Model reduction of biochemical reactions networks by tropical analysis methods
Model reduction of biochemical reactions networks by tropical analysis methods
复制标题
通过热带分析方法减少生化反应网络的模型
DOI：
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发表时间：
2015
期刊：
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通讯作者：
D. Grigoriev
中科院分区：
文献类型：
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作者：
O. Radulescu;S. Vakulenko;D. Grigoriev
本文讨论了生化反应网络的近似模型降阶方法。该方法适用于具有多项式或有理数反应速率的网络，其参数由其数量级给出。为了得到简化的模型，我们解决了热带平衡问题，这是一个系统的方程在最大代数。在具有非线性快圈网络的情况下，我们必须至少两次解决热带平衡问题，一次是针对初始系统，第二次是针对扩展系统，该扩展系统是通过将快子系统的守恒律所满足的微分方程添加到初始系统而获得的。这两个步骤可以重复，直到快速子系统没有不同于完整模型的守恒律。该方法可用于计算系统生物学中的形式化模型约简。
We discuss a method of approximate model reduction for networks of biochemical reactions. This method can be applied to networks with polynomial or rational reaction rates and whose parameters are given by their orders of magnitude. In order to obtain reduced models we solve the problem of tropical equilibration that is a system of equations in max-plus algebra. In the case of networks with nonlinear fast cycles we have to solve the problem of tropical equilibration at least twice, once for the initial system and a second time for an extended system obtained by adding to the initial system the differential equations satisfied by the conservation laws of the fast subsystem. The two steps can be reiterated until the fast subsystem has no conservation laws different from the ones of the full model. Our method can be used for formal model reduction in computational systems biology.