3D Image Processing of Optical and Ultrasound Imaging Data
Jan Christoph, Professor
UC San Francisco
Applications for Spring 2025 are closed for this project.
Our group develops computational and experimental methods for the imaging of intact, isolated hearts ex vivo. We produce 3D imaging data using fluorescence and ultrasound imaging, see https://arxiv.org/abs/2307.07943, and we combine this data to obtain high-resolution visualizations of beating hearts and heart rhythm disorders.
Role: The goal of this project is to assist in the development of 3D image processing methods, which help visualize and validate the measurements and combine and further integrate the data into 3D models of the heart. The student will curate and analyze imaging data acquired in our laboratory and validate the robustness and accuracy of the techniques.
Qualifications: Applicants should have a passion for working with 3D imaging data and performing 3D image processing. Applicants should have a background in electrical engineering, computer science, bioengineering, mechanical engineering, biology, or physics or a related field. Experience with at least one programming language (e.g. Python, Matlab, C/C++, etc.) is required, and experience with 3D image processing and image processing libraries (e.g. Open3D) is desired. At least 12 hours are typically needed to make significant progress and students who can devote at least 12 hours will be given preference.
Day-to-day supervisor for this project: Jan Christoph
Hours: 12 or more hours
Off-Campus Research Site: The work will be performed at our institute, the Cardiovascular Research Institute on UCSF's Mission Bay Campus on 1-2 days a week. With increasing experience and independence (4+ months), the student may also work from home. It is required to participate in a 1-2h long lab meeting every 2 weeks on Thursdays between 4-6pm, join work-related discussions on Discord, as well as regular 1-on-1 meetings once per week to discuss the student's progress in person or on Zoom. Please state your availability (which weekdays work best for you) when applying.
Engineering, Design & Technologies Biological & Health Sciences Mathematical and Physical Sciences