ECE
590/699 Topics in Bioengineering: Medical Imaging
Fall
2009
Credits
3
Thursdays,
7:20 pm – 10:00 pm, Room: East Building, 134
Instructor:
Siddhartha Sikdar, PhD
Assistant
Professor
Department
of Electrical and Computer Engineering
Office:
Engineering, Room 3908
Email:
ssikdar@gmu.edu
Phone:
703-993-1539
Office
hours: Mondays and Tuesdays 2:00-3:00 pm and by appointment
Course
description (ECE 590 and ECE 699):
This course will provide an introduction to the physical,
mathematical and engineering foundations of modern medical imaging instruments
and image processing methods that enable us to ÒseeÓ inside the human body to
diagnose disease, monitor treatment and perform minimally-invasive
interventions. The emphasis will be on diagnostic ultrasound and MRI imaging
methods, although several other modalities will also be covered. The course
will also provide an overview of recent developments in the field of medical
imaging and discuss some of the challenges and controversies. The students will
get hands on experience in applying the methods learnt in class to real-world
problems and imaging data. There will be broad scope to individually and
collaboratively explore current problems in medical imaging.
ECE 699 option:
This
course also has an ECE 699 option for students desiring 600-level credits. The
course content, homework and exams for ECE 699 would be the same as that for
ECE 590. Students taking ECE 699 would be
expected to do a more advanced course project demonstrating in-depth
understanding and critical assessment of methods from recent research
literature and would be required to submit a written project report.
Learning
objectives:
At the
end of the course the student should be able to:
Prerequisites:
Resources:
Course home
page:
The
course material distribution, assignments grading, announcements and discussion
boards will be managed using BlackBoard CE6. To access the course home page,
log in using your email ID and password on http://courses.gmu.edu.
If you have difficulties using this system, please speak with the instructor
and appropriate accommodations will be considered.
Required
readings:
Textbook: Medical Imaging Physics–William
R. Hendee, E. Russel Ritenour. Wiley-Liss Inc; 4th Edition, 2002.
Available at Fenwick:
http://magik.gmu.edu/cgi-bin/Pwebrecon.cgi?BBID=1559655
The lecture
slides will be available through the course website. Additional reading and
reference material wherever appropriate will be distributed to students
periodically. Students are expected to read the assigned material prior to
class.
Recommended
references:
http://magik.gmu.edu/cgi-bin/Pwebrecon.cgi?BBID=1312573
Available at Fenwick:
http://magik.gmu.edu/cgi-bin/Pwebrecon.cgi?BBID=1559656
http://magik.gmu.edu/cgi-bin/Pwebrecon.cgi?BBID=882057
Course
structure:
The course will consist of weekly lectures, homework
assignments, two exams and a course project (details below).
Grade:
Midterm
exam 25%
Final
exam 25%
Homework 25%
Course
project 25%
Course
Project:
The course will involve a research project. At the end of
the semester, all students will be expected to make a 15-min presentation (with
slides) on a particular topic in medical imaging. Students should select a
topic, discuss with the instructor, and get approval within the first five
weeks of class. Students with similar interests can choose to work together and
present a joint in-depth project (the contribution of each student should be
clearly noted). A list of literature sources should be submitted to the
instructor for approval by the ninth week of class. Students enrolled for the
ECE 699 option are expected to submit a written report on their project topic
in addition to the presentation. Your classmates will grade the final
presentation. Grades will be based on: knowledge of the subject and quality of
background research, depth of critical analysis, clarity of explanation, and
presentation style. For the project, students can select one of the following
approaches:
1)
Review a
specific algorithm or technology for medical image formation, processing or
analysis, demonstrate its uses, compare against alternative approaches, discuss
the strengths and weaknesses, and suggest avenues for improvement.
2)
Explore
medical imaging applications for a specific organ or disease by identifying the
clinical need, comparing the applicability of various imaging methods, and
critically reviewing the latest research directions.
3)
Review an
emerging medical imaging modality, discuss the physics, instrumentation and
image processing involved, describe potential applications, and discuss the
strengths and weaknesses compared to existing imaging modalities.
Homework:
There will be assigned homework throughout the semester and
will involve processing and analysis of real medical image data, and will
involve some programming in C/C++ or MATLAB (depending on the studentÕs
preference). Homework submitted late will be penalized. No homework will be
accepted after two weeks. 5 points of the homework grade is reserved for class
participation. One student will be assigned each week on a rotating basis to
take the lead on compiling a summary of the discussions in class and post it on
the class home page. These summaries should be used as a supplement to the
lecture slides in preparing for examinations and will be graded as class
participation. Students are expected to read the assigned material prior to
class.
