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Bioinformatics Advance Access originally published online on December 6, 2005
Bioinformatics 2006 22(3):378-380; doi:10.1093/bioinformatics/bti821
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

PubMed Assistant: a biologist-friendly interface for enhanced PubMed search

Jing Ding 1, LaRon M. Hughes 1, Daniel Berleant 1,*, Andy W. Fulmer 3 and Eve Syrkin Wurtele 2

1Department of Electrical and Computer Engineering Iowa State University, Ames, IA 50011, USA
2Department of Genetics, Development and Cell Biology Iowa State University, Ames, IA 50011, USA
3The Procter and Gamble Company Cincinnati, OH 45252, USA

*To whom correspondence should be addressed.

Summary: MEDLINE is one of the most important bibliographical information sources for biologists and medical workers. Its PubMed interface supports Boolean queries, which are potentially expressive and exact. However, PubMed is also designed to support simplicity of use at the expense of query expressiveness and exactness. Many PubMed users have never tried explicit Boolean queries. We developed a Java program, PubMed Assistant, to make literature access easier in several ways. PubMed Assistant provides an interface that efficiently displays information about the citations and includes useful functions such as keyword highlighting, export to citation managers, clickable links to Google Scholar and others that are lacking in PubMed.

Availability: PubMed Assistant and a detailed online manual are freely available at http://metnetdb.gdcb.iastate.edu/browser under a GPL (GNU General Public License).

Contact: berleant{at}iastate.edu

Received on July 11, 2005; revised on December 2, 2005; accepted on December 5, 2005

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