CeCaFDB: a curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics
CeCaFDB: a curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics
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CeCaFDB：一个精心策划的数据库，用于 13C 通量组学探索的中心碳代谢通量分布的记录、可视化和比较分析
DOI：
10.1093/nar/gku1137
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发表时间：
2015-01-28
影响因子：
14.9
通讯作者：
Xie, Xiaoyao
中科院分区：
文献类型：
--
作者：
Zhang, Zhengdong;Shen, Tie;Xie, Xiaoyao
中心碳代谢通量数据库（CeCaFDB，可在http://www.cecafdb.org上获得）是一个人工管理的多用途开放访问数据库，用于记录、可视化和比较微生物和动物细胞之间中心碳代谢的定量通量结果。它包括36种生物中500多种通量分布的记录，包括有关基因型、培养基、生长条件和从数百篇期刊文章中收集的其他具体信息的信息。除了全面的文献衍生数据外，CeCaFDB还支持数据之间的通用文本搜索功能，以及基于Cytoscape Web API的区隔信息的规划通量分布的交互式可视化，这有助于数据解释。CeCaFDB提供了四个模块来计算相似分数或执行通量分布之间的对齐。其中一个模块是使用专门为本研究设计的通量分布校准的互编程算法构建的。在这些模块的基础上，CeCaFDB还支持广泛的通量分布比较功能。CeCaFDB旨在满足生物化学家、代谢工程师、系统生物学家和组学社区成员的广泛需求。
The Central Carbon Metabolic Flux Database (CeCaFDB, available at http://www.cecafdb.org) is a manually curated, multipurpose and open-access database for the documentation, visualization and comparative analysis of the quantitative flux results of central carbon metabolism among microbes and animal cells. It encompasses records for more than 500 flux distributions among 36 organisms and includes information regarding the genotype, culture medium, growth conditions and other specific information gathered from hundreds of journal articles. In addition to its comprehensive literature-derived data, the CeCaFDB supports a common text search function among the data and interactive visualization of the curated flux distributions with compartmentation information based on the Cytoscape Web API, which facilitates data interpretation. The CeCaFDB offers four modules to calculate a similarity score or to perform an alignment between the flux distributions. One of the modules was built using an inter programming algorithm for flux distribution alignment that was specifically designed for this study. Based on these modules, the CeCaFDB also supports an extensive flux distribution comparison function among the curated data. The CeCaFDB is strenuously designed to address the broad demands of biochemists, metabolic engineers, systems biologists and members of the -omics community.