{"title":"社交媒体中不良药物事件提取的语法增强网格标记模型。","authors":"Weiru Fu, Hao Li, Ling Luo, Hongfei Lin","doi":"10.1016/j.jbi.2025.104944","DOIUrl":null,"url":null,"abstract":"<p><strong>Objective: </strong>Adverse Drug Event (ADE) extraction from social media is a critical yet challenging task due to the semantic similarity between adverse effects and therapeutic indications, as well as the prevalence of overlapping and discontinuous mentions often caused by comorbid conditions. This study aims to develop a robust model for accurate ADE extraction from noisy and irregular social media texts.</p><p><strong>Methods: </strong>We propose ADENER, a grid-tagging architecture that models ADE extraction as multi-label word-pair classification. ADENER incorporates two core encoding mechanisms: the convolutional capture layer fuses multi-dimensional textual features, captures long-range word-pair dependencies via dilated convolutions, and enhances interactions through semantic association matrices for social media text irregularities; the syntactic affine layer integrates path-level dependency information to enhance global logic understanding, enabling the model to distinguish between therapeutic symptom entities and ADE entities through syntactic cues. The decoding stage uses four-type relational labels to uniformly decode flat, overlapping, and discontinuous ADE mentions.</p><p><strong>Results: </strong>We evaluated ADENER on three widely used ADE extraction datasets: CADEC, CADECv2, SMM4H. The model achieved F1 scores of 74.64%, 77.97%, 61.73% on these datasets, respectively, outperforming all compared baseline models while maintaining competitive computational efficiency. The results demonstrate the effectiveness of our model in addressing the challenges posed by irregular and noisy social media data.</p><p><strong>Conclusion: </strong>ADENER offers a unified and effective solution for ADE extraction from social media, capable of handling flat, overlapping, and discontinuous entity mentions and correctly distinguishing ADE entities from therapeutic symptom entities. By incorporating convolutional capture layers for semantic word-pair interactions and syntactic affine layers for dependency-based logic understanding, our approach significantly improves extraction accuracy, providing a valuable tool for pharmacovigilance research and real-world drug safety monitoring.</p>","PeriodicalId":15263,"journal":{"name":"Journal of Biomedical Informatics","volume":"171 ","pages":"104944"},"PeriodicalIF":4.5000,"publicationDate":"2025-10-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"ADENER: A syntax-augmented grid-tagging model for Adverse Drug Event extraction in social media.\",\"authors\":\"Weiru Fu, Hao Li, Ling Luo, Hongfei Lin\",\"doi\":\"10.1016/j.jbi.2025.104944\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Objective: </strong>Adverse Drug Event (ADE) extraction from social media is a critical yet challenging task due to the semantic similarity between adverse effects and therapeutic indications, as well as the prevalence of overlapping and discontinuous mentions often caused by comorbid conditions. This study aims to develop a robust model for accurate ADE extraction from noisy and irregular social media texts.</p><p><strong>Methods: </strong>We propose ADENER, a grid-tagging architecture that models ADE extraction as multi-label word-pair classification. ADENER incorporates two core encoding mechanisms: the convolutional capture layer fuses multi-dimensional textual features, captures long-range word-pair dependencies via dilated convolutions, and enhances interactions through semantic association matrices for social media text irregularities; the syntactic affine layer integrates path-level dependency information to enhance global logic understanding, enabling the model to distinguish between therapeutic symptom entities and ADE entities through syntactic cues. The decoding stage uses four-type relational labels to uniformly decode flat, overlapping, and discontinuous ADE mentions.</p><p><strong>Results: </strong>We evaluated ADENER on three widely used ADE extraction datasets: CADEC, CADECv2, SMM4H. The model achieved F1 scores of 74.64%, 77.97%, 61.73% on these datasets, respectively, outperforming all compared baseline models while maintaining competitive computational efficiency. The results demonstrate the effectiveness of our model in addressing the challenges posed by irregular and noisy social media data.</p><p><strong>Conclusion: </strong>ADENER offers a unified and effective solution for ADE extraction from social media, capable of handling flat, overlapping, and discontinuous entity mentions and correctly distinguishing ADE entities from therapeutic symptom entities. By incorporating convolutional capture layers for semantic word-pair interactions and syntactic affine layers for dependency-based logic understanding, our approach significantly improves extraction accuracy, providing a valuable tool for pharmacovigilance research and real-world drug safety monitoring.</p>\",\"PeriodicalId\":15263,\"journal\":{\"name\":\"Journal of Biomedical Informatics\",\"volume\":\"171 \",\"pages\":\"104944\"},\"PeriodicalIF\":4.5000,\"publicationDate\":\"2025-10-22\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Biomedical Informatics\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://doi.org/10.1016/j.jbi.2025.104944\",\"RegionNum\":2,\"RegionCategory\":\"医学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Biomedical Informatics","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.1016/j.jbi.2025.104944","RegionNum":2,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS","Score":null,"Total":0}
ADENER: A syntax-augmented grid-tagging model for Adverse Drug Event extraction in social media.
