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在开源软件中,多尺度的动态增长与机械敏感系统生物学相结合

Steven A LaBelle^1,2, Mohammadreza Soltany Sadrabadi^3,4, Seungik Baek^5,6

¹Department of Biomedical Engineering, University of Utah, Salt Lake City, UT 84112; Scientific Computing and Imaging Institute, University of Utah, Salt Lake City, UT 84112.

Journal of biomechanical engineering

|March 25, 2025

概括

多尺度模型将细胞生物学和组织力学联系起来,以模拟疾病的生长. 将系统生物学与连续力学相结合,揭示了生物化学反应和合策略如何驱动生长模式.

科学领域:

生物力学生物力学
计算生物学计算生物学
系统生物学系统生物学

背景情况:

多尺度建模将细胞规模的生物过程与组织规模的机械行为相结合.
疾病生长建模需要了解细胞信号与组织力学之间的相互作用.
现有的模型往往缺乏不同生物尺度之间的全面的多尺度连接.

研究的目的:

开发和验证多尺度增长和改造 (G&R) 模型.
研究细胞水平信号通路对组织水平G&R的影响.
为模拟和研究多尺度生物力学现象提供开源工具.

主要方法:

使用普通微分方程 (ODEs) 和部分微分方程 (PDEs) 系统进行生物化学反应的细胞规模建模.
组织规模建模,在连续框架内采用动态增长.
在开源软件框架FEBio和FEniCS中使用单向和双向合策略集成细胞和组织规模模型.

主要成果:

新兴的生长模式是由生物化学反应,选择ODE与PDE系统生物学模型以及合策略驱动的.
生物化学扩散性显著影响了G&R结果.
FEBio和FEniCS框架产生了几乎相同的结果,证实了交叉验证.

结论:

多尺度建模有效地捕捉了细胞水平信号和组织水平机制在疾病生长中的复杂相互作用.
选择模拟方法 (ODE/PDE) 和合策略会影响模拟结果.
开发的开源工具促进了生物力学社区的可复制性和教育.

关键词:

动脉动脉瘤是一个动脉瘤.细胞信号传递是细胞的信号传递.增长和改造的增长和改造多尺度建模模型的使用.系统机械生物学系统机械生物学

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