How to cite this paper

Jeong, Senator, Sejin Nam and Hyun-Young Park. “Ontology based Biomedical Research Paper Authoring Support Tool.” Presented at Impromptu JATS User Group Meeting, Washington, DC, October 22, 2013. In Proceedings of the Impromptu JATS User Group Meeting. Balisage Series on Markup Technologies, vol. 12 (2013).

Impromptu JATS User Group Meeting
October 22, 2013

Balisage Paper: Ontology based Biomedical Research Paper Authoring Support Tool

Senator Jeong

National Center for Medical Information and Knowledge, Korea National Institute of Health

Sejin Nam

Biomedical Knowledge Engineering Laboratory, Seoul National University

Hyun-Young Park

National Center for Medical Information and Knowledge, Korea National Institute of Health


Biomedical research papers typically formatted as IMRAD structure: Introduction, Methods, Results, and Discussion. Even though following this format, writing a paper in English is challenging for authors, because the most difficult thing is to organize and present their ideas with appropriate expressions.

Our goal is to develop a paper authoring support system that helps biomedical scientists to organize their ideas for a specific discourse purpose. As an initial step toward the goal, this study developed an abstract authoring support tool that provides candidate lexical bundles organized according to IMRAD structure. Lexical bundles function as basic building blocks of this discourse structure. For example, the lexical bundle "the purpose of this study was" indicates the research purpose in the Introduction section. Lexical bundles were extracted from sentences in 152,083 structured abstracts of the PubMed Central Open Access Subset and analyzed their distribution by IMRAD sections. To organize lexical bundles according to IMRAD, the Lexical Bundle Ontology was built. Then, a JATS-compliant authoring support tool was implemented. This tool lists up candidate lexical bundles responding to authors' discourse purposes in a specific section and thereby helps to complete sentences. We present a use case scenario of this authoring support tool. We expect that this tool be a useful, at least in biomedical abstract writing, to organize author's ideas to achieve specific discourse purpose. This tool is target to primarily for biomedical scientists whose mother tongue is not English. However, native speakers may still find the utility.