Functional Magnetic Resonance Imaging

NEUROBIO 381 / PSY 181F
Fall 2007

Lecture
Wednesdays, 3:00-4:30 PM.
Barrus Conference Room, Duke South Hospital (3031 Purple Zone)
Laboratory
Main Session: Wednesdays, 4:30-5:30 PM.
Additional sessions scheduled individually by each laboratory group.
BIAC Analysis Laboratory (251 Bell Research Building)
Materials
The primary text will be Functional Magnetic Resonance Imaging, by Huettel, Song, and McCarthy. It can be ordered from Sinauer Associates, Inc. Any additional readings will be provided by the instructors and/or posted on the website.
Course Director
Scott Huettel, Ph.D.
Departments of Psychiatry, Neurobiology, and Psychology
Brain Imaging and Analysis Center (Bell 254D)
email: phone: 681-9527
Teaching Assistants
Simon Davis, LSRC B254
email:
phone: 668-2299

Melissa Libertus, LSRC C03F
email:
phone: 668-0437
Office Hours
Bell Building, Room 254D
Given the size of the class, office hours will be by appointment. Note that the laboratory period assigned to your group is an excellent time to ask questions about anything course-related!

Course Information

This course is intended to provide a comprehensive and rigorous introduction to the technique of functional magnetic resonance imaging (fMRI). Students will learn the basic physics underlying MRI, the biological principles of fMRI, the principles of experimental design, the processing steps associated with data analysis, and the use of available software packages. Each week's session will be composed of a lecture and laboratory. Each part will be led by one or more BIAC faculty members. Where possible, the laboratory topics will be flexible so that students with more experience can explore the issues covered in more detail.

The capstone experiences of the course are the student-led fMRI projects. Small groups of students (generally, 4 students) will conduct their own fMRI study. The rules and procedures for these projects will be explained in mid-October.

Auditors are welcome (and encouraged) to take the course, but regular attendance and participation is required.

Course web page: http://www.biac.duke.edu/education/courses/

Assignments and Grading (Undergraduates)

Assignments and Grading (Graduate Students)

As this is a graduate course, grades will reflect a certification of training, rather than a competition between students. Therefore, all grades can be raised to "E" by demonstrating understanding of the material. Grades will be based on participation in course sessions, completion of laboratory exercises, weekly short answer questions, and a final practicum research project. There also be one mid-term examination.

Course Preliminary Outline

8/29

Lecture:

Introduction to fMRI (ppt)

Huettel

 

Laboratory:

Visit to MR Scanner, Real-time fMRI

Voyvodic

 

Readings:

CH 1, CH 2

 

9/5

Lecture:

Basic Physical Principles (ppt)

Huettel

 

Laboratory:

Exploring MRI/FMRI data, Neuroanatomy (doc)

 

 

Readings:

CH 3

 

9/12

Lecture:

Image Formation (ppt)

Song

 

Laboratory:

K-Space Analysis (doc)

 

 

Readings:

CH 4

 

9/19

Lecture:

Contrast Mechanisms and Pulse Sequences (ppt)

Song

 

Laboratory:

Image Contrast (doc)

 

 

Readings:

CH 5

 

9/26

Lecture:

From Neuronal to Hemodynamic Activity (ppt)

Heuttel

 

Laboratory:

(NO LAB - Physics Review)

 

 

Readings:

CH 6

 

10/3

Lecture:

BOLD fMRI (ppt)

Huettel

 

Laboratory:

Introduction to FSL (combined, no assignment) (ppt)

 

 

Readings:

CH 7, CH 8

 

10/10

Lecture:

Signal and Noise; Preprocessing (ppt)

Huettel

 

Laboratory:

FSL: First-level analyses (doc)

 

 

Readings:

CH 9, CH 10

 

10/17

 

Mid-Term Examination (3:00-4:15)

Lecture:

Experimental Design (4:15-5:30) (ppt)

Huettel

 

Readings:

CH 11

 

10/24

Lecture:

Statistics I: General Linear Model (ppt)

Huettel

 

Laboratory:

FSL: Higher-level analyses

 

 

Readings:

CH 12

 

10/31

Lecture:

Statistics II: Advanced Techniques (ppt)

Huettel

 

Laboratory:

Work on projects: Task programming

 

 

Readings:

To be assigned

 

11/7

Lecture:

Advanced MR Models

BIAC Faculty

 

Laboratory:

Work on Projects

 

 

Readings:

CH 14

 

11/14

Lecture:

Ethics (ppt)

Huettel

 

Laboratory:

Work on Projects

 

 

Readings:

CH 13

 

11/21

 

No Class - Thanksgiving Holiday

 

11/28

Lecture:

Integrating fMRI with Other Approaches (ppt)

Huettel

 

Laboratory:

Work on projects

 

 

Readings:

CH 15

 

12/5

Discussion:

Future of fMRI - Panel Discussion

BIAC Faculty

 

 

** Required for undergraduates **

 

 

 

** Optional for graduate students **

 

12/11

 

Final Presentations: 9:00am-12:00pm