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fMRI Image Acquisition and Analyses Course

The Mind Research Network's fMRI Image Acquisition and Analyses Course

The course faculty include:
Kent Kiehl (The Mind Research Network and the University of New Mexico)
Vince Calhoun (The Mind Research Network and the University of New Mexico)
Tor Wager (University of Colorado, Boulder’s Department of Psychology and Neuroscience and Institute for Cognitive Science)

The course is designed for fMRI researchers who range from beginning to intermediate skill levels. It will provide those who are just getting started with fMRI a comprehensive set of tools and software to get started with your own studies, and those who are more advanced will benefit from custom code and supplements to standard analyses developed by the instructors. We cover Statistical Parametric Mapping (SPM8), independent component analyses (ICA) of fMRI data, mediation analysis of fMRI, and statistical nonparametric mapping (SnPM). We provide comprehensive coverage of all aspects of experimental design, image acquisition, image preprocessing, and analysis using the general linear model and ICA.

The course is unique in that it pairs interactive lectures with hands-on demonstrations and work-through sessions. Each student works on their own laptop. Software will be installed on each student's laptop during the beginning of the course, including Matlab (a trial version), SPM8, the Group ICA of fMRI Toolbox (GIFT), and related SPM toolboxes, including statistical nonparametric mapping (SnPM) and the multi-level mediation fMRI toolbox (M3). In addition, alongside the lectures, participants will be trained to analyze example fMRI data on their laptops using these tools. The course will be small and interactive, with many opportunities to work closely with the faculty. Registration will be on a first-come, first-served basis; we apologize in advance if we cannot accommodate all who wish to attend, but we will admit as many people as possible given the interactive nature of the course.

Dates and Time: 

January 12-14, 2017


The MIND Research Network
Large Conference Room
Albuquerque, NM 87106
(866) 254-6463


Register as trainee ($895) - this category includes undergraduate and graduate students, post-doctoral fellows or trainees in a post-graduate training period prior to graduate school.

Attendee Name & E-mail

Register as faculty ($1295) - this category includes k-awardees, research scientists, and assistant (or higher) professors or full time employees not in a training program.

Attendee Name & E-mail

Register as an industry participant ($1995) – this category includes anyone who is primarily employed in a non-academic setting.

Attendee Name & E-mail

If you have any questions about or difficulties with the registration or payment process please email fMRIcourse@mrn.org.

*After completing registration we ask that all course attendees complete this questionnaire as it gives us important information like their name, institution, and any dietary restrictions.

Agenda &FAQ

Click here for the Agenda

Click here for the FAQ

Recommended Hotel:

Sheraton Albuquerque Airport Hotel
2910 Yale Boulevard S.E.
Albuquerque, New Mexico,87106
(866) 716-8134; http://www.sheratonalbuquerqueairport.com/

We have negotiated a discounted rate with the Sheraton Airport Hotel of $102.00. To reserve a discounted room, please book online at http://www.sheratonalbuquerqueairport.com/lovelace, or call (866) 716-8134 and ask for the SET Account Number 228069. The discounted rates will be honored until December 12, 2016 - a month before the course.

For more information about the property please visit: http://www.sheratonalbuquerqueairport.com/.

Recommended readings for the course:

Website Links:

• fMRI for newbies

• SPM manual and documentations
http://www.fil.ion.ucl.ac.uk/spm/doc/ and

• SPM short course notes

• Introduction to SPM stats

• ICA of fMRI overview

• GIFT website and manual

• Statistical Nonparametric Mapping (SnPM)

• Experimental design (Rik Henson)

fMRI Methods - Chapters:

Wager, T. D. & Lindquist, M. A.  This book provides comprehensive coverage of the key concepts involved in current fMRI acquisition and analysis.  It is available online at https://leanpub.com/principlesoffmri.

