A corpus of tables in full-text biomedical research publications

Tatyana Shmanina, Ingrid Zukerman, Ai Lee Cheam, Thomas Bochynek, Lawrence Cavedon

    Research output: Chapter in Book/Report/Conference proceedingConference PaperResearch

    Abstract

    The development of text mining techniques for biomedical research literature has received increased attention in recent times. However, most of these techniques focus on prose, while much important biomedical data reside in tables. In this paper, we present a corpus created to serve as a gold standard for the development and evaluation of techniques for the automatic extraction of information from biomedical tables. We describe the guidelines used for corpus annotation and the manner in which they were developed. The high inter-annotator agreement achieved on the corpus, and the generic nature of our annotation approach, suggest that the developed guidelines can serve as a general framework for table annotation in biomedical and other scientific domains. The annotated corpus and the guidelines are available at http://www.csse.monash.edu.au/research/umnl/data/index.shtml.
    Original languageEnglish
    Title of host publicationFifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM 2016)
    Subtitle of host publicationProceedings of the Workshop, December 11-16 2016, Osaka, Japan
    EditorsSophia Ananiadou, Riza Batista-Navarro, Kevin Bretonnel Cohen, Dina Demner-Fushman, Paul Thompson
    Pages81-90
    Number of pages10
    Publication statusPublished - 2016
    EventFifth Workshop on Building and Evaluating Resources for Biomedical Text Mining - Osaka, Japan
    Duration: 11 Dec 201616 Dec 2016

    Conference

    ConferenceFifth Workshop on Building and Evaluating Resources for Biomedical Text Mining
    CountryJapan
    CityOsaka
    Period11/12/1616/12/16

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