publications

2026

1. AISTATS 2026

   

   How different is my deep learning model from yours?

   Simon A Lee, Jiahang (Hank) Sha, and Jeffrey N Chiang

   Under Review at AISTATS, 2026
2. ICML 2026

   

   How we evaluate is more important than what we evaluate for foundation models

   Simon A Lee, John Lee, and Jeffrey N Chiang

   Under Review at ICML, 2026

2025

1. ICLR 2026

   

   HiMAE: Hierarchical Masked Autoencoders Discover Resolution-Specific Structure in Wearable Time Series

   Simon A. Lee, Cyrus Tanade, Hao Zhou, and 13 more authors

   Under Review at ICLR 2026, 2025

   PDF
2. NeurIPS Workshop

   

   Towards On-device Foundation Models for Raw Wearable Signals

   Simon A. Lee, Cyrus Tanade, Hao Zhou, and 5 more authors

   In NeurIPS 2025 Workshop on Learning from Time Series for Health, 2025

   PDF
3. NeurIPS Workshop

   

   Wavelet-Based Masked Multiscale Reconstruction for PPG Foundation Models

   Megha Thukral, Cyrus Tanade, Simon A. Lee, and 2 more authors

   In NeurIPS 2025 Workshop on Learning from Time Series for Health, 2025

   PDF
4. npj Digital Medicine

   

   Clinical decision support using pseudo-notes from multiple streams of EHR Data

   Simon A Lee, Sujay Jain, Alex Chen, and 4 more authors

   npj Digital Medicine, 2025

   PDF Code
5. ICML 2025 Spotlight

   

   Raptor: Scalable Train-Free Embeddings for 3D Medical Volumes Leveraging Pretrained 2D Foundation Models

   Ulzee An, Moonseong Jeong, Simon Austin Lee, and 3 more authors

   In Proceedings of the 42nd International Conference on Machine Learning (ICML), 2025

   PDF Code
6. SIGKDD 2025

   

   MEDS: Building Models and Tools in a Reproducible Health AI Ecosystem

   Matthew B. A. McDermott, Justin Xu, Teya S. Bergamaschi, and 11 more authors

   In Proceedings of the 31st ACM SIGKDD Conference on Knowledge Discovery and Data Mining V.2 (KDD ’25), 2025

   DOI Code
7. CHIL Conference 2025

   

   A Case Study Exploring the Current Landscape of Synthetic Medical Record Generation with Commercial LLMs

   Yihan Lin, Zhirong Bella Yu, and Simon Lee

   Conference on Health Inference and Learning (CHIL) 2025, 2025

   PDF
8. arXiv

   

   Clinical ModernBERT: An efficient and long context encoder for biomedical text

   Simon A Lee, Anthony Wu, and Jeffrey N Chiang

   arXiv preprint arXiv:2504.03964, 2025

   PDF Code
9. AAAI MedHealth

   

   Dk-behrt: Teaching language models international classification of disease (icd) codes using known disease descriptions

   Ulzee An, Simon A Lee, Moonseong Jeong, and 3 more authors

   In Proceedings of The First AAAI Bridge Program on AI for Medicine and Healthcare, 2025

   PDF Code
10. AAAI MedHealth

    

    Using Foundation Models to Prescribe Patients Proper Antibiotics

    Simon A. Lee, Helio Halperin, Yanai Halperin, and 2 more authors

    In Proceedings of The First AAAI Bridge Program on AI for Medicine and Healthcare, 2025

    PDF Code

2024

1. arXiv

   

   Emergency Department Decision Support using Clinical Pseudo-notes

   Simon A. Lee, Sujay Jain, Alex Chen, and 4 more authors

   2024

   PDF Code
2. ML4H Demo

   

   MEDS Decentralized, Extensible Validation (MEDS-DEV) Benchmark: Establishing Reproducibility and Comparability in ML for Health

   Matthew B.A. McDermott, Aleksia Kolo, Chao Pang, and 28 more authors

   In ML4H Demo Track, 2024

   PDF Code
3. NeurIPS Workshop

   

   FEET: A Framework for Evaluating Embedding Techniques

   Simon A Lee, John Lee, and Jeffrey N Chiang

   NeurIPS SFLLM Workshop, 2024

   PDF Code
4. ICML AI4Science

   

   Text Serialization and Their Relationship with the Conventional Paradigms of Tabular Machine Learning

   Kyoka Ono, and Simon A Lee

   International Conference for Machine Learning, AI4Science Workshop, 2024

   PDF
5. arXiv

   

   Do Large Language Models understand Medical Codes?

   Timothy Lindsey, and Simon A Lee

   arXiv preprint arXiv:2403.10822, 2024

   PDF