Chenyu You
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Chenyu You
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Introduction
Chenyu You is an Assistant Professor of Data Science in the Department of Applied Mathematics & Statistics and Department of Computer Science at Stony Brook University. He is also affiliated with the CVLab, AI institute, and Institute for Advanced Computational Science. Previously, he received his Ph.D. in 2024 from Yale University under the advisement of James S. Duncan, his M.S. in 2019 from Stanford University under the advisement of Daniel Rubin, and his B.S. in 2017 from Rensselaer Polytechnic Institute under the advisement of Ge Wang, all in electrical engineering. He has also spent wonderful time at Facebook AI Research (FAIR), as well as Google Research.
Research
My group studies AI for health -- building machines that learn from biomedical data, reason about, interact with the clinical world, and drive meaningful impact on healthcare. Besides learning algorithms, we ask: how AI should represent knowledge across imaging, text, and multi-omics data; what principles ensure robustness, trustworthy, and clinical reliability; and how algorithmic advances can translate into real-world healthcare domains. Our research aims to answer these questions by advancing machine learning methods in close collaboration with biomedical and clinical science.
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Foundation: How do we build world foundation models that generalize across diverse clinical tasks?
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Reliability: How can we build complex AI systems that clinicians can trust and rely on?
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Access: How can we turn advances in AI into efficient, deployable tools that improve healthcare and advance scientific discovery?
Here is some information for prospective students and visitors.
News
[2025.10] One paper accepted at IEEE TMI (Impact Factor 9.8).
[2025.10] Thrilled to serve on the SUNY AI Symposium Planning Committee!
[2025.09] One paper accepted at NeurIPS 2025.
[2025.09] One paper accepted at RSNA 2025 (Oral).
[2025.09] Invited to serve as Area Chair CVPR 2026.
[2025.08] One paper accepted at EMNLP 2025.
[2025.07] Thrilled to receive the Excellence in Teaching Award for Spring 2025.
[2025.07] Congratulations to my Ph.D. student, Qin Ren, on winning the MICCAI 2025 NIH Registration Grant!
[2025.06] Our work Ouroboros on cycle-consistent rendering via diffusion models is accepted at ICCV 2025. [Code]
[2025.06] Our work OTSurv, leveraging Optimal Transport for survival analysis, is accepted at MICCAI 2025. [Code]
[2025.06] Our paper “Uncovering Memorization Effect in the Presence of Spurious Correlations” has been formally accepted by Nature Communications. [Code]
[2025.05] One paper accepted at ACL 2025.
[2025.05] Our work CSR, a state-of-the-art shortening embedding models (image/text/multimodal) with sparse coding, is accepted at ICML 2025 (Oral, Top ~1%). [ Code | Hugging Face Blog ]
[2025.04] Invited to serve as Area Chair NeurIPS 2025.
[2025.04] One paper accepted at AIME 2025.
[2025.04] One paper accepted at EMBC 2025 (Oral, Top Paper Award).
[2025.03] One paper accepted at ACM TKDD.
[2025.03] Our work UniHGKR, a universal retrieval-augmented generation framework, is accept at NAACL 2025 (Oral). [Code]
[2025.02] Invited to serve as Area Chair EMNLP 2025.
[2025.02] Invited to serve as Area Chair COLM 2025.
[2025.02] Invited as panel speaker at the AAAI Bridge: AI for Medicine and Healthcare.
[2025.02] Invited to serve on scientific committee for the 11th Workshop on Medical Computer Vision at CVPR 2025.
[2025.01] One paper accepted at Nature Reviews Bioengineering.
[2025.01] Invited to serve as Area Chair MICCAI 2025!
[2025.01] Thrilled to serve as Guest Associate Editor for IEEE Transactions on Medical Imaging!
[2024.12] One paper accepted at MedIA (Impact Factor 10.9).
[2024.12] One paper accepted at IEEE TMI (Impact Factor 8.9).
[2024.10] One paper accepted at Computerized Medical Imaging and Graphics.
[2024.10] Thrilled to be recognized as IEEE Transactions on Medical Imaging (TMI) Platinum Distinguished Reviewer (Highest award).
[2024.10] One paper accepted at MedIA (Impact Factor 10.9).
[2024.09] World’s Top 2% Scientists by Stanford University.
[2024.09] Our paper “Mine yOur owN Anatomy: Revisiting Medical Image Segmentation with Extremely Limited Labels” has been formally accepted by IEEE Transactions on Pattern Analysis and Machine Intelligence (IEEE-TPAMI) (Impact Factor 20.8). [Code]
[2024.07] One paper accepted at BMVC 2024 (Oral).
[2024.06] Our paper “Medical image registration via neural fields” accepted by Medical Image Analysis (MedIA) (Impact Factor 10.9). Congrats to Shanlin, and all collaborators!
[2024.06] One paper accepted at MICCAI 2024.
[2024.04] One paper accepted at UAI 2024.
[2024.04] Privileged to be elected into Sigma Xi!
[2024.03] Thrilled to serve as Area Chair MICCAI 2024!
[2024.02] Our paper “Calibrating Multi-modal Representations: A Pursuit of Group Robustness without Annotations” has been accepted at CVPR 2024. [Code]
[2024.02] One paper accepted at CVPR 2024.
[2024.01] One paper accepted at ICLR 2024.
[2024.01] Thrilled to be recognized as WACV 2024 Outstanding Reviewer.
