Likhoshvai Vitali, Ratushny Alexander
Institute of Cytology and Genetics SB RAS, Novosibirsk, 630090, Russia.
J Bioinform Comput Biol. 2007 Apr;5(2B):521-31. doi: 10.1142/s0219720007002837.
Development of an in silico cell is an urgent task of systems biology. The core of this cell should consist of mathematical models of intracellular events, including enzymatic reactions and control of gene expression. For example, the minimal model of the E. coli cell should include description of about one thousand enzymatic reactions and regulation of expression of approximately the same number of genes. In many cases detailed mechanisms of molecular processes are not known. In this study, we propose a generalized Hill function method for modeling molecular events. The proposed approach is a method of kinetic data approximation in view of additional data on structure functional features of molecular genetic systems and actually does not demand knowledge of their detailed mechanisms. Generalized Hill function models of an enzymatic reaction catalyzed by the tryptophan-sensitive 3-deoxy-d-arabino-heptulosonate-7-phosphate synthase and the cydAB operon expression regulation are presented.
构建计算机模拟细胞是系统生物学的一项紧迫任务。这种细胞的核心应由细胞内事件的数学模型组成，包括酶促反应和基因表达调控。例如，大肠杆菌细胞的最小模型应包括对约一千个酶促反应的描述以及对大致相同数量基因的表达调控。在许多情况下，分子过程的详细机制尚不清楚。在本研究中，我们提出了一种用于分子事件建模的广义希尔函数方法。鉴于分子遗传系统结构功能特征的额外数据，所提出的方法是一种动力学数据近似方法，实际上并不需要了解其详细机制。本文给出了色氨酸敏感的3-脱氧-D-阿拉伯庚酮糖酸-7-磷酸合酶催化的酶促反应以及cydAB操纵子表达调控的广义希尔函数模型。
