Bioimage informatics is central to quantitatively apply standard bioimagery approaches to biological questions and enables utilization of rapidly evolving imaging technologies to their fullest. St. Jude has invested in an array of state-of-the-art imaging techniques to accelerate our core research directive. These new technologies produce increasingly large, multi-dimensional and difficult to analyze data sets. To meet this data challenge, St. Jude launched a new image analysis shared resource, the Center for Bioimage Informatics (CBI) Shared Resource, in July 2019 to support all post-acquisition efforts. Its goal is to enable, accelerate and improve image-based studies at St. Jude.
The CBI covers institute-wide image analysis activities and is available to all St. Jude researchers. It is operated by full-time staff with expertise in processing, registration, and segmentation of biological imagery, as well as machine learning, computer vision, image-based data quantification, and data visualization. Its efforts are supported by state-of-the-art image data management, high-performance computing, open-source, custom-developed and commercial image processing software, as well as active collaborations with St. Jude's microscopy and other units, and existing image analysis experts.
- assistance at the project planning stage, for studies that involve biological imagery.
- image data organization and management
- image processing (deconvolution, denoising, intensity correction, ...etc.)
- image registration
- image segmentation and object tracking
- image data visualization and quantification
- one-on-one consultations
- custom algorithm development
- regular training courses on:
- Basics of image processing (e.g., using Fiji and CellProfiler)
- Matlab/Python for image processing
- Quantitative approaches to image processing with case studies
- Bioimage analysis ethics and presentation.
In addition, the center supports a range of imaging technologies by developing and maintaining standard institutional data processing pipelines.