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Fine-Grained Drug Interaction Extraction Based on Entity Pair Calibration and Pre-Training Model for Chinese Drug Instructions

Fine-Grained Drug Interaction Extraction Based on Entity Pair Calibration and Pre-Training Model for Chinese Drug Instructions

Xiaoliang Zhang, Feng Gao, Lunsheng Zhou, Shenqi Jing, Zhongmin Wang, Yongqing Wang, Shumei Miao, Xin Zhang, Jianjun Guo, Tao Shan, Yun Liu
Copyright: © 2022 |Volume: 18 |Issue: 1 |Pages: 23
ISSN: 1552-6283|EISSN: 1552-6291|EISBN13: 9781799893967|DOI: 10.4018/IJSWIS.307908
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MLA

Zhang, Xiaoliang, et al. "Fine-Grained Drug Interaction Extraction Based on Entity Pair Calibration and Pre-Training Model for Chinese Drug Instructions." IJSWIS vol.18, no.1 2022: pp.1-23. http://doi.org/10.4018/IJSWIS.307908

APA

Zhang, X., Gao, F., Zhou, L., Jing, S., Wang, Z., Wang, Y., Miao, S., Zhang, X., Guo, J., Shan, T., & Liu, Y. (2022). Fine-Grained Drug Interaction Extraction Based on Entity Pair Calibration and Pre-Training Model for Chinese Drug Instructions. International Journal on Semantic Web and Information Systems (IJSWIS), 18(1), 1-23. http://doi.org/10.4018/IJSWIS.307908

Chicago

Zhang, Xiaoliang, et al. "Fine-Grained Drug Interaction Extraction Based on Entity Pair Calibration and Pre-Training Model for Chinese Drug Instructions," International Journal on Semantic Web and Information Systems (IJSWIS) 18, no.1: 1-23. http://doi.org/10.4018/IJSWIS.307908

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Abstract

Existing pharmaceutical information extraction research often focus on standalone entity or relationship identification tasks over drug instructions. There is a lack of a holistic solution for drug knowledge extraction. Moreover, current methods perform poorly in extracting fine-grained interaction relations from drug instructions. To solve these problems, this paper proposes an information extraction framework for drug instructions. The framework proposes deep learning models with fine-tuned pre-training models for entity recognition and relation extraction. In addition, it incorporates an novel entity pair calibration process to promote the performance for fine-grained relation extraction. The framework experiments on more than 60k Chinese drug description sentences from 4000 drug instructions. Empirical results show that the framework can successfully identify drug related entities (F1 3 0.95) and their relations (F1 3 0.83) from the realistic dataset, and the entity pair calibration plays an important role (~5% F1 score improvement) in extracting fine-grained relations.