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(UAB Neuroimaging Facilities)
(UAB Neuroimaging Facilities)
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Director: Mark Bolding, PhD
Director: Mark Bolding, PhD

Revision as of 16:38, 10 March 2015



Visual Brain Core Mission

Our mission is to help produce high quality, cutting edge research examining the visual brain. To achieve this, we will help investigators overcome some common barriers to performing high quality vision research, and provide forums to discuss new ideas and research techniques.

The 5 aims of the Visual Brain Core

Information For Visual Brain Core

For Use in Grant Proposals:

personnel resources

computing resources

Visual Brain Core Personnel and Office Hours

  • Demet Gurler, PhD: Consultation on experimental design and data analysis issues.
    • Office Hours: Tuesday, 2:00 -5:00 pm, Thursday, 9:00 am-12:00 pm, Civitan International Research Center, Room 235C

We are hiring a Computer Systems Specialist, in conjunction with Research computing.

Visual Brain Core Seminar Series

Every first Friday, 3:30 PM in CIRC 120. We will discuss new ideas and techniques in brain imaging.

List of speakers in Visual Brain Core Seminar Series

Past Seminars

Nov 21, 2014: "White Matter in the Older Brain is More Plastic than in the Younger Brain" Speaker: Yuka Sasaki, PhD, Department of Cognitive, Linguistic and Psychological Sciences, Brown University.

Jan 9, 2014 : "UAB Research Computing Resources for Neuroimaging Research" Speakers: John-Paul Robinson, Mike Hanby, Thomas Anthony

Feb 6, 2015: "High Gradient Diffusion MRI from the Human Connectome Project" Speaker: Koene Van Dijk, PhD, Department of Radiology, Harvard Medical School.

March 6, 2015: "How do we measure functional connectivity? An interactive discussion of functional connectivity methods" Speaker: Kristina Visscher, PhD, University of Alabama at Birmingham.

Future Seminars

April 3, 2015: "Generalized Psychophysical Interactions (gPPI): What are they and What they can tell us" Speaker: Donald McLaren, PhD, Department of Neurology, Harvard Medical School.

May 1, 2015: TBA

Other information

Protocols in the scanner:

Info about specific processing pipelines implemented on Cheaha

Info about backup resources

Links to info about certain most used protocols and software downloads and mailing lists for different software.

Neuroimaging at UAB

UAB Neuroimaging Facilities

Civitan Functional Neuroimaging Laboratory

Director: Mark Bolding, PhD


The Civitan Functional Neuroimaging Laboratory (CFNL) is located on the first floor of the Civitan International Research Center at the University of Alabama at Birmingham. It houses a research dedicated Siemens Allegra 3T head-only scanner for structural and functional brain imaging, an MRI preparation room for pre- and post-scan patient monitoring, and a fully-equipped experimental suite for behavioral recording.

Single and 4 channel TR head coils are available for use with the Siemens Allegra 3T scanner. Standard Siemens pulse sequences are used in general although some have been modified for research purposes. Triggering signals are available for investigators to synchronize stimulus presentation and behavioral monitoring with scans.

The CFNL is equipped with an IFIS-SA system for audio/visual stimulation. Visual stimulus presentation can be delivered using an advanced fiber optic system (IFIS-SA) or using back-projection with an LCD projector and a screen at the end of the patient table.

Auditory stimuli are presented using a pneumatic headphone system (IFIS-SA). Behavioral measurement can be accomplished using IFIS-SA button response units or fORP joystick and button boxes. Cardiac and respiratory functions can be monitored using an Invivo remote physiological monitoring system. In addition, Eyelink equipment and software is available for eyetracking during scanning.

Scans available: Functional (BOLD) MRI, Diffusion Tensor Imaging, Magnetic Resonance Spectroscopy, as well as other traditional T1 and T2-weighted structural scans.

Equipment 3T Siemens Allegra MRI scanner

Center Affiliation Civitan International Research Center

Serving - UAB Internal and External

UAB-HSF MEG Laboratory

Small Animal Imaging Shared Facility

Equipment for collecting behavioral data during Neuroimaging

Neuroimaging and Systems Neuroscience Labs at UAB

Cluster Computing Environment at UAB: Cheaha

  • Cheaha_GettingStarted - information on getting an account and learning about how to use the cluster
  • Cheaha - background information on the cluster useful for grants and publications

UAB-Auburn University Collaboration for Neuroimaging

Auburn University MRI Research Center Siemens Magnetom 7T

UAB & Auburn Neuroimaging Journal Club

  • Neuroimaging journal Club. Every other Friday at noon, second floor CIRC. Contact Adrienne Lahti to get on the mailing list

UAB & Auburn Neuroimaging Retreat


How To...

Computer and coding related how-to's

Using Linux



Coding Help

fMRI related how-to's and important links

General Information


Brain atlases

Cool Websites for Beginners

fMRI statistics

UAB Neuroimaging Tools and How-To's (requires blazer id)

Imaging Protocols

Analysis Scripts

Behavioral data analysis techniques

Institutional Review Board

Personal tools