Modelling biological modularity with CellML
Modelling biological modularity with CellML
复制标题
DOI：
10.1049/iet-syb:20070020
复制
发表时间：
2008-03-01
影响因子：
2.3
通讯作者：
Crampin, E. J.
中科院分区：
文献类型：
--
作者：
Cooling, M. T.;Hunter, P.;Crampin, E. J.
近年来，生物系统数学模型的构建取得了进展，产生了一系列有价值的结构。作者试图提供一个“领先的实践”的方法来实现模块化的动力学质量作用模型，以获得一些优势，在模型的构建，验证和派生的见解。作者主张考虑“核算循环”或“链”来定义“功能”组件，并单独考虑移动的或扩散分子物种的“信使”组件。从一个概念模块化的作者举例说明，从信号转导，一个基于组件的配方模型交换格式细胞建模标记语言（CellML）1.1 -演示功能集中的可重用组件之间的松散耦合。最后，作者讨论了与蛋白质间相互作用建模相关的困境，以及在结合独立开发的模型时使用未来CellML增强功能来解决潜在重复问题的愿景。
In recent years advances in the construction of mathematical models of biological systems have yielded an array of valuable constructs. The authors seek to provide a 'leading practice' method for implementing modularised kinetic mass-action models in order to obtain a number of advantages in model construction, validation and derived insights. The authors advocate the consideration of 'accounting cycles' or 'chains' to define 'functional' components and the separate consideration of 'messenger' components for mobile or diffusive molecular species. From a conceptual modularisation the authors illustrate, with an example drawn from signal transduction, a component-based formulation in the model exchange format cellular modelling markup language (CellML) 1.1 - demonstrating loose coupling between functionally-focused reusable components. Finally, the authors discuss the dilemmas associated with modelling protein-to-protein interactions, and the vision for using future CellML enhancements to resolve potential duplications when combining independently developed models.