Exams:
The midterm and final exams will be closed book and notes.
They will consist of essay-type and multiple-choice questions and numerical
problems. Absence from exams must be notified ahead of time and alternative
arrangements made with the instructor.
Syllabus
|
Week |
Date |
Topics |
Readings and other Comments |
|
1 |
9/3/08 |
Introduction:
what is medical imaging? Different imaging modalities. Radiology workflow,
image informatics. |
Chapter 1 Assigned
paper |
|
2 |
9/10/09 |
Review
of relevant digital signal and image processing concepts: Linear systems,
sampling theory, filtering, interpolation, Fourier transforms, point spread
functions, probability. |
Chapter 11 Handouts |
|
3 |
9/17/09 |
Medical
imaging systems: Image
acquisition, reconstruction, resampling, manipulation, visualization. Patient
safety considerations. |
Handouts |
|
4 |
9/24/09 |
Evaluation
of image quality: signal to noise, contrast, spatial and temporal resolution.
Anatomical and functional imaging modalities. Contrast agents. |
Chapters 16,
17, 18 |
|
5 |
10/01/09 |
Principles
of ultrasound imaging: acoustic waves, transmission, reflection, attenuation,
image formation. |
Chapter 19 Paper topic
approval due |
|
6 |
10/08/09 |
Ultrasound
transducers and instrumentation: steering, focusing. Ultrasound signal and image
processing. 2D, 3D and 4D imaging. |
Chapters 20
and 21 |
|
7 |
10/15/09 |
Principles
of Doppler ultrasound. Demonstration. |
Chapter 22 |
|
8 |
10/22/09 |
Mid
term exam |
|
|
9 |
10/29/09 |
Structure
of matter Principles
of magnetic resonance imaging: spin physics |
Chapter 2,
23 List of
literature sources due |
|
10 |
11/05/09 |
MRI
signal, data acquisition, image contrast. Image formation and k-space. |
Chapters 24
and 25 |
|
11 |
11/12/09 |
Principles
of X-ray and nuclear imaging: radiation, attenuation, scattering, detection |
Chapters
4, 7, 13. |
|
12 |
11/19/09 |
Computed
Tomography image reconstruction. Fourier slice theorem, filtered
backprojection. 2D, 3D and 4D imaging. |
Chapter
15 Handouts |
|
13 |
11/26/09 |
Thanksgiving
Recess: No class |
|
|
14 |
12/03/09 |
Introduction
to image analysis: enhancement, segmentation, manual and automated image
analysis, computer-aided detection. Course wrap up. |
Handouts |
|
15 |
12/10/09 |
Final
presentations. |
Critical
review paper due. |
|
16 |
12/17/09 |
Final
exam. |
|
Academic Honesty and Collaboration:
The integrity of
the University community is affected by the individual choices made by each of
us. GMU has an Honor Code with clear guidelines regarding academic
integrity. Three fundamental and
rather simple principles to follow at all times are that: (1) all work submitted be your own; (2)
when using the work or ideas of others, including fellow students, give full
credit through accurate citations; and (3) if you are uncertain about the
ground rules on a particular assignment, ask for clarification. No grade is important enough to justify
academic misconduct.
With
collaborative work, names of all the participants should appear on the
work. Collaborative projects may
be divided up so that individual group members complete portions of the whole,
provided that group members take sufficient steps to ensure that the pieces
conceptually fit together in the end product. Other projects are designed to be undertaken
independently. In the latter case,
you may discuss your ideas with others and conference with peers; however, it is
not appropriate to give your work to someone else to review. You are responsible for making certain
that there is no question that the work you hand in is your own. If only your name appears on an
assignment, your professor has the right to expect that you have done the work
yourself, fully and independently.
Plagiarism means
using the exact words, opinions, or factual information from another person
without giving the person credit.
Writers give credit through accepted documentation styles, such as parenthetical
citation, footnotes, or endnotes. Paraphrased material must also be properly
cited. A simple listing of books
or articles is not sufficient.
Plagiarism is the equivalent of intellectual robbery and cannot be
tolerated in the academic setting.
If you have any doubts about what constitutes plagiarism, please see the
instructor.
Relevant Campus and Academic Resources
Any
student with documented learning disabilities or other conditions that may
affect academic performance should: 1) make sure this documentation is on file
with the Office of Disability Services (SUB I, Rm. 222; 993-2474;
www.gmu.edu/student/drc) to determine the accommodations you might need; and 2)
talk with the instructor to discuss reasonable accommodations.
Office of Diversity Programs and Services
SUB
1, Rm. 345; 993-2700; www.gmu.edu/student/msaf/index.html
Writing Center
Robinson A116; 993-1200; writingcenter.gmu.edu.