{"title":"通过负向学习和噪声学生自我训练实现远程监督生物医学关系提取","authors":"Yuanfei Dai, Bin Zhang, Shiping Wang","doi":"10.1109/TCBB.2024.3412174","DOIUrl":null,"url":null,"abstract":"<p><p>Biomedical relation extraction aims to identify underlying relationships among entities, such as gene associations and drug interactions, within biomedical texts. Despite advancements in relation extraction in general knowledge domains, the scarcity of labeled training data remains a significant challenge in the biomedical field. This paper provides a novel approach for biomedical relation extraction that leverages a noisy student self-training strategy combined with negative learning. This method addresses the challenge of data insufficiency by utilizing distantly supervised data to generate high-quality labeled samples. Negative learning, as opposed to traditional positive learning, offers a more robust mechanism to discern and relabel noisy samples, preventing model overfitting. The integration of these techniques ensures enhanced noise reduction and relabeling capabilities, leading to improved performance even with noisy datasets. Experimental results demonstrate the effectiveness of the proposed framework in mitigating the impact of noisy data and outperforming existing benchmarks.</p>","PeriodicalId":13344,"journal":{"name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","volume":null,"pages":null},"PeriodicalIF":3.6000,"publicationDate":"2024-06-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Distantly Supervised Biomedical Relation Extraction Via Negative Learning and Noisy Student Self-Training.\",\"authors\":\"Yuanfei Dai, Bin Zhang, Shiping Wang\",\"doi\":\"10.1109/TCBB.2024.3412174\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Biomedical relation extraction aims to identify underlying relationships among entities, such as gene associations and drug interactions, within biomedical texts. Despite advancements in relation extraction in general knowledge domains, the scarcity of labeled training data remains a significant challenge in the biomedical field. This paper provides a novel approach for biomedical relation extraction that leverages a noisy student self-training strategy combined with negative learning. This method addresses the challenge of data insufficiency by utilizing distantly supervised data to generate high-quality labeled samples. Negative learning, as opposed to traditional positive learning, offers a more robust mechanism to discern and relabel noisy samples, preventing model overfitting. The integration of these techniques ensures enhanced noise reduction and relabeling capabilities, leading to improved performance even with noisy datasets. Experimental results demonstrate the effectiveness of the proposed framework in mitigating the impact of noisy data and outperforming existing benchmarks.</p>\",\"PeriodicalId\":13344,\"journal\":{\"name\":\"IEEE/ACM Transactions on Computational Biology and Bioinformatics\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":3.6000,\"publicationDate\":\"2024-06-11\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"IEEE/ACM Transactions on Computational Biology and Bioinformatics\",\"FirstCategoryId\":\"5\",\"ListUrlMain\":\"https://doi.org/10.1109/TCBB.2024.3412174\",\"RegionNum\":3,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"BIOCHEMICAL RESEARCH METHODS\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","FirstCategoryId":"5","ListUrlMain":"https://doi.org/10.1109/TCBB.2024.3412174","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"BIOCHEMICAL RESEARCH METHODS","Score":null,"Total":0}
Distantly Supervised Biomedical Relation Extraction Via Negative Learning and Noisy Student Self-Training.
Biomedical relation extraction aims to identify underlying relationships among entities, such as gene associations and drug interactions, within biomedical texts. Despite advancements in relation extraction in general knowledge domains, the scarcity of labeled training data remains a significant challenge in the biomedical field. This paper provides a novel approach for biomedical relation extraction that leverages a noisy student self-training strategy combined with negative learning. This method addresses the challenge of data insufficiency by utilizing distantly supervised data to generate high-quality labeled samples. Negative learning, as opposed to traditional positive learning, offers a more robust mechanism to discern and relabel noisy samples, preventing model overfitting. The integration of these techniques ensures enhanced noise reduction and relabeling capabilities, leading to improved performance even with noisy datasets. Experimental results demonstrate the effectiveness of the proposed framework in mitigating the impact of noisy data and outperforming existing benchmarks.
期刊介绍:
IEEE/ACM Transactions on Computational Biology and Bioinformatics emphasizes the algorithmic, mathematical, statistical and computational methods that are central in bioinformatics and computational biology; the development and testing of effective computer programs in bioinformatics; the development of biological databases; and important biological results that are obtained from the use of these methods, programs and databases; the emerging field of Systems Biology, where many forms of data are used to create a computer-based model of a complex biological system