BioLit: integrating biological literature with databases
BioLit: integrating biological literature with databases
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DOI：
10.1093/nar/gkn317
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发表时间：
2008-07-01
影响因子：
14.9
通讯作者：
Bourne, Philip E.
中科院分区：
文献类型：
--
作者：
Fink, J. Lynn;Kushch, Sergey;Bourne, Philip E.
BioLit是一个网络服务器，它提供描述所有开放获取、经同行评审的文章语义内容的元数据，这些文章描述了来自主要生命科学文献库PubMed Central的研究。具体而言，这些元数据包括在文章全文中发现的数据库标识符和本体术语。BioLit以基于XML的文章文件形式以及作为一个定制的基于网络的文章查看器来提供这些元数据，该查看器为元数据提供特定情境的功能。该资源旨在将传统的科学出版物直接整合到现有的生物数据库中，从而使用户无需在多个位置搜索与特定感兴趣项目相关的信息，例如与特定生物数据库条目相关的已发表实验结果。作为BioLit可能用途的一个示例，我们还展示了一个与BioLit数据完全整合的蛋白质数据库实例。我们预计，一般来说，生命科学家群体将是基于网络的查看器的主要终端用户，而生物编目员将利用包含元数据的XML文件以及文章数据的BioLit数据库。BioLit可在http://biolit.ucsd.edu获取。
BioLit is a web server which provides metadata describing the semantic content of all open access, peer-reviewed articles which describe research from the major life sciences literature archive, PubMed Central. Specifically, these metadata include database identifiers and ontology terms found within the full text of the article. BioLit delivers these metadata in the form of XML-based article files and as a custom web-based article viewer that provides context-specific functionality to the metadata. This resource aims to integrate the traditional scientific publication directly into existing biological databases, thus obviating the need for a user to search in multiple locations for information relating to a specific item of interest, for example published experimental results associated with a particular biological database entry. As an example of a possible use of BioLit, we also present an instance of the Protein Data Bank fully integrated with BioLit data. We expect that the community of life scientists in general will be the primary end-users of the web-based viewer, while biocurators will make use of the metadata-containing XML files and the BioLit database of article data. BioLit is available at http://biolit.ucsd.edu.