| MetaGen: 从KEGG建模代谢网络的新工具 |
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| 引用本文： | 周婷婷,容健锋,陈振冲,王正华,朱云平,贺福初. MetaGen: 从KEGG建模代谢网络的新工具[J]. 生物化学与生物物理进展, 2010, 37(1): 63-68 |
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| 作者姓名： | 周婷婷 容健锋 陈振冲 王正华 朱云平 贺福初 |
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| 作者单位： | 国防科学技术大学并行与分布式处理国家重点实验室;蛋白质组学国家重点实验室;北京蛋白质组研究中心;军事医学科学院放射与辐射医学研究所;香港理工大学计算学系; |
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| 基金项目： | supported by grants from The National NaturalScience Foundation of China (60773021, 60603054, 30621063,30800200); National Basic Research Program of China(2006CB910803,2006CB910706); Hi-Tech Research and Development Program of China(2006AA02A312); National S&T Major Project (2008ZX10002-016,2009ZX09301-002); State Key Laboratory of Proteomics(SKLP-Y200811)~~ |
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| 摘 要： | 为便于大规模代谢网络的计算,发展了一款方便实用的工具:MetaGen,对Kyoto Encyclopedia of Genesand Genomes(KEGG)中物种特异的各层次代谢系统进行建模,生成的代谢网络以酶图和通路图的方式表示.利用该工具,对人类代谢系统的bow-tie结构进行了初步研究,并以此为例展示了该工具广阔的应用前景.MetaGen利用KEGGweb服务保证建模数据的可靠性,依靠本地关系数据库加速网络建模过程并提供更多的数据管理和利用方式,并结合高级JAVA技术提高代码的可扩展性.MetaGen完全开源,可直接从http://bnct.sourceforge.net/下载.
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| 关 键 词： | 代谢网络 网络建模 KEGG web服务 关系数据库 |
| 收稿时间： | 2009-07-31 |
| 修稿时间： | 2009-09-19 |
MetaGen: a promising tool for modeling metabolic networks from KEGG |
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| ZHOU Ting-Ting,YUNG Kin-Fung,CHAN Chun-Chung Keith,WANG Zheng-Hu,ZHU Yun-Ping and HE Fu-Chu. MetaGen: a promising tool for modeling metabolic networks from KEGG[J]. Progress In Biochemistry and Biophysics, 2010, 37(1): 63-68 |
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| Authors: | ZHOU Ting-Ting YUNG Kin-Fung CHAN Chun-Chung Keith WANG Zheng-Hu ZHU Yun-Ping HE Fu-Chu |
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| Affiliation: | ZHOU Ting-Ting1,3)**,YUNG Kin-Fung2)**,CHAN Chun-Chung Keith2),WANG Zheng-Hua1),ZHU Yun-Ping3)***,HE Fu-Chu3)*** (1) National Laboratory for Parallel , Distributed Processing,National University of Defense Technology,Changsha 410073,China,2) Department of Computing,The Hong Kong Polytechnic University,Hong Kong,3) State Key Laboratory of Proteomics,Beijing Proteome Research Center,Beijing Institute of Radiation Medicine,Beijing 102206,China) |
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| Abstract: | For the computational researches on the large-scale metabolisms, MetaGen, a user-friendly utility to batch process and model the organism-specific multi-level metabolisms in KEGG into enzyme and pathway graphs, was developed. An example was given by expanding a little on the bow-tie structure of metabolic networks to show MetaGen is a useful and promising tool. MetaGen takes advantages of KEGG web service to ensure data reliability, uses relational database to accelerate the modeling process and facilitate ... |
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| Keywords: | metabolic network network modeling KEGG web service relational database |
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