Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions
Systems Biology Markup Language (SBML) Level 2 Version 5: Structures and Facilities for Model Definitions
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DOI：
10.2390/biecoll-jib-2015-271
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发表时间：
2015-01-01
影响因子：
1.9
通讯作者：
Wilkinson, Darren J.
中科院分区：
文献类型：
--
作者：
Hucka, Michael;Bergmann, Frank T.;Wilkinson, Darren J.
计算模型可以帮助研究人员解释数据，理解生物功能，并进行定量预测。系统生物学标记语言（SBML）是一种用于以声明形式表示计算模型的文件格式，可以在不同的软件系统之间交换。SBML的目标是描述在许多主题的研究中常见的生物过程，包括代谢途径，细胞信号传导途径等。通过支持SBML作为输入/输出格式，不同的工具都可以在相同的模型表示上操作，消除了翻译错误的机会，并确保分析和模拟的共同起点。本文档提供了SBML 2级版本5的规范。该规范定义了SBML规定的数据结构以及它们在XML（可扩展标记语言）中的编码。该规范还定义了确定SBML文档有效性的验证规则，并提供了许多SBML形式的模型示例。其他材料和软件可从SBML项目网站http://sbml.org/获得。
Computational models can help researchers to interpret data, understand biological function, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that can be exchanged between different software systems. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Version 5 of SBML Level 2. The specification defines the data structures prescribed by SBML as well as their encoding in XML, the eXtensible Markup Language. This specification also defines validation rules that determine the validity of an SBML document, and provides many examples of models in SBML form. Other materials and software are available from the SBML project web site, http://sbml.org/.