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最优化方法在代谢系统中有着广泛的应用,它为研究基因型-表型关系,优化代谢工程,以及辅助药物设计等提供了一个有力的基础。当前,新兴的组织特异代谢系统极大地推动了这一领域的研究。在本论文中,我们通过最优化方法进行组织特异代谢系统(人体肾脏)的全面研究。该模型包含276个基因,340个代谢物和443个代谢反应,在简短地讨论了该模型的拓扑特征之后,我们基于最优化方法执行了多种仿真学习,包括流平衡分析,最小化代谢调节,流量变化分析,鲁棒性分析,均匀随机抽样,等。本文的预测结果可以用于在人体肾脏代谢的研究中指导实验设计。
Optimization methods have a wide range of applications in metabolic systems and provide a powerful basis for studying genotype-phenotype relationships, optimizing metabolic engineering, and assisting drug design. At present, the emerging organization-specific metabolic system has greatly promoted the research in this field. In this paper, we conduct a comprehensive study of tissue-specific metabolic systems (human kidneys) using optimization methods. The model contains 276 genes, 340 metabolites and 443 metabolic reactions. After a brief discussion of the topological features of the model, we performed a variety of simulation based optimization methods including flow equilibrium analysis, minimizing metabolic regulation , Flow change analysis, robustness analysis, uniform random sampling, and so on. The predictions presented here can be used to guide experimental design in the study of human renal metabolism.