Functional Magnetic Resonance Imaging
NEUROBIO 381 / PSY 362 - Graduate Class
Fall 2008
Perkins 2-088 (Teaching and Learning Center, "The Link"); Classroom #4
Perkins 2-088 (Teaching and Learning Center, "The Link"); Classroom #4
Department of Psychology and Neuroscience
email (preferred): phone: 681-9527
email:
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 |
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Tour: |
Visit to MR Scanner; Real-time fMRI |
Voyvodic |
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Readings: |
CH 1, CH 2 |
|
9/3 |
Lecture: |
Basic Physical Principles (ppt) |
Huettel |
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Laboratory: |
Exploring MRI/fMRI data; Neuroanatomy (doc) |
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Readings: |
CH 3 |
|
9/10 |
Lecture: |
Image Formation (ppt) |
Huettel |
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Laboratory: |
K-Space Analysis (doc) |
|
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Readings: |
CH 4 |
|
9/17 |
Lecture: |
Contrast Mechanisms and Pulse Sequences (ppt) |
Huettel |
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Laboratory: |
Image Contrast (doc) |
|
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Readings: |
CH 5 |
|
9/24 |
Lecture: |
From Neuronal to Hemodynamic Activity (ppt) |
Huettel |
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Group Work: |
Project Planning (no laboratory) |
Huettel/Diaz |
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Readings: |
CH 6 |
|
10/1 |
Lecture: |
BOLD fMRI; Introduction to FSL (pdf) |
Diaz |
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Laboratory: |
FSL: First-level analyses |
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Readings: |
CH 7, CH 8 |
|
10/8 |
|
Mid-Term Examination (3:00-4:15) |
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Lecture: |
Signal and Noise; Preprocessing (4:15-5:30) (ppt) |
Huettel |
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Readings: |
CH 9, CH 10 |
|
10/15 |
Lecture: |
Experimental Design (ppt) |
Huettel |
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Laboratory: |
FSL: Higher-level analyses |
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Readings: |
CH 11 |
|
10/22 |
Lecture: |
Statistics I: General Linear Model (ppt) |
Huettel |
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Group Work: |
Work on projects: Task programming |
|
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Readings: |
CH 12 |
|
10/29 |
Lecture: |
Statistics II: Advanced Techniques (ppt) |
Huettel |
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Laboratory: |
Work on Projects |
|
|
Readings: |
To be assigned |
|
11/5 |
Lecture: |
Advanced MR Methods |
Chen/Appelbaum |
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Laboratory: |
ICA and Functional Connectivity |
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Readings: |
CH 14 |
|
11/12 |
Lecture: |
Ethics |
Huettel |
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Group Work: |
Work on Projects |
|
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Readings: |
CH 13; Racine et al. (2005) |
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11/19 |
Lecture: |
Integrating fMRI with Other Techniques |
Diaz |
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Group Work: |
Work on projects |
|
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Readings: |
CH 15 |
|
11/26 |
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No Class - Thanksgiving Holiday |
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12/3 |
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No Class - Graduate Reading Period - Work on Projects |
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12/12 |
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Final Project Presentations: 2:00-4:00 PM |
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