Hui Lin

Assistant Professor In Residence, certified therapeutic medical physicist

Department of Radiation Oncology | UCSF

Core Faculty

Graduate Program in Bioengineering | UCSF-UC Berkeley

Core Faculty

Computational Precision Health PhD program | UC Berkeley-UCSF

I am an Assistant Professor at UCSF and an ABR board-certified therapeutic medical physicist. My lab focuses on building multi-modality AI that is reliable, clinically grounded, and mechanistically informative across oncology data to predict disease trajectories, optimize treatment planning, and guide targeted interventions. Highlighted work include: glioma foundation models that connect imaging, EHR and biomarkers to design personalized radiotherapy target volumes; directional phosphorylation networks with graph modeling to map signaling and therapeutic resistance of mCRC and DMG. I received a Ph.D. from Rensselaer Polytechnic Institute, completed residency at the University of Pennsylvania, and joined UCSF in 2021. I’m Core Faculty in the UC Berkeley–UCSF Bioengineering and Computational Precision Health programs, with support including NIH, DoD, foundation and intramural grants.

Hui Lin

News

10/1/25: Our glioma LLM study - A Clinically Aligned Embedding Model for Glioma Prognostication Via Radiology-Pathology Report Matching, led by Benedict Neo, was featured in the Cancer Breakthroughs Session at ASTRO 2025. Congrats Benedict!
7/28/25: Benedict Neo won 3rd place in AAPM 2025 John R. Cameron Early-Career Investigator Symposium - most of the premier awards in the field of Medical Physics, with our glioma LLM study - A Clinically Aligned Embedding Model for Glioma Prognostication Via Radiology-Pathology Report Matching. Congrats Benedict!!
4/25/25: Our GBM progression prediction study - Building a Cross-Modality Model to Integrate Bio-Clinical Features, Anatomical MRI, and White-Matter Pathlength Mapping for Personalized Glioblastoma RT Planning, led by Bo Liu, received AAPM 2025 Best in Physics Multi-Disciplinary award. Congrats Bo!
9/25/24: Hui received UCSF Brain Tumor SPORE Career Enhancement Program Award studying multi-modality AI-driven progression prediction for patients with GBM.

Selected Publications

2025

Large language model trained on clinical oncology data predicts cancer progression

Zhu M., Lin H., et al.

npj Digital Medicine (Nature Portfolio), 2025

2025

Novel radiotherapy target definition using AI‑driven predictions of glioblastoma recurrence from metabolic and diffusion MRI

Tran N., Luks T. L., Li Y., Braunstein S., Lin H., Lupo J. M., et al.

npj Digital Medicine (Nature Portfolio), 2025

2019

Towards real‑time respiratory motion prediction based on long short‑term memory neural networks

Lin H., Shi C., Wang B., Chan M. F., Tang X., Ji W.

Physics in Medicine & Biology, 2019

2024

Paired Conditional GAN for Highly Accelerated Liver 4D MRI (Re‑Con‑GAN)

Xu D., Miao X., Liu H., Scholey J. E., Yang W., Feng M., Ohliger M., Lin H., Lao Y., Yang Y., Sheng K.

Physics in Medicine & Biology, 2024

2024

Natural Language Processing for Radiation Oncology: Personalizing Treatment Pathways

Lin H., Ni L., Phuong C., Hong J. C.

Pharmacogenomics and Personalized Medicine, 2024

2025

Predicting Personalized Glioblastoma RT Planning from Multimodal Imaging and Clinical Data

Liu B., Lin H., et al.

AAPM Annual Meeting 2025 — Best in Physics (Multi‑Disciplinary)

2024

Dynamic Prompting for Clinically Aligned Patient Similarity Embeddings Improves Outcome Prediction in HGG

Anil S., Lin H., et al.

AAPM Annual Meeting 2024 — Best in Physics (Therapy)

Team

Current Members

Bo Liu, MS

Bo Liu

PhD Candidate

Research topics: Multi-modality AI, Computer Vision, Glioblastoma

Jenna Fields, BS

Jenna Fields

PhD Student

Research topics: Physics-guided Deep Learning, Glioblastoma

Lukas Amare, MS

Lukas Amare

Research Analyst

Research topics: LLM, Graph Modeling, Phosphoproteomics

Kimberly Rivera Velez, MS

Kimberly Rivera Velez

Research Analyst

Research topics: Bioinformatics, Machine Learning, Phosphoproteomics

Mani Atwal

Mani Atwal

MS Student

Research interests: LLM, Glioma

Alex Amiri

Alex Amiri

MS Student

Research interests: LLM, Glioma

Andrew Lim

Andrew Lim

MS Student

Research interests: Graph Modeling, Phosphoproteomics

Andrew Lim

Andrew Lim

MS Student

Research interests: Graph Modeling, Phosphoproteomics

Alumni

Bhumika Srinivas (USF Data Science MS 2024) → Asurion/Data Scientist - Gen AI

Shreyas Anil (USF Data Science MS 2024) → Stealth AI/Data Scientist - Gen AI

Sanchita Jain (USF Data Science MS 2023) → Samsung/Data Scientist

Sanchita Jain (USF Data Science MS 2023) → Samsung/Data Scientist

Ruifeng Luo (USF Data Science MS 2022) → Capgemini/Machine Learning Engineer

Haotian Gong (USF Data Science MS 2022) → Ping An/Credit Risk Modeler

Teaching

Course Title (CS XXX)

Fall 2025 | Course Website

Brief description of the course content and objectives.

Another Course (CS YYY)

Spring 2025 | Course Website

Brief description of the course content and objectives.

Graduate Seminar (CS ZZZ)

Winter 2024 | Materials

Brief description of the seminar topics.

Contact

Office

1825 4th St, Suite Suite L-1101
UCSF
San Francisco, CA 94143

Email

hui[dot]lin[at]ucsf[dot]edu

Phone

(415)502-8152

Map location