Imaging Informatics (BioE 594)
Imaging informatics is an emerging area from the intersection of biological science, medical practice, health care, computer algorithms, and information sciences. Naturally, it belongs to bioengineering, although it is developed and practiced in many other departments and hospitals, especially in the field of radiology.
Topics covered:
- Introduction to imaging and medical imaging
- General properties of medical imaging
- X-ray
- CT
- MRI
- Ultrasounds
- Basic imaging processing
- Image format: PACS and others
- Imaging storage and retrieval
- Imaging visualization
- Imaging interpretation
- Pattern recognition in imaging analysis
- Molecular imaging techniques
- Data analysis and process in molecular imaging
- Imaging genomics
- Integrating imaging with other medical and biological methods
Syllabus:
- Lecture 1: Introduction to medical imaging: X-Ray/ CT
- Lecture 2: Introduction to medical imaging: Ultrasound/Nuclear Medicine
- Lecture 3: Introduction to medical imaging: MRI
- Lecture 4: Image storage: PACS & DICOM
- Lecture 5: Digital Medical Image Fundamentals
- Lecture 6: Image Processing - Linear Operators
- Lecture 7: Image Processing - Non-Linear Operators
- Lecture 8: Feature Extraction
- Lecture 9: Scale Invariant Detection
- Lecture 10: Image Segmentation: Thresholding
- Lecture 11: Image Segmentation: Region Growing
- Lecture 12: Image Segmentation: Deformable Surface/Level Set Methods
- Lecture 13: Image Segmentation: Other Methods
- Lecture 14: Introduction to machine learning
- Lecture 15: Evaluation of machine learning methods
- Lecture 16: Applications of machine learning
- Lecture 17: Applications of machine learning
- Lecture 18: Image Registration
- Lecture 19: Image Registration
- Lecture 20: Applications
- Lecture 21: Applications
- Lecture 22: Advanced topics
- Lecture 23: Advanced topics
We will normally post 2 lectures per week (on Mondays).
Prerequisites:
- college level math and physics
- general medical knowledge
Textbook:
There is no single proper textbook that covers the topics in this course. We will be posting materials (according to the progress of lectures) including online resources, tutorials, papers, and our own writing materials. Since this is a rapidly developing field, there may be a proper book in the near future.
Grading:
- Homework
- Worth 100 points and will be assigned each week (8-12 total homework assignments)
- Will be posted on Wednesday and will be due the following Wednesday.
- For some weeks, we may post homework early. This will not affect the due date of the homework.
- Late homework will be accepted until the first Friday following the due date with a penalty of 20 points per day late. Homework will not be accepted after Friday.
- Comprehensive project (due on the same day as the final exam)
- Midterm and final exams