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Wang J, Cheng Z, Yao Q, Liu L, Xu D, Hu G. Bioinformatics and biomedical informatics with ChatGPT: Year one review. QUANTITATIVE BIOLOGY 2024; 12:345-359. [PMID: 39364207 PMCID: PMC11446534 DOI: 10.1002/qub2.67] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2024] [Accepted: 06/12/2024] [Indexed: 10/05/2024]
Abstract
The year 2023 marked a significant surge in the exploration of applying large language model chatbots, notably Chat Generative Pre-trained Transformer (ChatGPT), across various disciplines. We surveyed the application of ChatGPT in bioinformatics and biomedical informatics throughout the year, covering omics, genetics, biomedical text mining, drug discovery, biomedical image understanding, bioinformatics programming, and bioinformatics education. Our survey delineates the current strengths and limitations of this chatbot in bioinformatics and offers insights into potential avenues for future developments.
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Affiliation(s)
- Jinge Wang
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, West Virginia, USA
| | - Zien Cheng
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, West Virginia, USA
| | - Qiuming Yao
- School of Computing, University of Nebraska-Lincoln, Lincoln, Nebraska, USA
| | - Li Liu
- College of Health Solutions, Arizona State University, Phoenix, Arizona, USA
- Biodesign Institute, Arizona State University, Tempe, Arizona, USA
| | - Dong Xu
- Department of Electrical Engineer and Computer Science, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri, USA
| | - Gangqing Hu
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, West Virginia, USA
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Liang Y, Zhang Q, Fan Y. Research progress of knee fibrosis after anterior cruciate ligament reconstruction. Front Pharmacol 2024; 15:1493155. [PMID: 39498335 PMCID: PMC11533135 DOI: 10.3389/fphar.2024.1493155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2024] [Accepted: 10/08/2024] [Indexed: 11/07/2024] Open
Abstract
Anterior cruciate ligament (ACL) injury is a common sports injury, and ACL reconstruction is an effective surgery for this trauma. Most cases gain good recovery after surgery, while some patients may experience knee stiffness, which is characterized by joint fibrosis, leading to reduced joint mobility, pain, and dysfunction. Currently, various research studies have been conducted to unveil the mechanisms underlying this condition, identifying pre-, intra-, and post-operative risk factors, and testify the efficacy of different therapeutic methods against it. In this review, we summarize the current progress regarding the advancements in knee fibrosis after ACL reconstruction. The risk factors associated with knee fibrosis are systematically delineated, accompanied by an evaluation of the efficacy of various treatment modalities for both the prevention and mitigation of fibrosis. Furthermore, recommendations for future research directions are proposed, offering a foundational basis for subsequent investigations.
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Affiliation(s)
- YangYang Liang
- Department of Sports Trauma and Arthroscopic Surgery, The Affiliated Bozhou Hospital of Anhui Medical University, Bozhou, China
| | - QingQing Zhang
- Department of Respiratory and Critical Care Medicine, The Affiliated Bozhou Hospital of Anhui Medical University, Bozhou, China
| | - YouFei Fan
- Department of Sports Trauma and Arthroscopic Surgery, The Affiliated Bozhou Hospital of Anhui Medical University, Bozhou, China
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Wang J, Cheng Z, Yao Q, Liu L, Xu D, Hu G. Bioinformatics and biomedical informatics with ChatGPT: Year one review. ARXIV 2024:arXiv:2403.15274v2. [PMID: 38562449 PMCID: PMC10984005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
The year 2023 marked a significant surge in the exploration of applying large language model (LLM) chatbots, notably ChatGPT, across various disciplines. We surveyed the applications of ChatGPT in bioinformatics and biomedical informatics throughout the year, covering omics, genetics, biomedical text mining, drug discovery, biomedical image understanding, bioinformatics programming, and bioinformatics education. Our survey delineates the current strengths and limitations of this chatbot in bioinformatics and offers insights into potential avenues for future developments.
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Affiliation(s)
- Jinge Wang
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, WV 26506, USA
| | - Zien Cheng
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, WV 26506, USA
| | - Qiuming Yao
- School of Computing, University of Nebraska-Lincoln, Lincoln, NE 68588, USA
| | - Li Liu
- College of Health Solutions, Arizona State University, Phoenix, AZ 85004, USA
- Biodesign Institute, Arizona State University, Tempe, AZ 85281, USA
| | - Dong Xu
- Department of Electrical Engineer and Computer Science, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA
| | - Gangqing Hu
- Department of Microbiology, Immunology & Cell Biology, West Virginia University, Morgantown, WV 26506, USA
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Lv Z, Wang Z, Chen D, Shi D. Advances in osteoarthritis research: From diagnosis, treatment to mechanism studies. J Orthop Translat 2024; 44:A4-A6. [PMID: 38476406 PMCID: PMC10927416 DOI: 10.1016/j.jot.2024.01.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 03/14/2024] Open
Affiliation(s)
- Zhongyang Lv
- Department of Orthopedics, Nanjing Jinling Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing, 210002, China
- Division of Sports Medicine and Adult Reconstructive Surgery, Department of Orthopedic Surgery, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing, 210008, China
| | - Ziling Wang
- Research Center for Computer-aided Drug Discovery, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, 518055, China
- Faculty of Pharmaceutical Sciences, Shenzhen Institute of Advanced Technology, Shenzhen, 518055, China
- Department of Biomedical Engineering, Faculty of Engineering, The Hong Kong Polytechnic University, Kowloon, Hong Kong, China
| | - Di Chen
- Research Center for Computer-aided Drug Discovery, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, 518055, China
- Faculty of Pharmaceutical Sciences, Shenzhen Institute of Advanced Technology, Shenzhen, 518055, China
| | - Dongquan Shi
- Division of Sports Medicine and Adult Reconstructive Surgery, Department of Orthopedic Surgery, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing, 210008, China
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