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    PCorral-interactive mining of protein interactions from MEDLINE

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    Author
    Li, C; Jimeno-Yepes, A; Arregui, M; Kirsch, H; Rebholz-Schuhmann, D
    Date
    2013-05-02
    Source Title
    Database: the journal of biological databases and curation
    Publisher
    OXFORD UNIV PRESS
    University of Melbourne Author/s
    Jimeno Yepes, Antonio
    Affiliation
    Computing and Information Systems
    Metadata
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    Document Type
    Journal Article
    Citations
    Li, C., Jimeno-Yepes, A., Arregui, M., Kirsch, H. & Rebholz-Schuhmann, D. (2013). PCorral-interactive mining of protein interactions from MEDLINE. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION, 2013, https://doi.org/10.1093/database/bat030.
    Access Status
    Open Access
    URI
    http://hdl.handle.net/11343/259010
    DOI
    10.1093/database/bat030
    Abstract
    The extraction of information from the scientific literature is a complex task-for researchers doing manual curation and for automatic text processing solutions. The identification of protein-protein interactions (PPIs) requires the extraction of protein named entities and their relations. Semi-automatic interactive support is one approach to combine both solutions for efficient working processes to generate reliable database content. In principle, the extraction of PPIs can be achieved with different methods that can be combined to deliver high precision and/or high recall results in different combinations at the same time. Interactive use can be achieved, if the analytical methods are fast enough to process the retrieved documents. PCorral provides interactive mining of PPIs from the scientific literature allowing curators to skim MEDLINE for PPIs at low overheads. The keyword query to PCorral steers the selection of documents, and the subsequent text analysis generates high recall and high precision results for the curator. The underlying components of PCorral process the documents on-the-fly and are available, as well, as web service from the Whatizit infrastructure. The human interface summarizes the identified PPI results, and the involved entities are linked to relevant resources and databases. Altogether, PCorral serves curator at both the beginning and the end of the curation workflow for information retrieval and information extraction. Database URL: http://www.ebi.ac.uk/Rebholz-srv/pcorral.

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