Stanford University
Showing 1-55 of 55 Results
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Sijie Chen
Postdoctoral Scholar, Radiation Physics
BioI am a postdoctoral fellow working with Dr. Lei Xing at Stanford University, where I develop trustworthy autonomous AI agents and foundational informatics systems for single-cell biology. My long-term vision is to build auditable computational infrastructure and virtual cell models that transform massive single-cell atlases into reliable, steerable systems for mechanistic discovery across tissues, diseases, and species. My doctoral work with Prof. Xuegong Zhang established my foundation in single-cell bioinformatics and atlas-scale integration, which I have since extended into large-scale representation modeling, AI agent workflows, and LLM-driven scientific discovery. My current work focuses on developing governed, agentic lifecycles for continuous single-cell data curation and foundation model evaluation, while applying these autonomous systems to power cross-organ virtual cell retrieval and simulate immune-tolerance breakdown.
My ongoing efforts build directly upon my prior work in atlas integration and algorithmic development. As the first author of hECA (Chen et al., 2022), I built a unified human cell atlas integrating one million high-quality cells across 38 organs with a logic-expression query interface. This experience exposed the central bottlenecks—such as heterogeneous formats and ontology grounding—that I now address using LLM-powered agents to enable autonomous metadata harmonization and iterative quality control. I am converting manual curation into an autonomous, agent-driven paradigm where new datasets are continuously ingested and versioned in a traceable manner. Furthermore, my co-development of TorchGW for cell state alignment, TFcomb for perturbation prediction, and TransMap for cross-species alignment provides the algorithmic foundation for next-generation cell foundation models and virtual cell simulation.
By integrating these components into trustworthy, benchmarked, and human-in-the-loop AI infrastructure, my research bridges scalable scientific computing with complex biomedical questions. Through close collaboration with Prof. Edgar Engleman, I am utilizing immune-tolerance breakdown—specifically focusing on a tolerogenic dendritic cell program—as a mechanistic testbed to validate our virtual cell simulations. A core focus of my work is ensuring that every agent-generated hypothesis and retrieved state remains bound to the exact data and model checkpoints that produced it, making findings fully re-derivable as the biological knowledge base evolves. Ultimately, I aim to advance the frontier of trustworthy autonomous single-cell informatics, bridging AI agents, virtual cell engineering, and biological discovery. -
Wenting Chen
Postdoctoral Scholar, Radiation Physics
BioI am currently a Postdoc Fellow in the Department of Radiation Oncology of Stanford University, advised by Prof. Lei Xing. Before joining Stanford, I obtained my Ph.D degree in the Department of Electrical Engineering, City University of Hong Kong, supervised by Prof. Yixuan YUAN, Prof. W.S Tommy Chow, and Prof. L.H. Leanne Chan. I visited Massachusetts General Hospital and Harvard Medical School, supervised by Prof. Xiang Li and Prof. Quanzheng Li. Before that, I received the B. Eng and M. Eng degree from College of Computer Science and Software Engineering in Shenzhen University of China in 2017 and 2020, supervised by Prof. Linlin Shen. From Dec. 2019 to Nov. 2020, I had interned in Tencent Jarvis Lab, supervised by Dr. Shuang Yu and Prof. Yefeng Zheng.
