Implementing the iHOP concept for navigation of biomedical literature
Implementing the iHOP concept for navigation of biomedical literature
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DOI：
10.1093/bioinformatics/bti1142
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发表时间：
2005-09-01
期刊：
影响因子：
5.8
通讯作者：
Valencia, A
中科院分区：
文献类型：
--
作者：
Hoffmann, R;Valencia, A
动机：万维网深刻地改变了我们获取信息的方式。互联网搜索方便快捷，但更重要的是，相关内容的互联使其直观，更接近人类记忆的联想组织。然而，目前生物学和医学研究人员可用的信息检索工具远远落后于外行人对互联网的期望。结果：利用基因和蛋白质作为句子和摘要之间的超链接，可以将PubMed中的信息转化为一个可导航的资源。iHOP（蛋白质信息超链接）是一个在线服务，它提供了这种基因引导网络，作为访问数百万篇PubMed摘要的自然方式，并为科学文献研究带来了互联网的所有优势。在这个网络中，在相互关联的句子之间导航比使用传统的关键字搜索更接近人类的直觉，并允许逐步和受控地获取信息。此外，该文献网络可以叠加在实验交互数据上，以促进对新知识和现有知识的同时分析。iHOP提出的网络目前包含500万个句子和4万个基因，来自智人、小家鼠、黑腹果蝇、秀丽隐杆线虫、蝙蝠、拟南芥、酿酒酵母和大肠杆菌。
Motivation: The World Wide Web has profoundly changed the way in which we access information. Searching the internet is easy and fast, but more importantly, the interconnection of related contents makes it intuitive and closer to the associative organization of human memory. However, the information retrieval tools currently available to researchers in biology and medicine lag far behind the possibilities that the layman has come to expect from the internet.Results: By using genes and proteins as hyperlinks between sentences and abstracts, the information in PubMed can be converted into one navigable resource. iHOP (Information Hyperlinked over Proteins) is an online service that provides this gene-guided network as a natural way of accessing millions of PubMed abstracts and brings all the advantages of the internet to scientific literature research. Navigating across interrelated sentences within this network is closer to human intuition than the use of conventional keyword searches and allows for stepwise and controlled acquisition of information. Moreover, this literature network can be superimposed upon experimental interaction data to facilitate the simultaneous analysis of novel and existing knowledge. The network presented in iHOP currently contains5 million sentences and 40 000 genes from Homo sapiens, Mus musculus, Drosophila melanogaster, Caenorhabditis elegans, Danio rerio, Arabidopsis thaliana, Saccharomyces cerevisiae and Escherichia coli.