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 Transactions on Computing for Healthcare (HEALTH) 3 (1), 1-23, 2021 | 2129 | 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, 1-8, 2024 | 180 | 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 | 122 | 2023 |
Kola: Carefully benchmarking world knowledge of large language models J Yu, X Wang, S Tu, S Cao, D Zhang-Li, X Lv, H Peng, Z Yao, X Zhang, ... arXiv preprint arXiv:2306.09296, 2023 | 117 | 2023 |
Universalner: Targeted distillation from large language models for open named entity recognition W Zhou, S Zhang, Y Gu, M Chen, H Poon ICLR, 2024 | 111 | 2024 |
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 Journal of the American Medical Informatics Association 27 (1), 56-64, 2020 | 70 | 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 Journal of the American Medical Informatics Association 26 (11), 1218-1226, 2019 | 61 | 2019 |
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 | 39 | 2017 |
Domain-specific language model pretraining for biomedical natural language processing. arXiv Y Gu, R Tinn, H Cheng, M Lucas, N Usuyama, X Liu, T Naumann, J Gao, ... preprint, 2020 | 28 | 2020 |
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 | 26 | 2023 |
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 | 25 | 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, ... CoRR, 2024 | 18 | 2024 |
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 | 17* | 2023 |
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 | 16 | 2023 |
Clinical concept normalization with a hybrid natural language processing system combining multilevel matching and machine learning ranking L Chen, W Fu, Y Gu, Z Sun, H Li, E Li, L Jiang, Y Gao, Y Huang Journal of the American Medical Informatics Association 27 (10), 1576-1584, 2020 | 14 | 2020 |
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 | 14 | |
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 | 11 | 2024 |
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 | 10 | 2024 |
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 | 9 | 2024 |
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 | 3 | 2024 |