Doms Andreas, Schroeder Michael
Biotechnological Center, Department of Computer Science TU, Dresden, Germany.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W783-6. doi: 10.1093/nar/gki470.
The biomedical literature grows at a tremendous rate and PubMed comprises already over 15 000 000 abstracts. Finding relevant literature is an important and difficult problem. We introduce GoPubMed, a web server which allows users to explore PubMed search results with the Gene Ontology (GO), a hierarchically structured vocabulary for molecular biology. GoPubMed provides the following benefits: first, it gives an overview of the literature abstracts by categorizing abstracts according to the GO and thus allowing users to quickly navigate through the abstracts by category. Second, it automatically shows general ontology terms related to the original query, which often do not even appear directly in the abstract. Third, it enables users to verify its classification because GO terms are highlighted in the abstracts and as each term is labelled with an accuracy percentage. Fourth, exploring PubMed abstracts with GoPubMed is useful as it shows definitions of GO terms without the need for further look up. GoPubMed is online at www.gopubmed.org. Querying is currently limited to 100 papers per query.
生物医学文献正以惊人的速度增长，PubMed已收录了超过1500万篇摘要。查找相关文献是一个重要且困难的问题。我们推出了GoPubMed，这是一个网络服务器，它允许用户使用基因本体论（GO）来探索PubMed搜索结果，基因本体论是一种用于分子生物学的层次结构化词汇表。GoPubMed具有以下优点：首先，它通过根据GO对摘要进行分类，给出文献摘要的概述，从而允许用户按类别快速浏览摘要。其次，它会自动显示与原始查询相关的一般本体术语，这些术语甚至通常不会直接出现在摘要中。第三，它能让用户验证其分类，因为GO术语在摘要中会被突出显示，并且每个术语都带有一个准确率百分比标签。第四，使用GoPubMed探索PubMed摘要很有用，因为它无需进一步查找就能显示GO术语的定义。GoPubMed可在www.gopubmed.org上在线使用。目前每个查询限制为100篇论文。
