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Bioinformatics. 2012 Feb 15;28(4):597-8. doi: 10.1093/bioinformatics/btr702. Epub 2011 Dec 22.

PIE the search: searching PubMed literature for protein interaction information.

Author information

1
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA. sun.kim@nih.gov

Abstract

MOTIVATION:

Finding protein-protein interaction (PPI) information from literature is challenging but an important issue. However, keyword search in PubMed(®) is often time consuming because it requires a series of actions that refine keywords and browse search results until it reaches a goal. Due to the rapid growth of biomedical literature, it has become more difficult for biologists and curators to locate PPI information quickly. Therefore, a tool for prioritizing PPI informative articles can be a useful assistant for finding this PPI-relevant information.

RESULTS:

PIE (Protein Interaction information Extraction) the search is a web service implementing a competition-winning approach utilizing word and syntactic analyses by machine learning techniques. For easy user access, PIE the search provides a PubMed-like search environment, but the output is the list of articles prioritized by PPI confidence scores. By obtaining PPI-related articles at high rank, researchers can more easily find the up-to-date PPI information, which cannot be found in manually curated PPI databases.

AVAILABILITY:

http://www.ncbi.nlm.nih.gov/IRET/PIE/.

PMID:
22199390
PMCID:
PMC3278758
DOI:
10.1093/bioinformatics/btr702
[Indexed for MEDLINE]
Free PMC Article

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