Daily README Update

daily_reports/2025-08-03.md

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+# The Applications of LLM-Based Agents in Biology and Medicine
+
+The advent of Large Language Models (LLMs) has ushered in a new era of possibilities in the fields of biology and medicine. These models have proven to be transformative tools, facilitating advancements in research, diagnostics, drug discovery, and patient care. Below is a curated list of notable papers and articles that explore various applications of LLMs in these vital areas of healthcare and biotechnology.
+
+- **[Exploring the Role of Large Language Models in Biomedical Text Mining and Beyond](https://link.springer.com/article/10.1007/s10462-024-10921-0)**  
+  Journal: Artificial Intelligence Review, 2024  
+  Summary: This paper evaluates the impact of LLMs in biomedical text mining, highlighting their role in information extraction, decision-making support, and advancements in medical research.
+
+- **[Clinical Applications of Large Language Models in Radiology: A Review](https://pmc.ncbi.nlm.nih.gov/articles/PMC11080827/)**  
+  Journal: Journal of Radiology, 2023  
+  Summary: Reviews the potential of LLMs to enhance diagnostic accuracy and decision-making processes in radiology.
+
+- **[The role of LLMs in biomedical text mining: opportunities, challenges and future directions](https://pmc.ncbi.nlm.nih.gov/articles/PMC12189880/)**  
+  Journal: Journal of Biomedical Informatics, October 2023  
+  Summary: Discusses applications of LLMs in biomedical text mining, focusing on information retrieval, data mining, and the integration of biological data.
+
+- **[Leveraging Large Language Models for Biomedical Text Mining](https://arxiv.org/abs/2503.04748)**  
+  Journal: arXiv, 2023  
+  Summary: Explores how LLMs can extract meaningful information from biomedical texts, enhancing research efficiency and accuracy.
+
+- **[Large Language Models for Drug Discovery: Applications and Future Directions](https://pmc.ncbi.nlm.nih.gov/articles/PMC10654899/)**  
+  Journal: Nature Reviews Drug Discovery, 2023  
+  Summary: Explores LLMs' use in drug discovery, analyzing biological data, and optimizing candidate selection.
+
+- **[Harnessing large language models for advancing drug discovery](https://link.springer.com/article/10.1007/s13721-024-00458-1)**  
+  Journal: Journal of Biological Engineering, 2024  
+  Summary: Discusses LLM applications in drug discovery processes, including target identification and compound optimization.
+
+- **[Towards predictive and actionable modeling of human health using AI and large genomic datasets](https://www.nature.com/articles/s41592-024-02354-y)**  
+  Journal: Nature Biotechnology, 2024  
+  Summary: Integrates AI and genomic datasets to create predictive models for health decision-making.
+
+- **[Applications of ChatGPT in the Biomedical Field: A Review](https://pmc.ncbi.nlm.nih.gov/articles/PMC5740497/)**  
+  Journal: Frontiers in Genetics, 2017  
+  Summary: Discusses various applications of ChatGPT in the biomedical field, including text generation and clinical decision support.
+
+- **[Unsupervised learning for improved prediction of drug efficacy in cancer treatment](https://www.nature.com/articles/s43856-024-00717-2)**  
+  Journal: Nature Cancer, January 2024  
+  Summary: Explores unsupervised learning methods and their enhancement of drug efficacy predictions in cancer treatment.
+
+- **[Multimodal Large Language Models are Human-Level in the Medical Domain](https://pmc.ncbi.nlm.nih.gov/articles/PMC12086438/)**  
+  Journal: Nature Medicine, 2023  
+  Summary: Analyzes the application of multimodal LLMs in clinical tasks, focusing on comprehension of medical texts.
+
+- **[Generative AI and the Future of Medicine: How Large Language Models are Transforming Healthcare](https://www.sciencedirect.com/science/article/pii/S2589004224009350)**  
+  Journal: The Lancet Digital Health, 2024  
+  Summary: Reviews how LLMs are improving patient care and clinical decision-making processes.
