The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
GoPubMed: exploring PubMed with the Gene Ontology
Open accessAbstract
The biomedical literature grows at a tremendous rate and PubMed comprises already over 15 000 000 abstracts. Finding relevant literature is an important and difficult problem. We introduce GoPubMed, a web server which allows users to explore PubMed search results with the Gene Ontology (GO), a hierarchically structured vocabulary for molecular biology. GoPubMed provides the following benefits: first, it gives an overview of the literature abstracts by categorizing abstracts according to the GO and thus allowing users to quickly navigate through the abstracts by category. Second, it automatically shows general ontology terms related to the original query, which often do not even appear directly in the abstract. Third, it enables users to verify its classification because GO terms are highlighted in the abstracts and as each term is labelled with an accuracy percentage. Fourth, exploring PubMed abstracts with GoPubMed is useful as it shows definitions of GO terms without the need for further look up. GoPubMed is online at www.gopubmed.org. Querying is currently limited to 100 papers per query.
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Cites
The Gene Ontology (GO) database and informatics resource
Gene Ontology Consortium (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh036 · Cited by 4,579
Textpresso: An Ontology-Based Information Retrieval and Extraction System for Biological Literature
Müller, H.-M., Kenny, E. E., & Sternberg, P. W. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0020309 · Cited by 653
Cited by
Literature mining for the biologist: from information retrieval to biological discovery
Jensen, L. J., Saric, J., & Bork, P. (2006) · Nature Reviews Genetics · doi:10.1038/nrg1768 · Cited by 631
Tsatsaronis, G., Balikas, G., Malakasiotis, P., Partalas, I., Zschunke, M., Alvers, M. R., Weissenborn, D., Krithara, A., Petridis, S., Polychronopoulos, D., et al. (2015) · BMC Bioinformatics · doi:10.1186/s12859-015-0564-6 · Cited by 598
Self-citationKell, D. B. (2009) · BMC Medical Genomics · doi:10.1186/1755-8794-2-2 · Cited by 554
Computational tools for prioritizing candidate genes: boosting disease gene discovery
Moreau, Y., & Tranchevent, L.-C. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3253 · Cited by 417
Biomedical Ontologies in Action: Role in Knowledge Management, Data Integration and Decision Support
Bodenreider, O. (2008) · Yearbook of Medical Informatics · doi:10.1055/s-0038-1638585 · Cited by 368
Metadata
- Authors
- Doms, A., & Schroeder, M.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2005-07-01
- Volume
- 33
- Issue
- Web Server
- Pages
- W783-W786
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2132784310
- Cited by
- 549
- References
- 2
- FWCI
- 10.83
- Type
- journal article
- Language
- en
- Open access
- gold
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
