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Large Language Models (LLMs) and multi-agent systems have shown impressive capabilities in natural language tasks but face challenges in clinical trial applications, primarily due to limited access to external knowledge.
Systematic integration of biomedical knowledge prioritizes drugs for repurposing
Daniel Scott Himmelstein, Antoine Lizee, Christine Hessler, Leo Brueggeman, Sabrina L Chen, Dexter Hadley, Ari Green, Pouya Khankhanian, and Sergio E Baranzini. 2017 · 2017
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DrugBank 5.0: a major update to the DrugBank database for 2018
David S Wishart, Yannick D Feunang, An C Guo, Elvis J Lo, Ana Marcu, Jason R Grant, Tanvir Sajed, Daniel Johnson, Carin Li, Zinat Sayeeda, et al · 2018
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Enhance wound healing monitoring through a thermal imaging based smartphone app. In Medical imaging 2018: Imaging informatics for healthcare, research, and applications , Vol. 10579. SPIE, 438–441
Steven Yi, Minta Lu, Adam Yee, John Harmon, Frank Meng, and Saurabh Hinduja. 2018 · 2018
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Integrated identification of disease specific pathways using multi-omics data
Yi-Tan Chang, Eric P Hoffman, Guoqiang Yu, David M Herrington, Robert Clarke, Chiung-Ting Wu, Lulu Chen, and Yue Wang. 2019 · 2019
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PubMedQA: A Dataset for Biomedical Research Question Answering. In Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing, EMNLP-IJCNLP 2019, Hong Kong, China, November 3-7, 2019 , Kentaro Inui, Jing Jiang, Vincent Ng, and Xiaojun Wan (Eds.). Association for Computational Linguistics, 2567–2577
Qiao Jin, Bhuwan Dhingra, Zhengping Liu, William W. Cohen, and Xinghua Lu. 2019 · 2019
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HEAD-QA: A Healthcare Dataset for Complex Reasoning. In Proceedings of the 57th Conference of the Association for Computational Linguistics, ACL 2019, Florence, Italy, July 28- August 2, 2019, Volume 1: Long Papers , Anna Korhonen, David R. Traum, and Lluís Màrquez (Eds.). Association for Computational Linguistics, 960–966
David Vilares and Carlos Gómez-Rodríguez. 2019 · 2019
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COMPOSE: Cross-Modal Pseudo-Siamese Network for Patient Trial Matching. In Proceedings of the 26th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining . 803–812
Junyi Gao, Cao Xiao, Lucas M Glass, and Jimeng Sun. 2020 · 2020
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BioBERT: a pre-trained biomedical language representation model for biomedical text mining
Jinhyuk Lee, Wonjin Yoon, Sungdong Kim, Donghyeon Kim, Sunkyu Kim, Chan Ho So, and Jaewoo Kang. 2020 · 2020
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Deepenroll: Patient-trial matching with deep embedding and entailment prediction. In Proceedings of The Web Conference 2020 . 1029–1037
Xingyao Zhang, Cao Xiao, Lucas M Glass, and Jimeng Sun. 2020 · 2020
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Data-driven detection of subtype-specific differentially expressed genes
Lulu Chen, Yingzhou Lu, Chiung-Ting Wu, Robert Clarke, Guoqiang Yu, Jennifer E Van Eyk, David M Herrington, and Yue Wang. 2021 · 2021
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Measuring Massive Multitask Language Understanding. In 9th International Conference on Learning Representations, ICLR 2021, Virtual Event, Austria, May 3-7, 2021 . OpenReview.net
Dan Hendrycks, Collin Burns, Steven Basart, Andy Zou, Mantas Mazeika, Dawn Song, and Jacob Steinhardt. 2021 · 2021
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What disease does this patient have? a large-scale open domain question answering dataset from medical exams
Di Jin, Eileen Pan, Nassim Oufattole, Wei-Hung Weng, Hanyi Fang, and Peter Szolovits. 2021 · 2021
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COT: an efficient Python tool for detecting marker genes among many subtypes
Yingzhou Lu, Chiung-Ting Wu, Sarah J Parker, Lulu Chen, Georgia Saylor, Jennifer E Van Eyk, David M Herrington, and Yue Wang. 2021 · 2021
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DDN2.0: R and Python packages for differential dependency network analysis of biological systems
Bai Zhang, Yi Fu, Yingzhou Lu, Zhen Zhang, Robert Clarke, Jennifer E Van Eyk, David M Herrington, and Yue Wang. 2021 · 2021
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HINT: Hierarchical interaction network for clinical-trial-outcome predictions
Tianfan Fu, Kexin Huang, Cao Xiao, Lucas M Glass, and Jimeng Sun. 2022 · 2022
Cited alongside, same era.
COT: an efficient and accurate method for detecting marker genes among many subtypes
Yingzhou Lu, Chiung-Ting Wu, Sarah J Parker, Zuolin Cheng, Georgia Saylor, Jennifer E Van Eyk, Guoqiang Yu, Robert Clarke, David M Herrington, and Yue Wang. 2022 · 2022
Cited alongside, same era.
BioGPT: generative pre-trained transformer for biomedical text generation and mining
Renqian Luo, Liai Sun, Yingce Xia, Tao Qin, Sheng Zhang, Hoifung Poon, and Tie-Yan Liu. 2022 · 2022
Cited alongside, same era.
