Jump to ContentJump to Main Navigation
Show Summary Details
More options …

Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan / Hassani-Pak, Keywan

CiteScore 2017: 0.77

SCImago Journal Rank (SJR) 2017: 0.336

Open Access
See all formats and pricing
More options …
Volume 10, Issue 2


A System for Extracting Study Design Parameters from Nutritional Genomics Abstracts

Cassidy Kelly
  • Corresponding author
  • San Francisco State University, 1600 Holloway Ave. San Francisco, CA 94132, United States of America
  • Email
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Hui Yang
Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2013-222


The extraction of study design parameters from biomedical journal articles is an important problem in natural language processing (NLP). Such parameters define the characteristics of a study, such as the duration, the number of subjects, and their profile. Here we present a system for extracting study design parameters from sentences in article abstracts. This system will be used as a component of a larger system for creating nutrigenomics networks from articles in the nutritional genomics domain. The algorithms presented consist of manually designed rules expressed either as regular expressions or in terms of sentence parse structure. A number of filters and NLP tools are also utilized within a pipelined algorithmic framework. Using this novel approach, our system performs extraction at a finer level of granularity than comparable systems, while generating results that surpass the current state of the art.

About the article

Published Online: 2016-10-18

Published in Print: 2013-06-01

Citation Information: Journal of Integrative Bioinformatics, Volume 10, Issue 2, Pages 82–93, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2013-222.

Export Citation

© 2013 The Author(s). Published by Journal of Integrative Bioinformatics.. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

Comments (0)

Please log in or register to comment.
Log in