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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
PIMiner: A web tool for extraction of protein interactions from biomedical literature
International Journal of Data Mining and Bioinformatics, Volume 7, No. 4, Year 2013
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Description
Information on Protein Interactions (PIs) is valuable for biomedical research, but often lies buried in the scientific literature and cannot be readily retrieved. While much progress has been made over the years in extracting PIs from the literature using computational methods, there is a lack of free, public, user-friendly tools for the discovery of PIs. We developed an online tool for the extraction of PI relationships from PubMed-abstracts, which we name PIMiner. Protein pairs and the words that describe their interactions are reported by PIMiner so that new interactions can be easily detected within text. The interaction likelihood levels are reported too. The option to extract only specific types of interactions is also provided. The PIMiner server can be accessed through a web browser or remotely through a client's command line. PIMiner can process 50,000 PubMed abstracts in approximately 7 min and thus appears suitable for large-scale processing of biological/biomedical literature. Copyright © 2013 Inderscience Enterprises Ltd.
Authors & Co-Authors
Chowdhary, Rajesh
United States, Marshfield
Marshfield Clinic
Zhang, Jinfeng
United States, Tallahassee
Florida State University
Tan, Sinlam
United States, Marshfield
Marshfield Clinic
Osborne, Daniel E.
United States, Tallahassee
Florida State University
Bajic, Vladimir B.
Saudi Arabia, Thuwal
King Abdullah University of Science and Technology
Liu, Jun S.
United States, Cambridge
Harvard University
Statistics
Citations: 14
Authors: 6
Affiliations: 4
Identifiers
Doi:
10.1504/IJDMB.2013.054232
ISSN:
17485673
e-ISSN:
17485681