A general computational framework for modeling cellular structure and function
A general computational framework for modeling cellular structure and function
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DOI：
10.1016/s0006-3495(97)78146-3
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发表时间：
1997-09-01
影响因子：
3.4
通讯作者：
Loew, LM
中科院分区：
文献类型：
--
作者：
Schaff, J;Fink, CC;Loew, LM
“虚拟细胞”提供了一个测试细胞生物学机制的通用系统，并创建了一个框架，用于封装包括细胞内生化过程的分布和动态的新兴知识库。它的做法相关联的生物化学和电生理数据描述个别反应与实验显微图像数据描述其亚细胞定位的问题。单个过程被收集在物理和计算基础设施内，该基础设施容纳可表达为速率方程或膜通量的任何分子机制。该方法的一个例子是通过动态模拟IP3介导的Ca2+从内质网中释放的神经元细胞。结果可以直接与实验观察结果进行比较，并提供对整个机制中实验无法访问的组件的作用的见解。
The ''Virtual Cell'' provides a general system for testing cell biological mechanisms and creates a framework for encapsulating the burgeoning knowledge base comprising the distribution and dynamics of intracellular biochemical processes. It approaches the problem by associating biochemical and electrophysiological data describing individual reactions with experimental microscopic image data describing their subcellular localizations. Individual processes are collected within a physical and computational infrastructure that accommodates any molecular mechanism expressible as rate equations or membrane fluxes. An illustration of the method is provided by a dynamic simulation of IP3-mediated Ca2+ release from endoplasmic reticulum in a neuronal cell. The results can be directly compared to experimental observations and provide insight into the role of experimentally inaccessible components of the overall mechanism.