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Foundation Models (FMs) trained on Electronic Health Records (EHRs) have achieved state-of-the-art results on numerous clinical prediction tasks.
Electronic health records
Edward P Ambinder · 2005
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Language models are few-shot learners, 2020
Tom B. Brown, Benjamin Mann, Nick Ryder, Melanie Subbiah, Jared Kaplan, Prafulla Dhariwal, Arvind Neelakantan, Pranav Shyam, Girish Sastry, Amanda Askell, Sandhini Agarwal, Ariel Herbert-Voss, Gretchen Krueger, Tom Henighan, Rewon Child, Aditya Ramesh, Daniel M. Ziegler, Jeffrey Wu, Clemens Winter, Christopher Hesse, Mark Chen, Eric Sigler, Mateusz Litwin, Scott Gray, Benjamin Chess, Jack Clark, Christopher Berner, Sam McCandlish, Alec Radford, Ilya Sutskever, and Dario Amodei · 2005
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Rethinking attention with performers, 2022
Krzysztof Choromanski, Valerii Likhosherstov, David Dohan, Xingyou Song, Andreea Gane, Tamas Sarlos, Peter Hawkins, Jared Davis, Afroz Mohiuddin, Lukasz Kaiser, David Belanger, Lucy Colwell, and Adrian Weller · 2009
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Prevalence of copied information by attendings and residents in critical care progress notes
J Daryl Thornton, Jesse D Schold, Lokesh Venkateshaiah, and Bradley Lander · 2013
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Identifying and mitigating biases in ehr laboratory tests
Rimma Pivovarov, David J Albers, Jorge L Sepulveda, and Noémie Elhadad · 2014
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Copy, paste, and cloned notes in electronic health records
Justin M Weis and Paul C Levy · 2014
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Aging and multimorbidity: new tasks, priorities, and frontiers for integrated gerontological and clinical research
Elisa Fabbri, Marco Zoli, Marta Gonzalez-Freire, Marcel E Salive, Stephanie A Studenski, and Luigi Ferrucci · 2015
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Pointer sentinel mixture models, 2016
Stephen Merity, Caiming Xiong, James Bradbury, and Richard Socher · 2016
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Attention is all you need, 2017
Ashish Vaswani, Noam Shazeer, Niki Parmar, Jakob Uszkoreit, Llion Jones, Aidan N. Gomez, Lukasz Kaiser, and Illia Polosukhin · 2017
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Recurrent neural networks for multivariate time series with missing values
Zhengping Che, Sanjay Purushotham, Kyunghyun Cho, David Sontag, and Yan Liu · 2018
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Bert: Pre-training of deep bidirectional transformers for language understanding, 2019
Jacob Devlin, Ming-Wei Chang, Kenton Lee, and Kristina Toutanova · 2019
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Scaling laws for neural language models
Jared Kaplan, Sam McCandlish, Tom Henighan, Tom B Brown, Benjamin Chess, Rewon Child, Scott Gray, Alec Radford, Jeffrey Wu, and Dario Amodei · 2020
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Transformers are rnns: Fast autoregressive transformers with linear attention
Angelos Katharopoulos, Apoorv Vyas, Nikolaos Pappas, and François Fleuret · 2020
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Behrt: transformer for electronic health records
Yikuan Li, Shishir Rao, José Roberto Ayala Solares, Abdelaali Hassaine, Rema Ramakrishnan, Dexter Canoy, Yajie Zhu, Kazem Rahimi, and Gholamreza Salimi-Khorshidi · 2020
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Efficient transformers: A survey.(2020)
Yi Tay, Mostafa Dehghani, Dara Bahri, and Donald Metzler · 2020
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On the opportunities and risks of foundation models
Rishi Bommasani, Drew A. Hudson, Ehsan Adeli, Russ B. Altman, Simran Arora, Sydney von Arx, Michael S. Bernstein, Jeannette Bohg, Antoine Bosselut, Emma Brunskill, Erik Brynjolfsson, Shyamal Buch, Dallas Card, Rodrigo Castellon, Niladri S. Chatterji, Annie S. Chen, Kathleen Creel, Jared Quincy Davis, Dorottya Demszky, Chris Donahue, Moussa Doumbouya, Esin Durmus, Stefano Ermon, John Etchemendy, Kawin Ethayarajh, Li Fei-Fei, Chelsea Finn, Trevor Gale, Lauren Gillespie, Karan Goel, Noah D. Goodman, Shelby Grossman, Neel Guha, Tatsunori Hashimoto, Peter Henderson, John Hewitt, Daniel E. Ho, Jenny Hong, Kyle Hsu, Jing Huang, Thomas Icard, Saahil Jain, Dan Jurafsky, Pratyusha Kalluri, Siddharth Karamcheti, Geoff Keeling, Fereshte Khani, Omar Khattab, Pang Wei Koh, Mark S. Krass, Ranjay Krishna, Rohith Kuditipudi, and et al · 2021
Earlier work this paper cites.
