论文标题
morphosim：一个高效且可扩展的相位框架，用于精确模拟多细胞形态
MorphoSim: An efficient and scalable phase-field framework for accurately simulating multicellular morphologies
论文作者
论文摘要
相位场模型可以准确地模拟具有复杂形态的微观结构的演变，并且在过去二十年中已被广泛用于细胞建模。但是，与其他细胞模型（例如粗粒模型和顶点模型）相比，其高计算成本由三维空间离散化引起的高计算成本阻碍了其应用和可伸缩性，尤其是对于多细胞生物而言。最近，我们构建了一个相位场模型，再加上体内成像数据，以准确地重建秀丽隐杆线虫的胚胎形态发生从1至8个细胞阶段[Kuang等，PLOS Comput。 Biol。，2022]。在这项工作中，我们通过使用稳定的数值方案和修改的音量收缩提出了改进的相位场模型。然后，我们提出了一个可扩展的相位框架Morphosim，该框架的效率比前一个效率高100倍，并且可以模拟100多个机械相互作用的细胞。最后，我们证明了如何成功应用形态学来重现合成人工多细胞系统的组装，自我修复和解离-Synnotch System。
The phase field model can accurately simulate the evolution of microstructures with complex morphologies, and it has been widely used for cell modeling in the last two decades. However, compared to other cellular models such as the coarse-grained model and the vertex model, its high computational cost caused by three-dimensional spatial discretization hampered its application and scalability, especially for multicellular organisms. Recently, we built a phase field model coupled with in vivo imaging data to accurately reconstruct the embryonic morphogenesis of Caenorhabditis elegans from 1- to 8-cell stages [Kuang et al, PLoS Comput. Biol., 2022]. In this work, we propose an improved phase field model by using the stabilized numerical scheme and modified volume constriction. Then we present a scalable phase-field framework, MorphoSim, which is 100 times more efficient than the previous one, and can simulate over 100 mechanically interacting cells. Finally, we demonstrate how MorphoSim can be successfully applied to reproduce the assembly, self-repairing, and dissociation of a synthetic artificial multicellular system - the synNotch system.