[2024.01] One paper accepted at Imaging Neuroscience.
[2023.12] One paper accepted at IEEE SaTML 2023.
[2023.11] Our paper “Segment Anything in Medical Images” has been formally accepted by Nature Communications. [Code]
[2023.10] Two papers accepted at WACV 2024.
[2023.10] One paper accepted at IEEE BIBM 2023.
[2023.10] Thrilled to be recognized as IEEE Transactions on Medical Imaging (TMI) Platinum Distinguished Reviewer.
[2023.09] Our paper “Rethinking Semi-Supervised Medical Image Segmentation: A Variance-Reduction Perspective” has been accepted at NeurIPS 2023! [Code]
[2023.09] Two papers accepted at NeurIPS 2023!
[2023.09] One paper accepted at npj Digital Medicine (Impact Factor 15.357).
[2023.09] One paper accepted at Physics in Medicine and Biology.
[2023.07] One paper accepted at MICCAI-MLCN 2023.
[2023.06] Four papers accepted at IEEE NSS-MIC-RTSD 2023 (1 Oral).
[2023.06] Six papers accepted at MICCAI 2023.
[2023.05] One paper accepted at Investigative Radiology (Impact Factor: 10.065).
[2023.05] Three papers early accepted at MICCAI 2023!
[2023.05] Two papers accepted at ACL 2023.
[2023.02] Our paper “Bootstrapping Semi-supervised Medical Image Segmentation with Anatomical-aware Contrastive Distillation” has been accepted at IPMI 2023. [Code]
[2023.02] One paper accepted at IPMI 2023.
[2023.01] One paper accepted at Medical Physics.
[2022.10] One paper accepted at WACV 2023.
[2022.09] Our paper “Class-Aware Adversarial Transformers for Medical Image Segmentation” has been accepted at NeurIPS 2022!
[2022.09] Two papers accepted at NeurIPS 2022!
[2022.08] Gave a talk at Meta AI Research (FAIR) Eastcoast Vision Group about Contrastive Learning.
[2022.08] Very honored to be recognized as IEEE Transactions on Medical Imaging (TMI) Platinum Distinguished Reviewer.
[2022.08] One paper accepted at WACV 2023.
[2022.07] One paper accepted at MICCAI-STACOM 2022.
[2022.07] One paper accepted at MICCAI-DeCaF 2022.
[2022.07] One paper accepted at MICCAI-DGM4MICCAI 2022.
[2022.06] Two papers accepted at MICCAI 2022.
[2022.05] One paper early accepted at MICCAI 2022!
[2022.04] One paper accepted at NAACL 2022.
[2022.03] Our paper “SimCVD: Simple Contrastive Voxel-Wise Representation Distillation for Semi-Supervised Medical Image Segmentation” has been formally accepted by IEEE Transactions on Medical Imaging (IEEE-TMI) (Impact Factor: 10.048).
[2022.03] I will be interning at Facebook AI Research (FAIR), New York, starting from June 2022.
[2022.03] One paper accepted at ICLR-PAIR2Struct 2022.
[2022.02] Very proud to be recognized as a Distinguished Referee for Medical Physics.
[2021.12] Awarded 2021 - 2022 Yale Fellowship.
[2021.12] One paper accepted at AAAI 2022.
[2021.11] One paper has been formally accepted by IEEE Transactions on Pattern Analysis and Machine Intelligence (IEEE-TPAMI) (Impact Factor 17.861).
[2021.10] One paper accepted at WACV 2022.
[2021.09] One paper accepted at NeurIPS 2021.
[2021.08] One paper accepted at EMNLP 2021.
[2021.06] Three papers accepted at Interspeech 2021.
[2021.05] Glad to be recognized as CVPR 2021 outstanding reviewer.
[2021.04] One paper accepted at IJCAI 2021 (Acceptance Rate: 13.9%).
[2021.03] Very proud to be recognized as Medical Physics Journal Distinguished Reviewer.
[2021.02] Very honored to be recognized as IEEE Transactions on Medical Imaging (TMI) Distinguished Reviewer.
[2021.01] Two papers accepted at IEEE-ICASSP 2021.
[2021.01] One paper accepted at ICLR 2021 (Spotlight).
[2020.11] Awarded 2020 - 2021 Yale Fellowship.
[2020.10] Proud to be an Outstanding Reviewer for MICCAI 2020.
[2020.09] We have released all the training/testing Code and pretrained models for NuSeT, a high quality Tool box for Cell Segmentation and Analysis.
[2020.08] One paper accepted at MICCAI-MIL3ID 2020.
[2020.07] One paper accepted at PLOS Computational Biology.
[2019.10] Awarded 2019 - 2020 Yale Fellowship.
[2019.09] Three full papers accepted at Proceedings of SPIE.
[2019.06] Our paper “Recovery of Latent Vectors and Exploration of Latent Space from StyleGAN” received the Stanford CS230 Final Project Prize, mentored by Prof. Andrew Ng.
[2019.06] Our paper “CT Super-resolution GAN Constrained by the Identical, Residual, and Cycle Learning Ensemble(GAN-CIRCLE)” has been formally accepted by IEEE Transactions on Medical Imaging (IEEE-TMI) (Impact Factor: 10.048). [Code]
[2019.01] One papers accepted at Medical Physics.
Contact
Email: chenyu.you [AT] stonybrook [DOT] edu
Address: Physics A-148, Stony Brook, NY 11794