Biomedical text recognition using convolutional neural networks: Content based deep learning

Sisir Joshi, Abeer Alsadoon, S. M.N.Arosha Senanayake, P. W.C. Prasad, Abdul Ghani Naim, Amr Elchouemi

Research output: Book chapter/Published conference paperConference paperpeer-review


Named Entity Recognition (NER) targets to automatically detect the drug and disease mentions from biomedical texts and is fundamental step in the biomedical text mining. Although deep learning has been successfully implemented, the accuracy and processing time are still major issues preventing it from achieving NMR. This research aims to upgrade the accuracy of classification while decreasing the processing time, by paying more attention to significant areas of NMR. The novel proposed system consists of a Bi-Directional Long Short-Term Memory with Conditional Random Field (BiLSTM-CRF) using dropout strategy to effectively prevent overfitting and enhancing the generalization abilities. The system built includes the attention mechanism and attention fusion for redistributing the weight of samples belonging to each class in order to compensate the problem occurring from data imbalance and to focus only on the critical areas of the observed things and ignoring non-critical areas.

Original languageEnglish
Title of host publicationAdvances in Computational Collective Intelligence
Subtitle of host publication12th International Conference, ICCCI 2020, Proceedings
EditorsMarcin Hernes, Krystian Wojtkiewicz, Edward Szczerbicki
Place of PublicationSwitzerland
Number of pages12
ISBN (Electronic)9783030631192
ISBN (Print)9783030631185
Publication statusE-pub ahead of print - 19 Nov 2020
Event12th International Conference on Computational Collective Intelligence, ICCCI 2020 - Online, Da Nang, Viet Nam
Duration: 30 Nov 202003 Dec 2020 (Conference website) (Program)

Publication series

NameCommunications in Computer and Information Science
ISSN (Print)1865-0929
ISSN (Electronic)1865-0937


Conference12th International Conference on Computational Collective Intelligence, ICCCI 2020
Country/TerritoryViet Nam
CityDa Nang
OtherThe aim of this conference is to provide an internationally respected forum for scientific research in the computer-based methods of collective intelligence and their applications. The scope of ICCCI 2019 includes all topics related with processing data and knowledge from autonomous sources, especially in: collective processing, knowledge integration, data integration, group decision making, multi-criteria decision making, consensus computing, and social networks.

The conference is hosted by The University of Danang, Vietnam - Korea University of Information and Communication Technology, Vietnam and jointly organized by Wrocław University of Science and Technology, Poland and Wrocław University of Economics, Poland, in cooperation with IEEE SMC Technical Committee on Computational Collective Intelligence, European Research Center for Information Systems (ERCIS), and International University – VNU-HCMC, Vietnam.
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