SBML Level 3 Package: Flux Balance Constraints version 2
SBML Level 3 Package: Flux Balance Constraints version 2
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DOI：
10.1515/jib-2017-0082
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发表时间：
2018-03-01
影响因子：
1.9
通讯作者：
Bergmann, Frank T.
中科院分区：
文献类型：
--
作者：
Olivier, Brett G.;Bergmann, Frank T.
基于约束的建模是一种完善的建模方法，用于分析和研究中等规模和基因组规模的生物网络。由于其尺寸大且复杂，此类稳态通量模型通常使用基于约束的优化技术进行分析，例如通量平衡分析（FBA）。通量平衡约束 (FBC) 包扩展了 SBML Level 3，并为基于约束的模型的编码、交换和注释提供了标准化格式。它包括对目标函数、通量边界和模型组件注释等建模概念的支持，以促进反应平衡。第二版在原始版本的基础上进行了扩展，添加了对编码基因-蛋白质关联及其相关元素的官方支持。除了提供明确编码现有基于约束的模型所需的元素之外，FBC 包还提供了一个开放平台，促进可互操作的基于约束的模型编码格式的持续、跨社区开发。
Constraint-based modeling is a well established modeling methodology used to analyze and study biological networks on both a medium and genome scale. Due to their large size and complexity such steady-state flux models are, typically, analyzed using constraint-based optimization techniques, for example, flux balance analysis (FBA). The Flux balance constraints (FBC) Package extends SBML Level 3 and provides a standardized format for the encoding, exchange and annotation of constraint-based models. It includes support for modeling concepts such as objective functions, flux bounds and model component annotation that facilitates reaction balancing. Version two expands on the original release by adding official support for encoding gene-protein associations and their associated elements. In addition to providing the elements necessary to unambiguously encode existing constraint-based models, the FBC Package provides an open platform facilitating the continued, cross-community development of an interoperable, constraint-based model encoding format.