BENG 278: Magnetic Resonance Imaging Lab Course: Winter 2011

Bioengineering 278: Magnetic Resonance Imaging Lab
Winter Quarter 2011

Instructor: Eric Wong PhD MD
Keck Center for FMRI Room 1011
(858) 822-0564
Lectures: Mondays, 10:00-10:50 AM
Keck Center for fMRI Conference Room 1014
Map to Center
Labs: Wednesdays 2:00-3:50 and Fridays 3:00-4:50 PM
Keck Center for fMRI 3T West Scanner - Room 1023
Lab reports are due at 2PM on Wednesday the week after the lab
and can be turned in by email (preferable) or on paper.
Office Hours: By Appointment:
Keck Center for FMRI Room 1011
Teaching Assistant: Tatsuya Arai
TA Office hours: By Appointment:
(you will need at least one of these two):
1) Principles of MRI by D.G. Nishimura
2) Handbook of MRI Pulse Sequences by Matt A. Bernstein
Prerequisites: BENG 280A or consent of intructor.

Class Information:

  1. Syllabus
  2. Simple K-Space demo in Matlab or Mathematica
  3. Safety Information Safety Lecture and online Safety Test are required for entry into scan room
  4. Coherence Diagrams Klaus Scheffler
  5. EPI/Spiral blurring simulation code
  6. Code to generate smiley face for Lab 6
  7. Original Paper on the Birdcage Coil by Hayes
  8. Magnetic Field of a Loop
  9. Matlab Code for Magnetic Field of a Loop from Matlab Central, and a test function
  10. DENSE Motion Mapping Han Wen

Lecture Slides:

  1. Lecture 1 Introduction and Hardware Overview
  2. Lecture 2 The basic spin echo pulse sequence
  3. Lecture 3 Echoes and coherence pathways
  4. Lecture 4 Echo Planar Imaging
  5. Lecture 5 MR Image artifacts
  6. Lecture 6 RF pulses
  7. Lecture 7 RF coils
  8. Lecture 8 Motion Encoding using Transverse Magnetization: Phase Contrast and Diffusion
  9. Lecture 9 Motion Encoding using Longitudinal Magnetization: TOF angiography and ASL
  10. Lecture 10 Cardiac MR

Lab Assignments:

  1. Lab 1 Image reconstruction, B1 mapping
  2. Lab 2 The basic spin echo sequence
  3. Lab 3 Echo pathways and balanced SSFP
  4. Lab 4 Echo Planar Imaging
  5. Lab 5 Chemical shift, SNR, and motion artifacts
  6. Lab 6 Design and implementation of a 2D RF pulse
  7. Lab 7 Design and construct a birdcage RF coil
  8. Lab 8 Diffusion and phase contrast imaging
  9. Lab 9 Time of flight MRA and arterial spin labeling
  10. Lab 10 Cardiac MRI

Related Links:

  1. Ginormous series of lectures on the Fourier Transform from Stanford
  2. Duke Virtual Imaging Lab
  3. The Basics of NMR by Joseph Hornak (an animated on-line book).
  4. MRI Educational Links from the ISMRM site
  5. Lots of cool links and software from Brian Hargreaves' site
  6. Compressed sensing stuff from Michael Lustig's site
  7. MRI Tutorials and Q&A from ReviseMRI
  8. MRI Tutorial from Stuart Clare's Dissertation
  9. MRI Artifacts
  10. Convolution Website

Related Classes on the Web:

  1. BE280A Principles of Biomedical Imaging (taught by Tom Liu at UCSD, the prerequisite to this course)
  2. SOM276A-C fMRI Courses in the UCSD School of Medicine
  3. COGSCI 276 NeuroImaging (taught by M. Sereno at UCSD)
  4. BME530 Medical Imaging Systems (taught by W. Block at Univ. Wisconsin Madison)
  5. BME516 Medical Imaging Systems (taught by D. Noll at Univ. Michigan )
  6. EE369C Medical Image Reconstruction (taught by J. Pauly at Stanford)
  7. EE591 MRI (taught by K. Nayak at USC)
  8. EE691 Advanced Topics in MRI (taught by K. Nayak at USC)
  9. BE248 MRI (taught by M. Tyszka at Caltech)