ChEBI in 2016: Improved services and an expanding collection of metabolites.
ChEBI in 2016: Improved services and an expanding collection of metabolites.
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DOI：
10.1093/nar/gkv1031
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发表时间：
2016-01-04
影响因子：
14.9
通讯作者：
Steinbeck C
中科院分区：
文献类型：
--
作者：
Hastings J;Owen G;Dekker A;Ennis M;Kale N;Muthukrishnan V;Turner S;Swainston N;Mendes P;Steinbeck C
ChEBI是一个数据库和本体，包含有关生物学感兴趣的化学实体的信息。它目前包括超过46000个条目，每个条目都在本体中分类，并分配了多个注释，包括（在相关的情况下）化学结构，数据库交叉引用，同义词和文献引用。所有内容都是免费提供的，可以在http://www.ebi.ac.uk/chebi上在线访问。在这篇更新论文中，我们描述了ChEBI产品的最新改进和补充。我们已经大大扩展了我们收集的内源性代谢物的几种生物体，包括人类，小鼠，大肠杆菌和酵母。我们的前端也进行了重新设计和更新，改善了用户体验，消除了我们对Java小程序的依赖，支持嵌入式JavaScript组件，并从每月发布更新转向“实时”网站。通过在Java、Python和Matlab中引入libChEBI库，编程访问得到了改进。此外，我们增加了两个新的工具，即分析工具，BiNChE，和本体的查询工具，OntoQuery。
ChEBI is a database and ontology containing information about chemical entities of biological interest. It currently includes over 46 000 entries, each of which is classified within the ontology and assigned multiple annotations including (where relevant) a chemical structure, database cross-references, synonyms and literature citations. All content is freely available and can be accessed online at http://www.ebi.ac.uk/chebi. In this update paper, we describe recent improvements and additions to the ChEBI offering. We have substantially extended our collection of endogenous metabolites for several organisms including human, mouse, Escherichia coli and yeast. Our front-end has also been reworked and updated, improving the user experience, removing our dependency on Java applets in favour of embedded JavaScript components and moving from a monthly release update to a ‘live’ website. Programmatic access has been improved by the introduction of a library, libChEBI, in Java, Python and Matlab. Furthermore, we have added two new tools, namely an analysis tool, BiNChE, and a query tool for the ontology, OntoQuery.