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Benchmarking large language models for biomedical natural language processing applications and recommendations.

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Title: Benchmarking large language models for biomedical natural language processing applications and recommendations.
Authors: Chen Q; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA., Hu Y; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA., Peng X; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Xie Q; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Jin Q; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA., Gilson A; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Singer MB; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Ai X; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Lai PT; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA., Wang Z; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA., Keloth VK; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Raja K; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Huang J; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., He H; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Lin F; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Du J; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA., Zhang R; Division of Computational Health Sciences, Department of Surgery, Medical School, University of Minnesota, Minneapolis, MN, USA.; Center for Learning Health System Sciences, University of Minnesota, Minneapolis, MN, 55455, USA., Zheng WJ; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA., Adelman RA; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA., Lu Z; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA. zhiyong.lu@nih.gov., Xu H; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA. hua.xu@yale.edu.
Source: Nature communications [Nat Commun] 2025 Apr 06; Vol. 16 (1), pp. 3280. Date of Electronic Publication: 2025 Apr 06.
Publication Type: Journal Article
Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
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  Data: <searchLink fieldCode="AU" term="%22Chen+Q%22">Chen Q</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.<br /><searchLink fieldCode="AU" term="%22Hu+Y%22">Hu Y</searchLink>; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA.<br /><searchLink fieldCode="AU" term="%22Peng+X%22">Peng X</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Xie+Q%22">Xie Q</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Jin+Q%22">Jin Q</searchLink>; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.<br /><searchLink fieldCode="AU" term="%22Gilson+A%22">Gilson A</searchLink>; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Singer+MB%22">Singer MB</searchLink>; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Ai+X%22">Ai X</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Lai+PT%22">Lai PT</searchLink>; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.<br /><searchLink fieldCode="AU" term="%22Wang+Z%22">Wang Z</searchLink>; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.<br /><searchLink fieldCode="AU" term="%22Keloth+VK%22">Keloth VK</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Raja+K%22">Raja K</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Huang+J%22">Huang J</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22He+H%22">He H</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Lin+F%22">Lin F</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Du+J%22">Du J</searchLink>; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA.<br /><searchLink fieldCode="AU" term="%22Zhang+R%22">Zhang R</searchLink>; Division of Computational Health Sciences, Department of Surgery, Medical School, University of Minnesota, Minneapolis, MN, USA.; Center for Learning Health System Sciences, University of Minnesota, Minneapolis, MN, 55455, USA.<br /><searchLink fieldCode="AU" term="%22Zheng+WJ%22">Zheng WJ</searchLink>; McWilliams School of Biomedical Informatics, University of Texas Health Science at Houston, Houston, TX, USA.<br /><searchLink fieldCode="AU" term="%22Adelman+RA%22">Adelman RA</searchLink>; Department of Ophthalmology and Visual Science, Yale School of Medicine, Yale University, New Haven, CT, USA.<br /><searchLink fieldCode="AU" term="%22Lu+Z%22">Lu Z</searchLink>; National Library of Medicine, National Institutes of Health, Bethesda, MD, USA. zhiyong.lu@nih.gov.<br /><searchLink fieldCode="AU" term="%22Xu+H%22">Xu H</searchLink>; Department of Biomedical Informatics and Data Science, Yale School of Medicine, Yale University, New Haven, CT, USA. hua.xu@yale.edu.
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  Data: <searchLink fieldCode="JN" term="%22101528555%22">Nature communications</searchLink> [Nat Commun] 2025 Apr 06; Vol. 16 (1), pp. 3280. <i>Date of Electronic Publication: </i>2025 Apr 06.
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