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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 2018: 0.90

SCImago Journal Rank (SJR) 2018: 0.315

Open Access
Online
ISSN
1613-4516
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Volume 11, Issue 3

Issues

Identifying interactions between chemical entities in biomedical text

Andre Lamurias
  • Corresponding author
  • LaSIGE, Departamento de Informática, Faculdade de Ciências, Universidade de Lisboa, 1749-016, Lisboa, Portugal
  • Email
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ João D. Ferreira
  • LaSIGE, Departamento de Informática, Faculdade de Ciências, Universidade de Lisboa, 1749-016, Lisboa, Portugal
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Francisco M. Couto
  • LaSIGE, Departamento de Informática, Faculdade de Ciências, Universidade de Lisboa, 1749-016, Lisboa, Portugal
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
Published Online: 2016-10-18 | DOI: https://doi.org/10.1515/jib-2014-247

Summary

Interactions between chemical compounds described in biomedical text can be of great importance to drug discovery and design, as well as pharmacovigilance. We developed a novel system, “Identifying Interactions between Chemical Entities” (IICE), to identify chemical interactions described in text. Kernel-based Support Vector Machines first identify the interactions and then an ensemble classifier validates and classifies the type of each interaction. This relation extraction module was evaluated with the corpus released for the DDI Extraction task of SemEval 2013, obtaining results comparable to stateof- the-art methods for this type of task. We integrated this module with our chemical named entity recognition module and made the whole system available as a web tool at www.lasige.di.fc.ul.pt/webtools/iice.

About the article

Published Online: 2016-10-18

Published in Print: 2014-12-01


Citation Information: Journal of Integrative Bioinformatics, Volume 11, Issue 3, Pages 1–16, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2014-247.

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© 2014 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

Citing Articles

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[1]
Andre Lamurias, Luka A. Clarke, Francisco M. Couto, and Quan Zou
PLOS ONE, 2017, Volume 12, Number 3, Page e0171929
[2]
Andre Lamurias, Diana Sousa, Luka A. Clarke, and Francisco M. Couto
BMC Bioinformatics, 2019, Volume 20, Number 1

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