Gesellschaft fr Informatik e.V.

Lecture Notes in Informatics

German Conference on Bioinformatics 2004, GCB 2004, October 4-6, 2004, Bielefeld, Germany P-53, 169-178 (2004).

GI, Gesellschaft für Informatik, Bonn


Robert Giegerich, Jens Stoye (eds.)

Copyright © GI, Gesellschaft für Informatik, Bonn


Gopubmed: ontology-based literature search applied to gene ontology and pubmed

Ralph Delfs , Andreas Doms , Alexander Kozlenkov and Michael Schroeder


The biomedical literature grows at a tremendous rate, so that finding the relevant literature is becoming more and more difficult. To address this problem we introduce ontology-based literature search, which structures search results thorugh the categories of an ontology. We develop and implement GoP- ubMed, which submits keywords to PubMed, extracts GeneOntology-terms from the retrieved abstracts, and presents the relevant sub-ontology for browsing. For GoPubMed we develop a novel term extraction algorithm and evaluate its performance. GoPubMed is available at

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GI, Gesellschaft für Informatik, Bonn
ISBN 3-88579-382-2

Last changed 24.01.2012 21:47:58