Lecture: Tu/Th 12:30pm-2pm (online)
Course website: http://users.ece.utexas.edu/~jtamir/ee381vsp21.html
Instructor: Prof. Jon Tamir
E-mail: jtamir@utexas.edu
Office hours: Tuesdays 2-3pm, Thursdays 4-5pm
Teaching assistant: Sungsoo Kim
E-mail: sungsookim@utexas.edu
Office hours: Mondays/Wednesdays 12:00-1:30m
Magnetic resonance imaging (MRI) is a safe and non-invasive medical imaging modality that incorporates all facets of engineering. This course provides an introduction to MRI, particularly focusing on computational co-design of the signal acquisition and post-processing algorithms. The course will cover the principles of MRI, including basic system hardware, spin physics, signal formation, contrast mechanisms, pulse sequence design, image detection, and image reconstruction. Advanced image reconstruction topics will be discussed including parallel imaging, compressed sensing, and machine learning. Concepts will be explored through the use of real and synthetic data in the homeworks, labs, and final project.
Students should have taken the following courses or
equivalent:
Digital signal processing (EE 351M)
Coding experience with Python is necessary and assumed. Basic experience
installing command-line programs (Windows, Mac, or Linux) is also
expected.
Familiarity with the following courses is helpful but not
necessary:
Biomedical Imaging Modalities (EE 385J)
Convex optimization (EE 381K)
Probability & Stochastic Processes (EE 381J)
The first part of the course will follow the text,
The second part of the course will follow lecture notes modeled after a variety of sources, including,
Bernstein, King and Zhou, Handbook of MRI Pulse Sequences
Elsevier/Wiley, 2004
Available online to UT students here: [UT
link]
Haacke, Brown, Thompson, and Venkatesan, Magnetic Resonance
Imaging: Physical Principles and Sequence Design, John Wiley & Sons
New York, NY 1999. ISBN: 0-471-35128-8
Available online to UT students here: [UT
link]
Z.-P. Liang, P. Lauterbur, Principles of Magnetic Resonance
Imaging: A Signal Processing Perspective, IEEE Press.
Available for purchase through IEEE or Amazon: [UT
library link]
The online class system is Canvas. Most handouts will be distributed there. We will also use Canvas to send group e-mails and do online grading. Please make sure you know how to access Canvas and that you are listed there as a student.
We will also use Piazza for online discussions. This is a good place to post questions, which can be answered by the instructor, TA, or other students. Since students often have related questions, this is also a good place to look to see other questions and answers.
HW self-grading: Homework will be self-graded, with rubric handed out with solutions. Self-grading will be due one week after the HW solutions are posted.
The plus/minus grading system will be used.
A course/instructor survey will be conducted at the end of the semester via the standard MEC form for the Instructor and each Teaching Assistant.
Request for regrading an assignment must be made in writing within one (1) week of the graded assignment being made available to students in the class.
FirstName_LastName_HW01_sol.pdf.HW Self-grading: Homework will be self-graded, with rubric handed out with solutions. Self-grading will be due one week after the HW solutions are posted.
Discussion of homework questions is encouraged; however, please be absolutely sure to submit your own independent homework solution.
Teams of 1-3 students will work together on a project. A list of project ideas will be posted at the start of the semester. In the middle of the semester, teams will submit a short project proposal to be approved by the instructor. Project deliverables will include a short report, presentation, and code repository.
Lectures will be held live over Zoom. Recorded lectures and notes will be posted to Canvas after class.
A List of the topics that will be covered is given here, in the approximate order that they will be covered. This may change based on time.
Your success in this class is important to me. We will all need accommodations because we all learn differently. If there are aspects of this course that prevent you from learning or exclude you, please let me know as soon as possible. Together we will develop strategies to meet both your needs and the requirements of the course. I also encourage you to reach out to the student resources available through UT. Many are listed on this syllabus, but I am happy to connect you with a person or Center if you would like.
“The core values of The University of Texas at Austin are learning, discovery, freedom, leadership, individual opportunity, and responsibility. Each member of the University is expected to uphold these values through integrity, honesty, trust, fairness, and respect toward peers and community.”
The Dean must approve adding or dropping courses after the fourth class day of the semester.
UT provides upon request appropriate academic accommodations for qualified students with disabilities. Disabilities range from visual, hearing, and movement impairments to ADHD, psychological disorders (e.g. depression and bipolar disorder), and chronic health conditions (e.g. diabetes and cancer). They also include temporary disabilities such as broken bones and recovery from surgery. Services for Students with Disabilities is available at 512-471-6259 [voice], 866-329-3986 [video], ssd@austin.utexas.edu, or https://diversity.utexas.edu/disability.
With these rights come responsibilities: - You are responsible for taking care of yourself, managing your time, and communicating with the teaching team and with others if things start to feel out of control or overwhelming. - You are responsible for acting in a way that is worthy of respect and always respectful of others. - Your experience with this course is directly related to the quality of the energy that you bring to it, and your energy shapes the quality of your peers’ experiences. - You are responsible for creating an inclusive environment and for speaking up when someone is excluded. - You are responsible for holding yourself accountable to these standards, holding each other to these standards, and holding the teaching team accountable as well.
Professional courtesy and sensitivity are especially important with respect to individuals and topics dealing with differences of race, culture, religion, politics, sexual orientation, gender, gender variance, and nationalities. Class rosters are provided to the instructor with the student’s legal name, unless they have added a preferred name with the Gender and Sexuality Center. I will gladly honor your request to address you by a name that is different from what is on the roster, and by the gender pronouns you use (she/he/they/ze, etc).
