论文标题
上皮组织的介观模型
Mesoscopic modelling of epithelial tissues
论文作者
论文摘要
在过去的二十年中,科学文献一直以模拟上皮细胞菌落的各种方式开花。这些模拟中的每一个都可以通过它们各自的效率(用消耗的计算资源表示),可以模拟的细胞量/组织的大小,模拟动力学的时间尺度和精度粗糙的精度水平。选择正确的算法以模拟上皮细胞和组织是这些关键元素之间的妥协。 Irrespective of the method, each algorithm includes part, or all, of the following features: short-range membrane-mediated attraction between cells, soft-core repulsion between cells, cell proliferation, cell death, cell motility, fluctuations, etc. We will first give a non-exhaustive overview of commonly used modeling approaches for tissues at a mesoscopic level, giving a rough idea of the coarse-graining decisions made for every one of them.然后,我们将更多地详细介绍如何根据顶点模型实施放松过程,令人耳目一新的理论基础工作,描述所需的数据结构和仿真步骤,并指出模拟的详细信息,这些详细信息可以向模型的首次实现提出陷阱。
Over the last two decades, scientific literature has been blooming with various means of simulating epithelial cell colonies. Each of these simulations can be separated by their respective efficiency (expressed in terms of consumed computational resources), the amount of cells/the size of tissues that can be simulated, the time scale of the simulated dynamics and the coarse grained level of precision. Choosing the right algorithm for the simulation of epithelial cells and tissues is a compromise between each of these key elements. Irrespective of the method, each algorithm includes part, or all, of the following features: short-range membrane-mediated attraction between cells, soft-core repulsion between cells, cell proliferation, cell death, cell motility, fluctuations, etc. We will first give a non-exhaustive overview of commonly used modeling approaches for tissues at a mesoscopic level, giving a rough idea of the coarse-graining decisions made for every one of them. Then we will dive into greater detail on how to implement a relaxation procedure according to the Vertex Model, refreshing aspects of the theoretical groundwork, describing required data structures and simulation steps and pointing out details of the simulation that can present pitfalls to a first-time implementation of the model.