W09-PSYC-250-01: methodology of research 2009

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IMPORTANT NOTES!! Please contact the speaker or course instructors if you would like to use any of the slides. Some slides have been borrowed from SPM, FSL or related websites, and should be referenced appropriately when used.

Winter 2009 -Neuroimaging-
When: Fridays 1:15pm - 3:00pm (January 9th to March 13th)

Where: 401 Quarry Rd.Psychiatry Bldg. Room 2213

Instructor: Fumiko Hoeft MD PhD (fumiko'at'stanford'dot'edu), Instructor, Associate Director of Neuroimaging Applications, CIBSR

Co-Instructor: Brian W. Haas PhD (bhaas'at'stanford'dot'edu), Postdoc, CIBSR

Target Audience
This course is intended for people interested in or currently doing fMRI data analyses.
Novices to neuroimaging research and those who want to be intelligent consumers are also welcome.

Course Style
Each class will consist of theory/background, demonstration using real data (if applicable), introduction of relevant papers and open discussion.


Weekly Schedule (subject to change)
Week 1 (January 9)
Introduction of Course (Fumiko Hoeft)
Introduction to Cognitive Neuroscience (Brian Haas)
Basic Principles of (f)MRI (Gary Glover PhD [Director RSL, Prof of Radiology])
1. class slides (Haas)
2. class slides (Glover)


Week 2 (January 16)
fMRI Data Processing and Quality Control Issues (Fumiko Hoeft, Paul Mazaika PhD [Associate Director of Computation Neuroimaging, CIBSR])
1. class slides (Mazaika)
1-1. class material (Mazaika)
1-2. class material (Mazaika)
2. class slides (Hoeft)


Week 3 (January 23)
fMRI Individual and Group Analyses (Fumiko Hoeft)
1. class slides


Week 4 (January 30)
Pattern Classification (Elizabeth Walter PhD [CIBSR])
1. class slides REVISED 2/6/09


Week 5 (February 6)
Resting State, Breath Holding, and Physiological Noise (RETROICOR, RVHRCOR) (Catie Chang MS [Electrical Engineering])
1. class slides


Week 6 (February 13)
Functional Connectivity (Brian Haas)
1. class slides


Week 7 (February 20)
Real-Time fMRI (Signe Bray PhD [CIBSR])
1. class slides


Week 8 (February 27)
Retinotopic Maps, Flattening and fMR-adaptation (Rory Sayres PhD [Psychology])
1. class slides


Week 9 (March 6)
Meta Analysis (Amit Etkin MD PhD [Psychiatry])
1. class material
2. class material
1. class slides


Week 10 (March 13)
Last Class: Summary and Other Interesting Analyses/Tools (Fumiko Hoeft, Brian Haas)
1. class material (voodoo1)
2. class material (voodoo2)
3. class material (logothetis1)
4. class material (logothetis2)