DEVELOPMENT OF DATABASE STRUCTURE FOR VIRTUAL CELL

这个子项目是许多研究子项目中利用 资源由NIH/NCRR资助的中心拨款提供。子项目和 调查员(PI)可能从NIH的另一个来源获得了主要资金， 并因此可以在其他清晰的条目中表示。列出的机构是 该中心不一定是调查人员的机构。 我们现有的数据库基础设施设计非常稳定。此设计是一个开发性数据库，允许在模型的整个生命周期内进行协作开发(模型共享)和更改跟踪。这种雄心勃勃的设计促进了模型的重用和一个或多个用户的可扩展性，而不会使以前的(中间)模型或结果无效。该设计的特点包括对象所有权、版本管理、注释和简单的发布。现在，XML在内部用作一种中间格式(虚拟单元标记语言)，用于轻量级持久化(极大地提高模型加载性能)、客户端缓存，并提供独立于语言和平台的通信。系统生物学标记语言(SBML)允许现有建模工具和模型库之间的一定程度的模型互操作性，并通过促进标准和通过导入和导出符合标准的模型而得到虚拟单元的积极支持。支持以CellML格式导入和导出模型。

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. Our existing database infrastructure design has been very stable. This design is a developmental database that allows collaborative development (model sharing) and change tracking throughout the lifetime of a model. This ambitious design facilitates model re-use and extensibility by one or more users without invalidating previous (intermediate) models or results. Features of the design include object ownership, version management, annotation, and simple publishing. XML is now used internally as an intermediate format (Virtual Cell Markup Language) for lightweight persistence (greatly increasing model load performance), client-side caching, and to provide language and platform independent communication. The Systems Biology Markup Language (SBML) allows a level of model interoperability among the existing modeling tools and model repositories and is actively supported by the Virtual Cell, both by contributing to the standard and by importing and exporting compliant models. Support for importing and exporting models in the CellML format has been provided.