My research interests lie in vision-language model, multi-modal large language model, generative AI, computer vision and their applications on medical AI, with a focus on report generation, medical image synthesis, endoscopy super-resolution, retinal image segmentation, multi-modality diagnosis, etc. -
Cynthia Chuang
Clinical Professor, Radiation Oncology - Radiation Physics
BioEducation:
1990-B.S., Bioelectrical Engineering (6-1B), Massachusetts Institute of Technology, Cambridge, MA
1992-M.S., Bioengineering, University of Pennsylvania, Philadelphia, PA
1994-M.S., Nuclear Engineering (NMR Spectroscopy), Massachusetts Institute of Technology, Cambridge, MA
1999-Ph.D., Nuclear Engineering (Boron Neutron Capture Therapy), Massachusetts Institute of Technology, Cambridge, MA
2001-Postdoctoral Fellowship (Peregrine Project), Lawrence Livermore National Laboratory
2003-Medical Physics Residency, University of California, San Francisco (joint 3.5-year postdoctoral and residency program)
Academic Appointments:
2003 - 2005-Clinical Instructor, Radiation Oncology, University of California, San Francisco, San Francisco, California
2005 - 2009-Assistant Adjunct Professor, Radiation Oncology, University of California, San Francisco, San Francisco, California
2009 - 2013-Assistant Professor In Residence, Radiation Oncology, University of California, San Francisco, San Francisco, California
2013 - 2017-Associate Professor In Residence, Radiation Oncology, University of California, San Francisco, San Francisco, California
2017 - 2018-Associate Professor of Clinical Radiation Oncology, University of California, San Francisco, San Francisco, California
2019 - 2023-Clinical Associate Professor, Department of Radiation Oncology, Clinical Educator Line, Stanford University, Stanford, CA
2023- Present-Clinical Professor, Department of Radiation Oncology, Clinical Educator Line, Stanford University, Stanford, CA -
Xianjin Dai, PhD, DABR
Assistant Professor of Radiation Oncology (Radiation Physics)
Current Research and Scholarly InterestsIntelligent Image-guided intervention
AI in Medicine
Medical Image Analysis
Biomedical Physics
Multimodal Imaging
Ultrasound Imaging
Medical Device
Biomedical Optics (Optical, Photoacoustic, OCT) -
Piotr Dubrowski
Clinical Instructor, Radiation Oncology - Radiation Physics
BioPiotr Dubrowski is a Canadian trained and board-certified Therapy Medical Physicist. Throughout his career Piotr has had the opportunity to bring several new Cancer Clinics operational from the ground up, where he was able to hone a broad, systems-approach to Radiation Oncology. He was recently promoted to Associate Quality Director of Physics responsible for improving patient safety and workflow/technology improvements across a wide cancer care network. Piotr’s research interests focus mainly on improving the treatment planning process and increasing clinic safety through software development and hardware 3D-print prototyping. Additionally, Piotr has sought out opportunities to give back to the Global community with participation in the Stanford Global Radiation Oncology Outreach efforts expanding education and access to care in Tanzania and Kenya and throughout the developing world via online Radiation Therapy courses.
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Edward Graves
Professor of Radiation Oncology (Radiation Physics), and by courtesy, of Radiology
Current Research and Scholarly InterestsApplications of molecular imaging in radiation therapy, small animal image-guided conformal radiotherapy, immune responses to radiation, immunotherapy and radiotherapy combinations, image processing and analysis.
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Xuejun Gu
Associate Professor of Radiation Oncology (Medical Physics)
Current Research and Scholarly InterestsArtificial intelligence in medicine
Medical imaging and image anlysis
Treatment planning and clinical decision-making
FLASH radiobiology study ; -
Bin Han
Clinical Professor, Radiation Oncology - Radiation Physics
Current Research and Scholarly InterestsDevelopment of an advanced EPID-based dosimetric solution
Ultrasound system for image guided prostate cancer treatment,
Depth sensing and 3D-printing techniques for total body irradiation
AI applications in predicting treatment effectiveness and cancer recurrence -
Dimitre Hristov
Associate Professor of Radiation Oncology (Radiation Physics), Emeritus
Current Research and Scholarly InterestsDevelopment and integration of X-ray, MRI and US imaging technologies for radiation therapy guidance; Design of synergistic approaches to radiation therapy delivery; Treatment planning optimization and modeling.
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Tauhid Islam
Assistant Professor of Radiation Oncology (Radiation Physics)
Current Research and Scholarly InterestsMy research focuses on developing computationally efficient and clinically reliable AI methods for biomedical imaging and high-dimensional molecular data, with an emphasis on cancer and neurological disease. The Islam Lab designs novel representations and learning frameworks that improve deep learning performance in data-constrained biomedical settings, including methods that transform tabular omics data into spatially meaningful representations.
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Nataliya Kovalchuk
Clinical Professor, Radiation Oncology - Radiation Physics
BioNataliya Kovalchuk is a Clinical Professor at Stanford Radiation Oncology department and an Adjunct Professor at MD Anderson Cancer Center. She completed her residency at Mayo Clinic and worked at Massachusetts General Hospital/Boston Medical Center/Harvard Medical School. Dr. Kovalchuk is one of the leaders in the clinical implementation of Biology-Guided Radiotherapy and auto-planning techniques for Total Body Irradiation (TBI), Total Marrow Lymphoid Irradiation (TMLI), and Cranio-Spinal Irradiation (CSI), with more than 200 publications and presentations. She serves on multiple committees at AAPM, ASTRO, NRG, COG, and volunteers for ABR as an examiner. She is also a physics chair for four NRG and COG clinical trials, physics lead for the NRG Head and Neck committee and the VMAT TBI workgroup. In recognition of her educational efforts, she has been honored with six teaching awards from ARRO, AAPM, Stanford, and Harvard. Since the full-scale russian invasion of Ukraine, Nataliya directed her efforts to helping Ukraine as a co-founder and president of Help Ukraine Group. Her dedication was recognized with the Richard Hoppe Leadership Award and the Parliament of Ukraine Certificate of Merit for the Service to the People of Ukraine.