+
+- **[Artificial Intelligence and Genomics: Current Trends and Future Challenges](https://journals.plos.org/digitalhealth/article?id=10.1371/journal.pdig.0000662)**  
+  Journal: PLOS Digital Health, 2022  
+  Summary: Discusses AI's integration in genomics for data analysis and interpretation challenges.
+
+- **[An introduction to language models in the biomedical field](https://www.nature.com/articles/s44387-025-00011-z)**  
+  Journal: Nature Biotechnology, 2025  
+  Summary: Explores LLM applications across various biomedical areas, including drug discovery and personalized medicine.
+
+- **[A scalable LLM-based system for drug discovery](https://www.nature.com/articles/s41591-024-03416-6)**  
+  Journal: Nature Medicine, 2024  
+  Summary: Describes an LLM-based system designed to predict molecule interactions in drug discovery.
+
+- **[Harnessing the power of large language models in biomedical research](https://www.nature.com/articles/s41746-025-01550-0)**  
+  Journal: Nature Medicine, 2025  
+  Summary: Discusses effective integration of LLMs into biomedical research for enhanced data analysis.
+
+- **[AI-powered discovery of potential vaccines against monkeypox: A review](https://arxiv.org/html/2409.04481v1)**  
+  Journal: arXiv, September 2024  
+  Summary: Discusses AI utilization for identifying and developing vaccines against monkeypox.
+
+- **[The Role of AI in the Future of Medicine: Exploring New Horizons](https://pmc.ncbi.nlm.nih.gov/articles/PMC11984503/)**  
+  Journal: Journal of Medical Internet Research, 2023  
+  Summary: Examines AI's contributions to enhancing diagnostic accuracy and personalized treatment in medicine.
+
+- **[Applications of large language models in biology and medicine](https://www.sciencedirect.com/science/article/pii/S2090123225001092)**  
+  Journal: Computational Biology and Chemistry, 2023  
+  Summary: Explores LLM applications, focusing on data analysis, diagnostics, and drug discovery.
+
+- **[Integrating machine learning and omics data reveals biological insights in the production of polyunsaturated fatty acids](https://www.nature.com/articles/s41598-024-61124-0)**  
+  Journal: Scientific Reports, 2024  
+  Summary: Discusses machine learning combined with omics data to improve understanding in biotechnology.
+
+- **[Towards the computer-aided diagnosis of skin cancer: The role of multimodal data integration and large language models](https://www.nature.com/articles/s41746-024-01274-7)**  
+  Journal: Nature Medicine, 2024  
+  Summary: Examines the integration of multimodal data with LLMs in enhancing skin cancer diagnosis.
+
+- **[Transformative Applications of Large Language Models in Biology and Medicine](https://pmc.ncbi.nlm.nih.gov/articles/PMC10785941/)**  
+  Journal: Annual Review of Biomedical Data Science, 2023  
+  Summary: Discusses the potential of LLMs in transforming research methodologies and patient care processes.
+
+- **[Large Language Models in Health Care: A Review and Artificial Intelligence Clinical Applications](https://ai.nejm.org/doi/full/10.1056/AIcs2400943)**  
+  Journal: New England Journal of Medicine AI, 2023  
+  Summary: Reviews LLM applications in health care, emphasizing their impact on clinical workflows.
+
+- **[Machine Learning in Biomedicine: Current State and Future Potential](https://www.sciencedirect.com/science/article/pii/S2667100X24001002)**  
+  Journal: Trends in Biochemical Sciences, 2024  
+  Summary: Discusses current trends and future potential of machine learning in transforming medical diagnostics.
+
+- **[Enhancing the Understanding of Disease through Large Language Models: Applications in Healthcare](https://arxiv.org/html/2410.12860)**  
+  Journal: arXiv, October 2024  
+  Summary: Explores how LLMs can enhance the understanding and diagnosis of diseases. 
+
+These papers collectively highlight the profound impact and versatility of LLMs in advancing biology and medicine, setting the stage for ongoing innovation in healthcare applications.