More than one-third of UT Austin undergraduate students use the Sanger Learning Center each year to improve their academic performance. All students are welcome to take advantage of their classes and workshops, private learning specialist appointments, peer academic coaching, and tutoring. Please visit http://www.utexas.edu/ugs/slc or call 512-471-3614 (JES A332).
Student Emergency Services in the Office of the Dean of Students has launched UT Outpost (UA9 Building, 2609 University Avenue; ring bell for service) to support students on our campus that is equipped with a food pantry, and a career clothes closet, to ensure every Longhorn has access to professional clothes for job and internship interviews. Emergencies and financial hardships can interfere with student success beyond the class- room, and this program will serve as an additional resource for students. Learn more at https://deanofstudents.utexas.edu/emergency/utoutpost.php.
A student who misses classes or other required activities, including examinations, for the observance of a religious holy day should inform the instructor as far in advance of the absence as possible so that arrangements can be made to complete an assignment within a reasonable period after the absence. A reasonable accommodation does not include substantial modification to academic standards, or adjustments of requirements essential to any program of instruction. Students and instructors who have questions or concerns about academic accommodations for religious observance or religious beliefs may contact the Office for Inclusion and Equity. The University does not maintain a list of religious holy days.
In accordance with section 51.9111 of the Texas Education Code, a student is excused from attending classes or engaging in other required activities, including exams, if he or she is called to active military service of a reasonably brief duration. The maximum time for which the student may be excused has been defined by the Texas Higher Education Coordinating Board as “no more than 25 percent of the total number of class meetings or the contact hour equivalent (not including the final examination period) for the specific course or courses in which the student is currently enrolled at the beginning of the period of active military service.” The student will be allowed a reasonable time after the absence to complete assignments and take exams. Policies affecting students who withdraw from the University for military service are given in the Withdrawal section.
If you have concerns about the safety or behavior of students, TAs, Professors, or others, call the Behavioral Concerns Advice Line at 512-232-5050. Your call can be anonymous. If something doesn’t feel right, it probably isn’t. Trust your instincts and share your concerns.
Occupants of buildings are required to evacuate buildings when a fire alarm is activated. Alarm activation or announcement requires exiting and assembling outside. - Familiarize yourself with all exit doors of each classroom and building you may occupy. The nearest exit door may not be the one you used when entering the building. - Students requiring assistance in evacuation shall inform their instructor in writing during the first week of class. - In the event of an evacuation, follow the instruction of faculty or class instructors. Do not re-enter a building unless given instructions by the following: Austin Fire Department, UT Austin Police Department, or Fire Prevention Services. - Information regarding emergency evacuation routes and emergency procedures can be found at http://www.utexas.edu/emergency.
For more information, please see http://www.utexas.edu/safety.
“The University of Texas at Austin is committed to providing a safe environment for students, employees, university affiliates, and visitors, and to respecting the right of individuals who are licensed to carry a handgun as permitted by Texas state law.” For more information, please see http://campuscarry.utexas.edu/students.
College can be stressful and sometimes we need a little help. We have a wealth of resources and dedicated people ready to assist you, and treatment does work. The Counseling and Mental Health Center (CMHC) provides counseling, psychiatric, consultation, and prevention services that facilitate student academic and life goals and enhance their personal growth and well-being. CMHC counselors are available Monday-Friday 8am-5pm 5th floor of the Student Services Building (SSB) in person and by phone (512-471-3515).
Alternatively, you can talk to Ms. Jeni Wade, LCSW right here in the College of Engineering. Ms. Wade is our Care Counselor and she can be reached at 512-471-8396. She has office hours in EER 2.848 for drop-ins.
If you are experiencing a mental health crisis (e.g. depression or anxiety), please call the Mental Health Center Crisis line at 512-471-CALL(2255). Call even if you aren’t sure you’re in a full-blown crisis, but sincerely need help. Staff are there to help you.
A wonderful resource is the MindBody Lab, a self-paced environment designed to help UT students explore various resources for improving their emotional and physical health. The Lab currently features audio and video instruction on a variety of topics, including sleep issues; food and body image; health and well-being; relaxation and meditation. Most of the material is experiential, enabling students to follow along and practice the skills as they are being discussed. MindBody Labs are located in SSB 5th floor, SAC 2.106 and NUR 3.156D.
Title IX is a federal law that protects against sex and gender-based discrimination, sexual harassment, sexual assault, sexual misconduct, dating/domestic violence and stalking at federally funded educational institutions. UT Austin is committed to fostering a learning and working environment free from discrimination in all its forms where all students, faculty, and staff can learn, work, and thrive. When sexual misconduct occurs in our community, the university can: 1. Intervene to prevent harmful behavior from continuing or escalating. 2. Provide support and remedies to students and employees who have experienced harm or have become involved in a Title IX investigation. 3. Investigate and discipline violations of the university’s relevant policies.
Faculty members and certain staff members are considered “Responsible Employees” or “Mandatory Reporters,” which means that they are required to report violations of Title IX to the Title IX Coordinator at UT Austin. I am a Responsible Employee and must report any Title IX related incidents that are disclosed in writing, discussion, or one-on-one. Before talking with me, or with any faculty or staff member about a Title IX related incident, be sure to ask whether they are a responsible employee. If you want to speak with someone for support or remedies without making an official report to the university, email advocate@austin.utexas.edu. For more info about reporting options and resources, visit https://titleix.utexas.edu/campus-resources or contact the Title IX Office at titleix@austin.utexas.edu.
This course syllabus uses wording suggested by Prof. Brian Evans, Prof. Jeffrey Andrews, Prof. Mary Steinhardt, and the Faculty Innovation Center at UT Austin.
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