Smith Robert W, Fleck Christian
Laboratory of Systems and Synthetic Biology, Wageningen UR, Wageningen, The Netherlands.
Sir William Dunn School of Pathology, University of Oxford, Oxford, UK.
Methods Mol Biol. 2019;2026:121-133. doi: 10.1007/978-1-4939-9612-4_9.
Mathematical models are important tools in helping us to understand complex biological systems. Models of phytochrome-regulated systems in Arabidopsis thaliana have shown the importance of dimerization, nuclear transport, and thermal/dark reversion in mediating phytochrome activity and plant development. Here we go through the steps required to calculate the steady-state amounts of phytochrome subspecies relative to the total phytochrome molecule population. Starting from a simplified two-state system we expand and apply the technique to the extended phytochrome dimer model. Additionally, we provide a Python package that can automatically calculate the proportion of phytochrome B in a particular state given specific experimental conditions.
数学模型是帮助我们理解复杂生物系统的重要工具。拟南芥中光敏色素调节系统的模型已经表明二聚化、核转运以及热/暗逆转在介导光敏色素活性和植物发育中的重要性。在这里，我们将介绍计算相对于总光敏色素分子群体而言光敏色素亚种类的稳态量所需的步骤。从一个简化的双态系统开始，我们进行扩展并将该技术应用于扩展的光敏色素二聚体模型。此外，我们提供了一个Python包，它可以在给定特定实验条件下自动计算处于特定状态的光敏色素B的比例。