Education:
2002 - B.S., Physics, Drohobych State University, Ukraine
2004 - M.S., Physics, Minnesota State University, Mankato, MN
2008 - Ph.D., Applied Physics, University of South Florida (H. Lee Moffitt Cancer Center and Research Institute), Tampa, FL
2010 - Medical Physics Residency, Mayo Clinic, Rochester, MN
Academic Appointments:
2010 - 2015 - Instructor, Harvard Medical School, Massachusetts General Hospital/Boston Medical Center, Department of Radiation Oncology, Boston, MA
2015 - 2019 - Clinical Assistant Professor, Stanford University, Department of Radiation Oncology, Stanford, CA
2019 - 2024 - Clinical Associate Professor, Stanford University, Department of Radiation Oncology, Stanford, CA
2019 - 2024 - Adjunct Associate Professor, MD Anderson Cancer Center/University of Texas, Houston, TX
2024 - present - Clinical Professor, Stanford University, Department of Radiation Oncology, Stanford, CA
2024 - present - Adjunct Professor, MD Anderson Cancer Center/University of Texas, Houston, TX -
Ruijiang Li
Associate Professor of Radiation Oncology (Radiation Physics)
Current Research and Scholarly InterestsMy lab's research is focused on the development of imaging and molecular biomarkers to improve cancer detection, diagnosis, prognostication, and prediction of therapy response. Our ultimate goal is to translate these biomarkers into clinical practice to guide optimal management and therapeutic decisions for precision cancer medicine.
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Zhongxiao Li
Postdoctoral Scholar, Radiation Physics
BioZhongxiao Li is a postdoctoral researcher in Professor Ruijiang Li's lab at Stanford Medicine. His research focuses on computational biology and bioinformatics, particularly the development of deep learning methods for computational pathology and spatial transcriptomics/proteomics. Previously, his work has included developing machine learning models for histopathological image analysis, understanding gene regulation, and analyzing biological sequences.
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Lianli Liu
Clinical Assistant Professor, Radiation Oncology - Radiation Physics
Current Research and Scholarly InterestsAI-driven medical imaging for accelerated imaging speed and improved image quality, including:
Accelerated imaging for in-treatment patient monitoring and post-treatment patient follow up;
Functional imaging for treatment response evaluation and prediction.
Optimizing clinical quality assurance workflow through AI, including:
Radiation beam data modeling for efficient commissioning;
Model-based error detection for accurate dosimetry. -
Xiangde Luo
Postdoctoral Scholar, Radiation Physics
BioXiangde Luo is a postdoctoral researcher in Professor Ruijiang Li’s lab at Stanford Medicine, where he specializes in computational pathology. His work centers on developing AI‑driven methods for imaging biomarker discovery and precision oncology. Previously, he has developed some deep learning models to enable annotation‑efficient learning and advance biomedical image analysis. For a comprehensive overview of my research, please visit my Google Scholar profile: https://scholar.google.com/citations?hl=en&user=dD4HLS4AAAAJ. If you’d like to learn more or discuss potential collaborations, please don’t hesitate to get in touch.
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Sakib Mostafa
Postdoctoral Scholar, Radiation Physics
BioI am a Postdoctoral Research Fellow at Stanford University with a background in computational genomics and deep learning. My research focuses on developing AI-powered tools for genomic analysis, with a particular interest in cancer classification, pangenomes, and genotype imputation. Previously, I worked as a Research Officer at the National Research Council of Canada, contributing to large-scale sequencing projects and machine learning interfaces for biologists. I am passionate about bridging domain biology with cutting-edge computational methods to solve complex biological questions and drive innovation in precision agriculture and healthcare.
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Rohollah Nasiri
Postdoctoral Scholar, Radiation Physics
Current Research and Scholarly InterestsMy current research focuses on developing tumor-on-a-chip models for preclinical radiation therapy research.
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Jinghong Penny Peng
Clinical Instructor, Radiation Oncology - Radiation Physics
Current Research and Scholarly Interests1. IMRT Treatment planning
2. IGRT Radiation Therapy
3. Real time prostate implant
4. 4D CT and Respiratory Gating Radiation Therapy
5. HDR for breast cancer and GYN cancer
6. Xoft Electronic Brachytherapy -
Guillem Pratx
Associate Professor of Radiation Oncology (Radiation Physics)
Current Research and Scholarly InterestsThe Physical Oncology Lab is interested in making a lasting impact on translational cancer research by building novel physical tools and methods.