Chao Pang, Xinzhuo Jiang, Krishna S Kalluri, Matthew Spotnitz, RuiJun Chen, Adler Perotte, and Karthik Natarajan · 2021
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Med-bert: pretrained contextualized embeddings on large-scale structured electronic health records for disease prediction
Laila Rasmy, Yang Xiang, Ziqian Xie, Cui Tao, and Degui Zhi · 2021
Cited alongside, same era.
The book of ohdsi, Jan 2021
Observational Health Data Sciences and Informatics · 2021
Cited alongside, same era.
Language models are an effective representation learning technique for electronic health record data
Ethan Steinberg, Ken Jung, Jason A Fries, Conor K Corbin, Stephen R Pfohl, and Nigam H Shah · 2021
Cited alongside, same era.
Emerge: Integrating rag for improved multimodal ehr predictive modeling
Yinghao Zhu, Changyu Ren, Zixiang Wang, Xiaochen Zheng, Shiyun Xie, Junlan Feng, Xi Zhu, Zhoujun Li, Liantao Ma, and Chengwei Pan · 2021
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It’s raw! audio generation with state-space models
Karan Goel, Albert Gu, Chris Donahue, and Christopher Ré · 2022
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Simple linear attention language models balance the recall-throughput tradeoff
Simran Arora, Sabri Eyuboglu, Michael Zhang, Aman Timalsina, Silas Alberti, Dylan Zinsley, James Zou, Atri Rudra, and Christopher Ré · 2024
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Aurora: A foundation model of the atmosphere
Cristian Bodnar, Wessel P Bruinsma, Ana Lucic, Megan Stanley, Johannes Brandstetter, Patrick Garvan, Maik Riechert, Jonathan Weyn, Haiyu Dong, Anna Vaughan, et al · 2024
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Time and note characteristic effects of an electronic health record template for internal medicine resident notes
Madison B Calder, Matt Hanson, Melissa Jost, and Kristen D Kelley · 2024
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Toto: Time series optimized transformer for observability
Ben Cohen, Emaad Khwaja, Kan Wang, Charles Masson, Elise Ramé, Youssef Doubli, and Othmane Abou-Amal · 2024
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Albert Gu, Karan Goel, and Christopher Ré · 2022
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Train short, test long: Attention with linear biases enables input length extrapolation, 2022
Ofir Press, Noah A. Smith, and Mike Lewis · 2022
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Integrated multimodal artificial intelligence framework for healthcare applications
Luis R Soenksen, Yu Ma, Cynthia Zeng, Leonard Boussioux, Kimberly Villalobos Carballo, Liangyuan Na, Holly M Wiberg, Michael L Li, Ignacio Fuentes, and Dimitris Bertsimas · 2022
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Extending context window of large language models via positional interpolation, 2023
Shouyuan Chen, Sherman Wong, Liangjian Chen, and Yuandong Tian · 2023
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Genhpf: General healthcare predictive framework for multi-task multi-source learning
Kyunghoon Hur, Jungwoo Oh, Junu Kim, Jiyoun Kim, Min Jae Lee, Eunbyeol Cho, Seong-Eun Moon, Young-Hak Kim, Louis Atallah, and Edward Choi · 2023
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General-purpose retrieval-enhanced medical prediction model using near-infinite history
Junu Kim, Chaeeun Shim, Bosco Seong Kyu Yang, Chami Im, Sung Yoon Lim, Han-Gil Jeong, and Edward Choi · 2023
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Event stream gpt: a data pre-processing and modeling library for generative, pre-trained transformers over continuous-time sequences of complex events
Matthew McDermott, Bret Nestor, Peniel Argaw, and Isaac S Kohane · 2023
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Soham De, Samuel L Smith, Anushan Fernando, Aleksandar Botev, George Cristian-Muraru, Albert Gu, Ruba Haroun, Leonard Berrada, Yutian Chen, Srivatsan Srinivasan, et al · 2024
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Ehrmamba: Towards generalizable and scalable foundation models for electronic health records
Adibvafa Fallahpour, Mahshid Alinoori, Arash Afkanpour, and Amrit Krishnan · 2024
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Mamba: Linear-time sequence modeling with selective state spaces, 2024
Albert Gu and Tri Dao · 2024
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Foresight—a generative pretrained transformer for modelling of patient timelines using electronic health records: a retrospective modelling study
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Jamba: A hybrid transformer-mamba language model
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Sequence modeling and design from molecular to genome scale with evo
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Cehr-gpt: Generating electronic health records with chronological patient timelines, 2024
Chao Pang, Xinzhuo Jiang, Nishanth Parameshwar Pavinkurve, Krishna S. Kalluri, Elise L. Minto, Jason Patterson, Linying Zhang, George Hripcsak, Gamze Gürsoy, Noémie Elhadad, and Karthik Natarajan · 2024
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Zero shot health trajectory prediction using transformer
Pawel Renc, Yugang Jia, Anthony E Samir, Jaroslaw Was, Quanzheng Li, David W Bates, and Arkadiusz Sitek · 2024
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The llama 3 herd of models, 2024
Llama Team · 2024
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State space model for new-generation network alternative to transformers: A survey
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Rankmamba: Benchmarking mamba’s document ranking performance in the era of transformers, 2024
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