An improved data augmentation approach and its application in medical named entity recognition

Performing data augmentation in medical named entity recognition (NER) is crucial due to the unique challenges posed by this field. Medical data is characterized by high acquisition costs, specialized terminology, imbalanced distributions, and limited training resources. These factors make achieving high performance in medical NER particularly difficult. Data augmentation methods help to mitigate these issues by generating additional training samples, thus balancing data distribution, enriching the training dataset, and improving model generalization. This paper proposes two data augmentation methods-Contextual Random Replacement based on Word2Vec Augmentation (CRR) and Targeted Entity Random Replacement Augmentation (TER)-aimed at addressing the scarcity and imbalance of data in the medical domain. When combined with a deep learning-based Chinese NER model, these methods can significantly enhance performance and recognition accuracy under limited resources. Experimental results demonstrate that both augmentation methods effectively improve the recognition capability of medical named entities. Specifically, the BERT-BiLSTM-CRF model achieved the highest F1 score of 83.587%, representing a 1.49% increase over the baseline model. This validates the importance and effectiveness of data augmentation in medical NER.

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Publication Details

Journal
BMC Medical Informatics and Decision Making
Published
2024-08-05
DOI
https://doi.org/10.1186/s12911-024-02624-x
Citations
11
Primary Topic
Topic Modeling
Type
article
Field-Weighted Citation Impact
3.82
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article

An improved data augmentation approach and its application in medical named entity recognition

Yonghe Lu, Jinxia Zhang, Hongyu Chen, Dan Li et al.
11 citations
BMC Medical Informatics and Decision Making
Topic Modeling
3.82
article

An improved data augmentation approach and its application in medical named entity recognition

Yonghe Lu, Jinxia Zhang, Hongyu Chen, Dan Li, Minghong Chen
article en
11 citations

Abstract

Performing data augmentation in medical named entity recognition (NER) is crucial due to the unique challenges posed by this field. Medical data is characterized by high acquisition costs, specialized terminology, imbalanced distributions, and limited training resources. These factors make achieving high performance in medical NER particularly difficult. Data augmentation methods help to mitigate these issues by generating additional training samples, thus balancing data distribution, enriching the training dataset, and improving model generalization. This paper proposes two data augmentation methods-Contextual Random Replacement based on Word2Vec Augmentation (CRR) and Targeted Entity Random Replacement Augmentation (TER)-aimed at addressing the scarcity and imbalance of data in the medical domain. When combined with a deep learning-based Chinese NER model, these methods can significantly enhance performance and recognition accuracy under limited resources. Experimental results demonstrate that both augmentation methods effectively improve the recognition capability of medical named entities. Specifically, the BERT-BiLSTM-CRF model achieved the highest F1 score of 83.587%, representing a 1.49% increase over the baseline model. This validates the importance and effectiveness of data augmentation in medical NER.

BMC Medical Informatics and Decision MakingVol. 24(1)
Sun Yat-sen University (CN), Third Affiliated Hospital of Southern Medical University (CN), General Hospital of Guangzhou Military Command (CN)
Openalex Percentile: Top 6%
Topic Modeling
3.82
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An improved data augmentation approach and its application in medical named entity recognition — Yonghe Lu, Jinxia Zhang, et al. · BMC Medical Informatics and Decision Making (2024) | TGRS Research Map | TGRS