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Lawrie Skinner
Clinical Associate Professor, Radiation Oncology - Radiation Physics
BioLawrie Skinner, PhD DABR is a therapeutic medical physicist with clinical expertise in external beam radiation therapy, including advanced motion management techniques and MRI-guided radiation therapy.
Research interests generally revolve around developing novel devices for advanced clinical practice. Examples include personalized 3D printed electron beam collimators, rotating couch overlays for total body radiation therapy, and radiotransparent audio visual communication and immersion displays.
Dr skinner also has a research background in synchrotron x-ray scattering, neutron scattering, molecular dynamics and Monte Carlo computational modelling. -
Gregory Arthur Szalkowski
Clinical Assistant Professor, Radiation Oncology - Radiation Physics
Current Research and Scholarly InterestsWorkflow automation, radiotherapy quality assurance, machine learning
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Lei Wang
Clinical Professor, Radiation Oncology - Radiation Physics
BioLei Wang, PHD, DABR, is a clinical professor in the Department of Radiation Oncology at Stanford, motivated in advancing patient quality of care, improving education for residents and trainees, and conducting clinical research to improve the quality and accuracy in treatment delivery. She is an expert in CyberKnife SRS/SBRT with more than 15 years of experiences. She currently serves as the chair of the AAPM task group 135.B committee on quality assurance for robotic radiosurgery.
Research interest: small field dosimety, machine and patient quality assurance, treatment planning, etc; new QA tool and methodology development; new treatment technology implementation to keeping high standard in patient care. -
Jinxi Xiang
Postdoctoral Scholar, Radiation Physics
Current Research and Scholarly InterestsI develop machine leanring methods to autonomate the digital pathology.
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Lei Xing
Jacob Haimson and Sarah S. Donaldson Professor and Professor, by courtesy, of Electrical Engineering
Current Research and Scholarly Interestsartificial intelligence in medicine, medical imaging, Image-guided intervention, molecular imaging, biology guided radiation therapy (BGRT), treatment plan optimization
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Zi Yang
Clinical Assistant Professor, Radiation Oncology - Radiation Physics
BioDr. Zi Yang is a Clinical Assistant Professor and an American Board of Radiology–certified medical physicist in the Department of Radiation Oncology at Stanford University. She completed her CAMPEP-accredited residency in Therapeutic Medical Physics at Stanford. Dr. Yang earned her M.S. in Medical Physics from Duke University and her Ph.D. in Biomedical Engineering - Medical Physics track from the University of Texas Southwestern Medical Center.
Her research focuses on the development and clinical translation of artificial intelligence methods to enhance radiation therapy, including applications in target segmentation, outcome prediction, and workflow optimization. She is a recipient of the American Association of Physicists in Medicine (AAPM) Research Seed Funding Grant. -
Hao Zhang
Clinical Assistant Professor, Radiation Oncology - Radiation Physics
Current Research and Scholarly InterestsFree-breathing gated CBCT acquisition on C-arm linear accelerator (LINAC) is time-consuming, typically requiring 2-8 min due to the repeated start-stop gantry motion synchronized with the respiratory gating signal. We propose a next-generation imaging paradigm, nonstop gated CBCT (ngCBCT), to substantially reduce acquisition time, lower imaging dose, and preserve image quality, thereby improving patient comfort and treatment accuracy.
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Kai Zhang
Postdoctoral Scholar, Radiation Physics
Current Research and Scholarly InterestsMy research develops AI systems for biomedicine, with a focus on multimodal learning, foundation models, and self-improving AI. I study how models can integrate medical images, clinical text, EHRs, and biomedical knowledge to support diagnosis, clinical workflows, and scientific discovery, while improving through feedback, evaluation, and human-AI interaction.
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Xiaoxu Zhong
Postdoctoral Scholar, Radiation Physics
BioI am a Postdoctoral Fellow in the Guillem Pratx Lab, with an expertise in predictive modeling, algorithm development, and data science. I earned my Bachelor of Science and Master of Science degrees in Ocean Engineering from Shanghai Jiao Tong University. I then received a Ph.D. in Mechanical Engineering from Purdue University, where I focused on developing mathematical models and applying machine learning. My work uncovered the mechanisms behind autoinjectors, drug delivery, and cavitation bubbles, with applications in tumor treatment and the design of medical devices. Currently, I am combining computational modeling and experimental approaches to positron emission tomography imaging, aiming to improve tumor diagnosis and treatment. I am also investigating how ionizing radiation nucleates nano-sized bubbles.
