A Corpus of Tables in Full-Text Biomedical Research Publications

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


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.
Anthology ID:
W16-5108
Volume:
Proceedings of the Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016)
Month:
December
Year:
2016
Address:
Osaka, Japan
Editors:
Sophia Ananiadou, Riza Batista-Navarro, Kevin Bretonnel Cohen, Dina Demner-Fushman, Paul Thompson
Venue:
WS
SIG:
Publisher:
The COLING 2016 Organizing Committee
Note:
Pages:
70–79
Language:
URL:
https://aclanthology.org/W16-5108
DOI:
Bibkey:
Cite (ACL):
Tatyana Shmanina, Ingrid Zukerman, Ai Lee Cheam, Thomas Bochynek, and Lawrence Cavedon. 2016. A Corpus of Tables in Full-Text Biomedical Research Publications. In Proceedings of the Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM2016), pages 70–79, Osaka, Japan. The COLING 2016 Organizing Committee.
Cite (Informal):
A Corpus of Tables in Full-Text Biomedical Research Publications (Shmanina et al., 2016)
Copy Citation:
PDF:
https://aclanthology.org/W16-5108.pdf