Objective: Adverse Drug Event (ADE) extraction from social media is a critical yet challenging task due to the semantic similarity between adverse effects and therapeutic indications, as well as the prevalence of overlapping and discontinuous mentions often caused by comorbid conditions. This study aims to develop a robust model for accurate ADE extraction from noisy and irregular social media texts.
Methods: We propose ADENER, a grid-tagging architecture that models ADE extraction as multi-label word-pair classification. ADENER incorporates two core encoding mechanisms: the convolutional capture layer fuses multi-dimensional textual features, captures long-range word-pair dependencies via dilated convolutions, and enhances interactions through semantic association matrices for social media text irregularities; the syntactic affine layer integrates path-level dependency information to enhance global logic understanding, enabling the model to distinguish between therapeutic symptom entities and ADE entities through syntactic cues. The decoding stage uses four-type relational labels to uniformly decode flat, overlapping, and discontinuous ADE mentions.
Results: We evaluated ADENER on three widely used ADE extraction datasets: CADEC, CADECv2, SMM4H. The model achieved F1 scores of 74.64%, 77.97%, 61.73% on these datasets, respectively, outperforming all compared baseline models while maintaining competitive computational efficiency. The results demonstrate the effectiveness of our model in addressing the challenges posed by irregular and noisy social media data.
Conclusion: ADENER offers a unified and effective solution for ADE extraction from social media, capable of handling flat, overlapping, and discontinuous entity mentions and correctly distinguishing ADE entities from therapeutic symptom entities. By incorporating convolutional capture layers for semantic word-pair interactions and syntactic affine layers for dependency-based logic understanding, our approach significantly improves extraction accuracy, providing a valuable tool for pharmacovigilance research and real-world drug safety monitoring.
期刊介绍:
The Journal of Biomedical Informatics reflects a commitment to high-quality original research papers, reviews, and commentaries in the area of biomedical informatics methodology. Although we publish articles motivated by applications in the biomedical sciences (for example, clinical medicine, health care, population health, and translational bioinformatics), the journal emphasizes reports of new methodologies and techniques that have general applicability and that form the basis for the evolving science of biomedical informatics. Articles on medical devices; evaluations of implemented systems (including clinical trials of information technologies); or papers that provide insight into a biological process, a specific disease, or treatment options would generally be more suitable for publication in other venues. Papers on applications of signal processing and image analysis are often more suitable for biomedical engineering journals or other informatics journals, although we do publish papers that emphasize the information management and knowledge representation/modeling issues that arise in the storage and use of biological signals and images. System descriptions are welcome if they illustrate and substantiate the underlying methodology that is the principal focus of the report and an effort is made to address the generalizability and/or range of application of that methodology. Note also that, given the international nature of JBI, papers that deal with specific languages other than English, or with country-specific health systems or approaches, are acceptable for JBI only if they offer generalizable lessons that are relevant to the broad JBI readership, regardless of their country, language, culture, or health system.