CFP last date
20 December 2024
Reseach Article

Named Entity Recognition in Biomedical Domain: A Survey

by T. M. Thiyagu, D. Manjula, Shruthi Shridhar
International Journal of Computer Applications
Foundation of Computer Science (FCS), NY, USA
Volume 181 - Number 41
Year of Publication: 2019
Authors: T. M. Thiyagu, D. Manjula, Shruthi Shridhar
10.5120/ijca2019918469

T. M. Thiyagu, D. Manjula, Shruthi Shridhar . Named Entity Recognition in Biomedical Domain: A Survey. International Journal of Computer Applications. 181, 41 ( Feb 2019), 30-37. DOI=10.5120/ijca2019918469

@article{ 10.5120/ijca2019918469,
author = { T. M. Thiyagu, D. Manjula, Shruthi Shridhar },
title = { Named Entity Recognition in Biomedical Domain: A Survey },
journal = { International Journal of Computer Applications },
issue_date = { Feb 2019 },
volume = { 181 },
number = { 41 },
month = { Feb },
year = { 2019 },
issn = { 0975-8887 },
pages = { 30-37 },
numpages = {9},
url = { https://ijcaonline.org/archives/volume181/number41/30336-2019918469/ },
doi = { 10.5120/ijca2019918469 },
publisher = {Foundation of Computer Science (FCS), NY, USA},
address = {New York, USA}
}
%0 Journal Article
%1 2024-02-07T01:08:47.182384+05:30
%A T. M. Thiyagu
%A D. Manjula
%A Shruthi Shridhar
%T Named Entity Recognition in Biomedical Domain: A Survey
%J International Journal of Computer Applications
%@ 0975-8887
%V 181
%N 41
%P 30-37
%D 2019
%I Foundation of Computer Science (FCS), NY, USA
Abstract

Named Entity Recognition plays an important role in locating and classifying atomic elements into predefined categories such as person names, locations, organizations, expression of times, temporal expressions etc. Named entity recognition is also called as entity chunking, entity identification and entity extraction. It is a subtask of information extraction, where the structured text is extracted from unstructured text. Named Entity Recognition (NER) is one of the major tasks in Natural Language Processing (NLP). NER has been an active area of research for the past twenty years. An ability to automatically perform NER i.e., identify occurrences of NE in Web contents can have multiple benefits, such as improving the expressiveness of queries and also improving the quality of the search results. A number of factors make building highly accurate NER a challenging task. Though a lot of progress has been made in detecting named entities, NER still remains a big problem at large. In this paper, we explore various methods that are applied to solve NER in the biomedical domain.

References
  1. Mnica Marrero, Julin Urbano, Sonia Snchez-Cuadrado, Jorge Morato, Juan Miguel Gmez-Berbs ”Named Entity Recognition: Fallacies, Challenges and Opportunities” Published 2013 in Computer Standards and Interfaces.
  2. Shaodian Zhang, Nomie Elhadad ”Unsupervised biomedical named entity recognition: Experiments with clinical and biological texts” Journal of Biomedical Informatics 46 (2013) 10881098.
  3. Rezarta Islamaj Dogan, Robert Leaman, Zhiyong Lu ”NCBI disease corpus: A resource for disease name recognition and concept normalization” Journal of Biomedical Informatics 47 (2014) 110
  4. Yaqiang Wang, Zhonghua Yu, Li Chen, Yunhui Chen, Yiguang Liu, Xiaoguang Hu Yongguang Jiang ”Supervised methods for symptom name recognition in free-text clinical records of traditional Chinese medicine: An empirical study” Journal of Biomedical Informatics 47 (2014) 91104.
  5. Robert Leaman, Chih-Hsuan Wei, Zhiyong Lu ” tmChem: a high-performance approach for chemical named entity recognition and normalization” Leaman et al. Journal of Cheminformatics 2015, 7(Suppl 1): S3.
  6. Shengyu Liu, Buzhou Tang, Qingcai Chen and Xiaolong Wang ”Drug Name Recognition: Approaches and Resources” Information 2015, 6, 790-810.
  7. Yukun Chen, Thomas A. Lasko, Qiaozhu Mei, Joshua C. Denny, Hua Xu ”A study of active learning methods for named entity recognition in clinical text” Journal of Biomedical Informatics 58 (2015) 1118. corporais Korkontzelos, Dimitrios Piliouras, Andrew W. Dowsey, Sophia Ananiadou ”Boosting drug named entity recognition using an aggregate classifier” Artificial Intelligence in Medicine 65 (2015) 145153.
  8. Ioannis Korkontzelos, Dimitrios Piliouras, Andrew W. Dowsey, Sophia Ananiadou "Boosting drug named entity recognition using an aggregate classifier" Artificial Intelligence in Medicine 65 (2015) 145–153
  9. Alexandra Pomares Quimbaya, Alejandro Sierra Munera ”Named Entity Recognition over electronic health records through a combined dictionary-based approach” Conference on Enterprise Information Systems / International Conference on Project Management / Conference on Health and Social Care Information Systems and Technologies, CENTERIS / ProjMAN / HCist 2016
  10. Ahmed Sultan AL-Hegami, Ameen Mohammed Farea Othman, Fuad Tarbosh Bagash ”A Biomedical Named Entity Recognition Using Machine Learning Classifiers and Rich Feature Set” IJCSNS International Journal of Computer Science and Network Security, VOL.17 No.1, January 2017
  11. Marco Basaldella, Lenz Furrer, Carlo Tasso and Fabio Rinaldi ”Entity recognition in the biomedical domain using a hybrid approach” Journal of Biomedical Semantics (2017) 8:51
  12. Alicia Prez, Rebecka Weegar, Arantza Casillas, Koldo Gojenola, Maite Oronoz, Hercules Dalianis ”semi-supervised medical entity recognition: A study on Spanish and Swedish clinical corpora” Journal of Bio-medical Informatics 71 (2017) 1630
  13. Raditya Herwando, Meganingrum Arista Jiwanggi, Mirna Adriani ”Medical Entity Recognition using Conditional Random Field (CRF)” 2017 14th IAPR International Conference on Document Analysis and Recognition
  14. Emna Hkiri, Souheyl Mallat, Mounir Zrigui ”Integrating Bilingual Named Entities Lexicon with Conditional Random Fields Model for Arabic Named Entities Recognition” WBIS 2017 978-1-5386-2038-0/17
  15. Hyejin Cho, Wonjun Choi and Hyunju Lee ”A method for named entity normalization in biomedical articles: application to diseases and plants” BMC Bioinformatics (2017) 18:451
  16. Miftahutdinov Z. Sh., Tutubalina E. V., Tropsha A. E. ”Identifying Disease-related Expressions in Reviews Using Conditional Random Fields” Computational Linguistics and Intellectual Technologies: Proceedings of the International Conference Dialogue 2017
  17. Ismail El Bazi, Nabil Laachfoubi ”Arabic Named Entity Recognition Using Topic Modeling” International Journal of Intelligent Engineering Systems
  18. Dehua Chen, Nannan Che, Jiajin Le, Qiao Pan ”A co-training based entity recognition approach for cross-disease clinical documents” Article in Concurrency and Computation Practice and Experience.
  19. Xu Wang, Chen Yang, Renchu Guan ”A comparative study for biomedical named entity recognition” Springer-Verlag Berlin Heidelberg 2015
Index Terms

Computer Science
Information Sciences

Keywords

Arabic NER Named Entity Recognition Information Extraction NER tools.