Functional Magnetic Resonance Imaging

NEUROBIO 381 / PSY 362 - Graduate Class
Fall 2008

Lecture
Wednesdays, 3:05-4:30 PM.
Perkins 2-088 (Teaching and Learning Center, "The Link"); Classroom #4
Laboratory
Wednesdays, 4:30-6:30 PM. (additional times scheduled with TA)
Perkins 2-088 (Teaching and Learning Center, "The Link"); Classroom #4
Materials
The primary text will be Functional Magnetic Resonance Imaging, by Huettel, Song, and McCarthy. It can be ordered from Sinauer Associates, Inc. Additional readings will be posted on the website.
Course Director
Scott Huettel, Ph.D.
Department of Psychology and Neuroscience
email (preferred): phone: 681-9527
Teaching Assistant
David Smith, Grad. Student, Department of Psychology and Neuroscience
email:
Office Hours
LSRC B243E
Office hours will be by appointment.

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.

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 will be one mid-term examination.

All Duke Honor Code Policies apply - you can work in approved groups on your laboratories and on the projects, but do not collaborate on the midterm or on any quizzes.

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

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

Course Outline

8/27

Lecture:

Introduction to fMRI (ppt)

Huettel

 

Tour:

Visit to MR Scanner; Real-time fMRI

Voyvodic

 

Readings:

CH 1, CH 2

 

9/3

Lecture:

Basic Physical Principles (ppt)

Huettel

 

Laboratory:

Exploring MRI/fMRI data; Neuroanatomy (doc)

 

 

Readings:

CH 3

 

9/10

Lecture:

Image Formation (ppt)

Huettel

 

Laboratory:

K-Space Analysis (doc)

 

 

Readings:

CH 4

 

9/17

Lecture:

Contrast Mechanisms and Pulse Sequences (ppt)

Huettel

 

Laboratory:

Image Contrast (doc)

 

 

Readings:

CH 5

 

9/24

Lecture:

From Neuronal to Hemodynamic Activity (ppt)

Huettel

 

Group Work:

Project Planning (no laboratory)

Huettel/Diaz

 

Readings:

CH 6

 

10/1

Lecture:

BOLD fMRI; Introduction to FSL (pdf)

Diaz

 

Laboratory:

FSL: First-level analyses

 

 

Readings:

CH 7, CH 8

 

10/8

 

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

 

 

Lecture:

Signal and Noise; Preprocessing (4:15-5:30) (ppt)

Huettel

 

Readings:

CH 9, CH 10

 

10/15

Lecture:

Experimental Design (ppt)

Huettel

 

Laboratory:

FSL: Higher-level analyses

 

 

Readings:

CH 11

 

10/22

Lecture:

Statistics I: General Linear Model (ppt)

Huettel

 

Group Work:

Work on projects: Task programming

 

 

Readings:

CH 12

 

10/29

Lecture:

Statistics II: Advanced Techniques (ppt)

Huettel

 

Laboratory:

Work on Projects

 

 

Readings:

To be assigned

 

11/5

Lecture:

Advanced MR Methods

Chen/Appelbaum

 

Laboratory:

ICA and Functional Connectivity

 

 

Readings:

CH 14

 

11/12

Lecture:

Ethics

Huettel

 

Group Work:

Work on Projects

 

 

Readings:

CH 13; Racine et al. (2005)

 

11/19

Lecture:

Integrating fMRI with Other Techniques

Diaz

 

Group Work:

Work on projects

 

 

Readings:

CH 15

 

11/26

 

No Class - Thanksgiving Holiday

 

12/3

 

No Class - Graduate Reading Period - Work on Projects

 

12/12

 

Final Project Presentations: 2:00-4:00 PM