CoPub: a literature-based keyword enrichment tool for microarray data analysis

Raoul Frijters, Bart Heupers, Pieter van Beek, Maurice Bouwhuis, René van Schaik, Jacob de Vlieg, Jan Polman, Wynand Alkema

Onderzoeksoutput: ArticleAcademicpeer review

Samenvatting

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 .
Originele taal-2English
Pagina's (van-tot)406-410
Aantal pagina's5
TijdschriftNucleic Acids Research
Volume36
Nummer van het tijdschriftWeb Server issue
DOI's
StatusPublished - 1 jul. 2008
Extern gepubliceerdJa

Keywords

  • literatuurgebaseerd
  • hulpprogramma voor het verrijken van zoekwoorden
  • analyseren van microarray-gegevens

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