Cosbin: cosine score-based iterative normalization of biologically diverse samples
Chiung-Ting Wu, Minjie Shen, Dongping Du, Zuolin Cheng, Sarah J Parker, Yingzhou Lu, Jennifer E Van Eyk, Guoqiang Yu, Robert Clarke, David M Herrington, et al · 2022
Cited alongside, same era.
Automated prediction of clinical trial outcome
Tianfan Fu, Kexin Huang, and Jimeng Sun. 2023 · 2023
Cited alongside, same era.
Large language models encode clinical knowledge
Karan Singhal, Shekoofeh Azizi, Tao Tu, S Sara Mahdavi, Jason Wei, Hyung Won Chung, Nathan Scales, Ajay Tanwani, Heather Cole-Lewis, Stephen Pfohl, et al · 2023
Later among the works it cites.
Towards expert-level medical question answering with large language models
Karan Singhal, Tao Tu, Juraj Gottweis, Rory Sayres, Ellery Wulczyn, Le Hou, Kevin Clark, Stephen Pfohl, Heather Cole-Lewis, Darlene Neal, et al · 2023
Later among the works it cites.
ReAct: Synergizing Reasoning and Acting in Language Models. In The Eleventh International Conference on Learning Representations
Shunyu Yao, Jeffrey Zhao, Dian Yu, Nan Du, Izhak Shafran, Karthik R Narasimhan, and Yuan Cao. 2023 · 2023
Later among the works it cites.
Chatdoctor: A medical chat model fine-tuned on llama model using medical domain knowledge
Li Yunxiang, Li Zihan, Zhang Kai, Dan Ruilong, and Zhang You. 2023 · 2023
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Performance of ChatGPT on USMLE: Potential for AI-assisted medical education using large language models
Tiffany H Kung, Morgan Cheatham, Arielle Medenilla, Czarina Sillos, Lorie De Leon, Camille Elepaño, Maria Madriaga, Rimel Aggabao, Giezel Diaz-Candido, James Maningo, et al · 2023
Cited alongside, same era.
Utility of ChatGPT in clinical practice
Jialin Liu, Changyu Wang, and Siru Liu. 2023 · 2023
Cited alongside, same era.
Can large language models reason about medical questions?
Valentin Liévin, Christoffer Egeberg Hother, and Ole Winther. 2023 · 2023
Cited alongside, same era.
A Novel Evaluation Model for Assessing ChatGPT on Otolaryngology–Head and Neck Surgery Certification Examinations: Performance Study
Cai Long, Kayle Lowe, Jessica Zhang, André dos Santos, Alaa Alanazi, Daniel O’Brien, Erin Wright, and David Cote. 2023 · 2023
Cited alongside, same era.
Deep Learning based Multi-Label Image Classification of Protest Activities
Yingzhou Lu, Kosaku Sato, and Jialu Wang. 2023a · 2023
Cited alongside, same era.
Yingzhou Lu, Minjie Shen, Yue Zhao, Chenhao Li, Fan Meng, Xiao Wang, David Herrington, Yue Wang, Tim Fu, and Capucine Van Rechem. 2023b · 2023
Cited alongside, same era.
Introducing ChatGPT
OpenAI. 2022 · 2023
Cited alongside, same era.
Least-to-Most Prompting Enables Complex Reasoning in Large Language Models. In The Eleventh International Conference on Learning Representations
Denny Zhou, Nathanael Schärli, Le Hou, Jason Wei, Nathan Scales, Xuezhi Wang, Dale Schuurmans, Claire Cui, Olivier Bousquet, Quoc V Le, and Ed H. Chi. 2023 · 2023
Later among the works it cites.
TrialBench: Multi-Modal Artificial Intelligence-Ready Clinical Trial Datasets
Jintai Chen, Yaojun Hu, Yue Wang, Yingzhou Lu, Xu Cao, Miao Lin, Hongxia Xu, Jian Wu, Cao Xiao, Jimeng Sun, et al · 2024
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Uncertainty Quantification on Clinical Trial Outcome Prediction
Tianyi Chen, Nan Hao, Yingzhou Lu, and Capucine Van Rechem. 2024a · 2024
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DDN3. 0: Determining significant rewiring of biological network structure with differential dependency networks
Yi Fu, Yingzhou Lu, Yizhi Wang, Bai Zhang, Zhen Zhang, Guoqiang Yu, Chunyu Liu, Robert Clarke, David M Herrington, and Yue Wang. 2024 · 2024
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ChatGPT in healthcare: a taxonomy and systematic review
Jianning Li, Amin Dada, Behrus Puladi, Jens Kleesiek, and Jan Egger. 2024 · 2024
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Uncertainty quantification and interpretability for clinical trial approval prediction
Yingzhou Lu, Tianyi Chen, Nan Hao, Capucine Van Rechem, Jintai Chen, and Tianfan Fu. 2024 · 2024
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TWIN-GPT: Digital Twins for Clinical Trials via Large Language Model
Yue Wang, Yingzhou Lu, Yinlong Xu, Zihan Ma, Hongxia Xu, Bang Du, Honghao Gao, and Jian Wu. 2024 · 2024
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TrialDura: Hierarchical Attention Transformer for Interpretable Clinical Trial Duration Prediction
Ling Yue, Jonathan Li, Md Zabirul Islam, Bolun Xia, Tianfan Fu, and Jintai Chen. 2024a · 2024
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TrialEnroll: Predicting Clinical Trial Enrollment Success with Deep & Cross Network and Large Language Modelsn
Ling Yue, Sixue Xing, Jintai Chen, and Tianfan Fu. 2024b · 2024
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