Frijters Raoul, Heupers Bart, van Beek Pieter, Bouwhuis Maurice, van Schaik René, de Vlieg Jacob, Polman Jan, Alkema Wynand
Computational Drug Discovery (CDD),, Nijmegen Centre for Molecular Life Sciences (NCMLS), Radboud University Nijmegen Medical Centre, Nijmegen, The Netherlands.
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W406-10. doi: 10.1093/nar/gkn215. Epub 2008 Apr 28.
Medline is a rich information source, from which links between genes and keywords describing biological processes, pathways, drugs, pathologies and diseases can be extracted. We developed a publicly available tool called CoPub that uses the information in the Medline database for the biological interpretation of microarray data. CoPub allows batch input of multiple human, mouse or rat genes and produces lists of keywords from several biomedical thesauri that are significantly correlated with the set of input genes. These lists link to Medline abstracts in which the co-occurring input genes and correlated keywords are highlighted. Furthermore, CoPub can graphically visualize differentially expressed genes and over-represented keywords in a network, providing detailed insight in the relationships between genes and keywords, and revealing the most influential genes as highly connected hubs. CoPub is freely accessible at http://services.nbic.nl/cgi-bin/copub/CoPub.pl.
医学文献数据库（Medline）是一个丰富的信息源，从中可以提取基因与描述生物过程、信号通路、药物、病理和疾病的关键词之间的联系。我们开发了一个名为CoPub的公开可用工具，它利用Medline数据库中的信息对微阵列数据进行生物学解读。CoPub允许批量输入多个人类、小鼠或大鼠基因，并生成来自多个生物医学词库的与输入基因集显著相关的关键词列表。这些列表链接到Medline摘要，其中同时出现的输入基因和相关关键词会被突出显示。此外，CoPub可以在网络中以图形方式直观显示差异表达基因和过度代表的关键词，提供对基因与关键词之间关系的详细洞察，并将最具影响力的基因揭示为高度连接的中心节点。可通过http://services.nbic.nl/cgi-bin/copub/CoPub.pl免费访问CoPub。