V. D. Calhoun and T. Adalı, "Multi-subject Independent Component Analysis of fMRI: A Decade of Intrinsic Networks, Default Mode, and Neurodiagnostic Discovery," IEEE Reviews in Biomedical Engineering, vol. 5, pp. 60-73, 2012

E. Erhardt, S. Rachakonda, E. Bedrick, T. Adalı, and V. D. Calhoun, "Comparison of multi-subject ICA methods for analysis of fMRI data," Human Brain Mapping, vol. 12, pp. 2075-2095, 2011

V. D. Calhoun, R. Miller, G. D. Pearlson, and T. Adalı, "The chronnectome: Time-varying connectivity networks as the next frontier in fMRI data discovery," Neuron, vol. 84, pp. 262-274, 2014

Wager, T. D., Hernandez, L., Jonides, J., & Lindquist, M. (2007). "Elements of functional neuroimaging," J. T. Cacioppo, L. G. Tassinary & G.G. Berntson (Eds.), Handbook of Psychophysiology (4th ed., pp. 19-55). Cambridge: Cambridge University Press."

Wager. T. D., Lindquist, M., and Hernandez, L. (2009). "Essentials of functional neuroimaging," Handbook of Neuroscience for the Behavioral Sciences.

Wager, T. D., & Lindquist, M. A. (2011). "Essentials of functional magnetic resonance imaging," Handbook of Social Neuroscience.

Lindquist, M. A. & Wager, T. D. (2014) "Principles of functional Magnetic Resonance Imaging," Handbook of Neuroimaging Data Analysis. London: Chapman & Hall, CRC Press.

Find Dr. Wager's suggested readings at: http://wagerlab.colorado.edu/wiki/doku.php/help/fmri_tools_documentation.

Neuroimaging Research Laboratory PSY 450 and ECE 495 Service-Learning Practicum

Course Description:
The University of New Mexico Departments of Psychology and Engineering are pleased to announce a lab course for Fall 2014. Students interested in this course will join a specific research lab at the Mind Research Network (MRN), a world-renowned neuroimaging research facility on UNM’s north campus (next to the north golf course, just north of the Ronald McDonald House). Many exciting research areas are currently under investigation (e.g., schizophrenia, substance abuse/addiction, TBI, psychopathy, method development, autism). Students will also be provided many other learning opportunities across labs (lectures, etc) and a general introduction to research ethics and MRN policies.  This is a 2-credit course that requires 6-8 hours/week spent on site at MRN. This course is designed to be a practicum-style experience that provides extensive training in individual research laboratories at the MRN. It has three major components:

Ethical and human subjects issues in research:
Training in the fundamentals of human research (privacy, research protections, safety, and ethics), and organizational best practices/policies/procedures as well as direct laboratory duties with an assigned mentor. This will be accomplished through a combination of on-line resources and direct instruction in small groups.

Individualized educational experiences in a research lab at MRN:
The learning objectives for this course are individualized through the creation of a learning goal plan developed in collaboration with the student, lab mentor and the course instructor.  This brief statement of goals and expectations should include details regarding the student’s scientific responsibilities in the lab (i.e., literature reviews, administering research procedures, administrative support, preparation of scientific reports and conference presentations, etc.), as well as details regarding total time spent in the lab and grading criteria. In consultation with their lab mentors, a time line will be established for completing the on-line training modules.

General exposure to other research labs at MRN:
Many exciting neuroimaging methods are utilized at MRN and integration of knowledge across methods is critical for future research. Students are expected to attend as many research talks at MRN as possible, as discussed with their research mentor. This will be supplemented by a small series of on-line resources providing introduction to different research methods (e.g., fMRI, magnetic resonance spectroscopy, magnetoencephalography, neurogenetics). All students will be expected to have exposure to at least one imaging method outside of their lab’s primary focus. The specific choice will be made by the lab mentor in conjunction with the student. In addition, this course is designed to provide students with a personal and professional foundation for working in professions and roles that utilize knowledge of scientific research and neuroinformatics.

In order to participate, you need to have prior approval from the instructor. If this opportunity is of interest to you, complete the following  steps:

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