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法新社:在代谢网络中,寻找占静脉测量和原子组跟踪的途径

Yiran Huang¹, Tao Ma², Zhiyuan Wan²

¹School of Computer and Electronics and Information, Guangxi University, Nanning, China; Guangxi Key Laboratory of Multimedia Communications and Network Technology, Guangxi University, Nanning, China; Key Laboratory of Parallel, Distributed and Intelligent Computing, (Guangxi University), Education Department of Guangxi Zhuang Autonomous Region, Guangxi University, Nanning, China; Guangxi Intelligent Digital Services Research Center of Engineering Technology, Guangxi University, Nanning, China.

Journal of biotechnology

|July 15, 2024

概括

我们开发了一种新方法,AFP,它使用原子组跟踪和混合整数线性编程 (MILP) 来找到新的代谢途径. 这种方法改善了对合成生物学和代谢工程的生物化学可行的途径的发现.

科学领域:

代谢工程是代谢工程.
合成生物学合成生物学
计算生物学计算生物学

背景情况:

自动化代谢途径的发现对于合成生物学和代谢工程至关重要.
现有的方法往往缺乏详细的原子跟踪在固体测量模型.

研究的目的:

引入一种用于发现代谢途径的新方法 (AFP).
将原子组跟踪集成到使用混合整数线性编程 (MILP) 的静态度建模中.
为了从任意的起始化合物中实现路径搜索.

主要方法:

开发了AFP方法,将原子组跟踪纳入反应石化学.
为路径搜索构建了一个混合整数线性编程 (MILP) 模型.
调整了MILP模型,以便从任何化合物到目标的灵活路径搜索.

主要成果:

该法有效地恢复已知的代谢途径.
与现有的路径寻找方法相比,AFP显示出更高的性能.
该方法成功地发现了目标代谢物的生化可行的途径.

结论:

将原子组跟踪与静态度MILP建模相结合,可以增强代谢途径的搜索.
AFP为设计新型和替代代代谢途径提供了一个强大的工具.
这种方法推进了代谢工程应用的固体测量建模.

关键词:

原子集团跟踪追踪原子集团跟踪代谢途径的代谢途径混合整数线性程序混合整数线性程序反应静电测量反应静电测量

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