Pang Wei, Coghill George M
School of Natural and Computing Sciences, University of Aberdeen, Aberdeen AB24 3UE, UK.
Biosystems. 2015 May;131:40-50. doi: 10.1016/j.biosystems.2015.04.003. Epub 2015 Apr 9.
In this paper we demonstrate how Morven, a computational framework which can perform qualitative, semi-quantitative, and quantitative simulation of dynamical systems using the same model formalism, is applied to study the osmotic stress response pathway in yeast. First the Morven framework itself is briefly introduced in terms of the model formalism employed and output format. We then built a qualitative model for the biophysical process of the osmoregulation in yeast, and a global qualitative-level picture was obtained through qualitative simulation of this model. Furthermore, we constructed a Morven model based on existing quantitative model of the osmoregulation system. This model was then simulated qualitatively, semi-quantitatively, and quantitatively. The obtained simulation results are presented with an analysis. Finally the future development of the Morven framework for modelling the dynamic biological systems is discussed.
在本文中，我们展示了Morven（一个能够使用相同模型形式对动力系统进行定性、半定量和定量模拟的计算框架）是如何应用于研究酵母中的渗透胁迫响应途径的。首先，根据所采用的模型形式和输出格式简要介绍了Morven框架本身。然后，我们构建了酵母渗透调节生物物理过程的定性模型，并通过对该模型的定性模拟获得了全局定性水平的图景。此外，我们基于渗透调节系统的现有定量模型构建了一个Morven模型。然后对该模型进行了定性、半定量和定量模拟。给出了所获得的模拟结果并进行了分析。最后讨论了Morven框架在动态生物系统建模方面的未来发展。
