| Domain-specific language model pretraining for biomedical natural language processing Y Gu, R Tinn, H Cheng, M Lucas, N Usuyama, X Liu, T Naumann, J Gao, ... ACM (2022 best paper of the year) 3 (1), 1-23, 2021 | 3311 | 2021 |
| A whole-slide foundation model for digital pathology from real-world data H Xu, N Usuyama, J Bagga, S Zhang, R Rao, T Naumann, C Wong, ... Nature 630 (8015), 181-188, 2024 | 876 | 2024 |
| Universalner: Targeted distillation from large language models for open named entity recognition W Zhou, S Zhang, Y Gu, M Chen, H Poon ICLR 2024, 2024 | 258 | 2024 |
| Fine-tuning large neural language models for biomedical natural language processing R Tinn, H Cheng, Y Gu, N Usuyama, X Liu, T Naumann, J Gao, H Poon Cell Press Patterns 4 (4), 2023 | 227 | 2023 |
| A foundation model for joint segmentation, detection and recognition of biomedical objects across nine modalities T Zhao, Y Gu, J Yang, N Usuyama, HH Lee, S Kiblawi, T Naumann, J Gao, ... Nature methods, 1-11, 2024 | 120 | 2024 |
| Magma: A foundation model for multimodal ai agents J Yang, R Tan, Q Wu, R Zheng, B Peng, Y Liang, Y Gu, M Cai, S Ye, ... CVPR 2025, 2025 | 119 | 2025 |
| Extracting medications and associated adverse drug events using a natural language processing system combining knowledge base and deep learning L Chen*, Y Gu*, X Ji, Z Sun, H Li, Y Gao, Y Huang JAMIA 27 (1), 56-64, 2020 | 88 | 2020 |
| Clinical trial cohort selection based on multi-level rule-based natural language processing system L Chen*, Y Gu*, X Ji, C Lou, Z Sun, H Li, Y Gao, Y Huang JAMIA 26 (11), 1218-1226, 2019 | 68 | 2019 |
| Foundation Models for Biomedical Image Segmentation: A Survey HH Lee, Y Gu, T Zhao, Y Xu, J Yang, N Usuyama, C Wong, M Wei, ... arXiv preprint arXiv:2401.07654, 2024 | 60 | 2024 |
| Scaling clinical trial matching using large language models: a case study in oncology C Wong, S Zhang, Y Gu, C Moung, J Abel, N Usuyama, R Weerasinghe, ... Machine Learning for Healthcare Conference, 846-862, 2023 | 57 | 2023 |
| Biomedparse: a biomedical foundation model for image parsing of everything everywhere all at once T Zhao, Y Gu, J Yang, N Usuyama, HH Lee, T Naumann, J Gao, ... arXiv preprint arXiv:2405.12971, 2024 | 55 | 2024 |
| A clinically accessible small multimodal radiology model and evaluation metric for chest X-ray findings JM Zambrano Chaves, SC Huang, Y Xu, H Xu, N Usuyama, S Zhang, ... Nature Communications 16 (1), 3108, 2025 | 54 | 2025 |
| Distilling large language models for biomedical knowledge extraction: A case study on adverse drug events Y Gu, S Zhang, N Usuyama, Y Woldesenbet, C Wong, P Sanapathi, ... arXiv preprint arXiv:2307.06439, 2023 | 53 | 2023 |
| Medimageinsight: An open-source embedding model for general domain medical imaging NCF Codella, Y Jin, S Jain, Y Gu, HH Lee, AB Abacha, ... arXiv preprint arXiv:2410.06542, 2024 | 43 | 2024 |
| Towards a clinically accessible radiology foundation model: open-access and lightweight, with automated evaluation JMZ Chaves, SC Huang, Y Xu, H Xu, N Usuyama, S Zhang, F Wang, ... arXiv preprint arXiv:2403.08002, 2024 | 41 | 2024 |
| Biomedjourney: Counterfactual biomedical image generation by instruction-learning from multimodal patient journeys Y Gu, J Yang, N Usuyama, C Li, S Zhang, MP Lungren, J Gao, H Poon arXiv preprint arXiv:2310.10765, 2023 | 40 | 2023 |
| Symptom severity classification with gradient tree boosting Y Liu, Y Gu, JC Nguyen, H Li, J Zhang, Y Gao, Y Huang Journal of biomedical informatics 75, S105-S111, 2017 | 38 | 2017 |
| Toward structuring real-world data: Deep learning for extracting oncology information from clinical text with patient-level supervision S Preston, M Wei, R Rao, R Tinn, N Usuyama, M Lucas, Y Gu, ... Cell Press Patterns 4 (4), 2023 | 31* | 2023 |
| Training small multimodal models to bridge biomedical competency gap: A case study in radiology imaging JMZ Chaves, SC Huang, Y Xu, H Xu, N Usuyama, S Zhang, F Wang, ... arXiv preprint arXiv:2403.08002, 2024 | 29* | 2024 |
| Domain-specific language model pretraining for biomedical natural language processing, 2020. arXiv Y Gu, R Tinn, H Cheng, M Lucas, N Usuyama, X Liu, T Naumann, J Gao, ... arXiv preprint arXiv:2007.15779, 0 | 25 | |
Hoifung PoonGeneral Manager, Microsoft ResearchVerified email at microsoft.com
