortening the storage and access time, thereby accelerating the simulation speed. Numerical simulation on two examples indicates that this method not only obtains a more significant efficiency compared with the existing methods, but also can be widely applied in biochemical reaction systems with delays. (C) 2012 American Institute of Physics. [http://dx.doi.org/10.1063/1.3702433] |
| 学科主题 | Physics |
| 类目[WOS] | Physics, Atomic, Molecular & Chemical |
| 关键词[WOS] | EXACT STOCHASTIC SIMULATION ; COUPLED CHEMICAL-REACTIONS ; EXPRESSION |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000303146800010 |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.143/handle/331003/673]  |
| 专题 | 上海生化细胞研究所_上海生科院生化细胞研究所 |
| 推荐引用方式 GB/T 7714 | Yi, N,Zhuang, G,Da, L,et al. Improved delay-leaping simulation algorithm for biochemical reaction systems with delays[J]. JOURNAL OF CHEMICAL PHYSICS,2012,136(14):144108-144108. |
| APA | Yi, N,Zhuang, G,Da, L,&Wang, YF.(2012).Improved delay-leaping simulation algorithm for biochemical reaction systems with delays.JOURNAL OF CHEMICAL PHYSICS,136(14),144108-144108. |
| MLA | Yi, N,et al."Improved delay-leaping simulation algorithm for biochemical reaction systems with delays".JOURNAL OF CHEMICAL PHYSICS 136.14(2012):144108-144108. |
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