Cheaha - User contributions [en]

File:Core2.png

2018-04-04T20:13:42Z

Pstew@uab.edu:

List of speakers in Visual Brain Core Seminar Series

2018-03-01T18:30:56Z

Pstew@uab.edu: Fix date Typo

[[Link title]]Previous talks from newest to oldest for the Brain Core Seminar Series from the Civitan International Neuroimaging Labs.
Meetings are at noon on the second Friday of the month in Civitan International Research Center room 120.

'''Feb 9, 2018''': "An unfortunate number of things indexed by head motion" Jonathan Power, MD, PhD, Weill Cornell Medical School

'''December 15, 2017''': "Stimulus Locked Network Dynamics" Chris Honey, PhD, Johns Hopkins University

'''October 13, 2017''': "CMEG in epilepsy care: Current applications and the need for innovation" Ismail Mohamed, M.D., FAAP, FRCPC, UAB

'''September 8, 2017''': "Corrections for multiple comparisons in voxel-based lesion-symptom mapping" Daniel Mirman, PhD, UAB

'''June 9, 2017''': Hyemin Han, PhD, University of Alabama, Tuscaloosa

'''May 12, 2017''': "Threats to Valid Inference in fMRI" Tal Yarkoni, PhD, University of Texas at Austin

'''April 14, 2017''': "Stress reactivity in patients with psychogenic nonepileptic seizures" Jane Allendorfer, PhD, UAB

'''March 3, 2017''': "Diffusion Imaging" Anastasia Yendiki, PhD, Massachusetts General Hospital

'''Feb 3, 2017''': "Eddy for FSL: dealing with noise in diffusion images" Jesper Andersson, PhD, writer of EDDY software for Diffusion in FSL

'''December 2, 2016''': "Power analysis for neuroimaging studies: Past, present and future" Jeanette Mumford, PhD, Center for Investigating Healthy Minds Waisman Center, University of Wisconsin-Madison

'''November 4, 2016''': "TBA" Purushotham V. Bangalore, PhD, Department of Computer and Information Sciences, Interim Director of Research Computing, UAB.

'''October 7, 2016''': No seminar due to CCTS Retreat

'''September 9, 2016''': "Measuring Human Melanopsin Function" Geoffrey K. Aguirre, MD, PhD, Department of Neurology, University of Pennsylvania

'''August 5, 2016''': TBA, Kamil Ugurbil, PhD, Director of the Center for Magnetic Resonance Research at the University of Minnesota.

''' July-No Seminar''':

'''June 3, 2016''': "Whole Lotta Shakin' Goin' On: The Artifact Runing your fMRI Data", Erik H. Middlebrooks, Department of Radiology, University of Alabama at Birmingham.

'''May 6, 2016''': "Project Quality Assessment Protocol- a resource for measuring the quality of MRI data", Cameron Craddock, PhD., Nathan S. Kline Institute for Psychiatric Research

'''April 1, 2016''': "Microstructural Modeling in Diffusion MRI", Kristi Clark, PhD, University of Southern California, Department of Neurology.

'''March 4, 2016''': "Using XNAT for neuroimaging data management, sharing, and analysis", Daniel S. Marcus, PhD., Director, Neuroimaging Information Analysis Center, Washington University School of Medicine in St. Louis.

'''February 5, 2016''': "The future of fMRI in Cognitive Neuroscience", Russel Poldrack, PhD, Stanford University, Department of Psychology.

'''December 4, 2015''': "Age Differences in Brain Functioning During Memory Formation and Retrieval", Ian M. McDonough, University of Alabama, Department of Psychology.

'''November 6, 2015''': "Contributions and Challenges for Network Models in Cognitive Neuroscience", Paper Discussion, presentation by Jarrod Hicks.

'''October 2, 2015''': "Resting State Functional Connectivity: Methods, Debates and Clinical Applications" Susan Whitfield Gabrieli, PhD, Massachusetts Institute of Technology (MIT)

'''August 7, 2015''': "Research Computing, Storage, and Networks: the UAB vision and other imperatives for innovation" Curtis Carver, PhD, Vice President and Chief Information Officer, UAB Information Technology

'''June 5, 2015''': "Which fMRI Analysis Software?" Speakers: David Knight, PhD, Department of Psychology; Rodolphe Nenert, PhD, Department of Neurology; Rishi Deshpande, MS, Department of Radiology.''

'''May 1, 2015''': "13C MRS Studies of Brain Metabolism of Alcohol and Acetate" Speaker: Graeme F. Mason, PhD, Department of Diagnostic Radiology, Department of Psychiatry, Yale School of Medicine.

'''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.

'''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.

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

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

'''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.

[https://docs.uabgrid.uab.edu/wiki/Brain_Core back to Brain Core page]

[https://docs.google.com/spreadsheets/d/1d5HD_QUg33LlkiQrFDsEjsqXt_tFecQtz5dPrWk2sB8/edit?usp=sharing Link] to list of upcoming speakers for combined Brain Core seminar series and Neuroimaging Journal club. Together these meet every Friday at noon in CIRC 120. Usually, we have pizza.

VisualBrainCore

2018-01-03T17:26:02Z

Pstew@uab.edu: /* Visual Brain Core Personnel and Office Hours */ updated to reflect new vbc hours

[[File:Core.png|thumb|500px]]

==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]]

[[Media:Visual_Brain_Core_Poster.pdf | Visual Brain Core Poster]]

==Information For Visual Brain Core==

===Visual Brain Core Personnel and Office Hours===

*Ravi Tripathi, MS: Computer Systems Specialist. Consultation on high performance computing and algorithm issues.
**'''Office Hours:
**'''Monday, 10:00 am - 1:00 pm, Civitan International Research Center, Second floor lobby or room 235C.'''
** '''Thursday, 10:00 am - 1:00 pm, Civitan International Research Center, Room 235C.'''

===Visual Brain Core Seminar Series and Neuroimaging Journal Club===
Visual Brain Core seminar series includes high level speakers usually from outside UAB. Every third Friday at noon in CIRC 120.
We will discuss new ideas and techniques in brain imaging.

The Neuroimaging journal club is for UAB and Auburn researchers to share their work, or journal articles of their interest with our neuroimaging community.
[[List of speakers in Visual Brain Core Seminar Series]]

===For Use in Grant Proposals:===
The Visual Brain Core must be eventually supported by users. For this reason, we ask that you include use of the Visual Brain Core resources in the budget of your upcoming grants. Quotations from previous proposals are provided here: [[Grant Proposal Language]].

===VBC Mailing List:===
To subscribe to the VBC mailing list, click [mailto:sympa@vo.uabgrid.uab.edu?subject=none&body=subscribe%20vbc here] (and send the email without any changes) '''''or''''' send an email to [mailto:sympa@vo.uabgrid.uab.edu sympa@vo.uabgrid.uab.edu] with the following text in the body of the email '''subscribe vbc'''

===[[BrainhackUAB]]===

===[[Other information]]===

==Neuroimaging at UAB==

===UAB Neuroimaging Facilities===

[[Civitan International Neuroimaging Laboratory]]

[[UAB-HSF MEG Laboratory]]

[[Small Animal Imaging Shared Facility]]

Equipment for collecting behavioral data during Neuroimaging

*[http://www.sr-research.com/EL_1000.html Eye Tracker]

===Neuroimaging and Systems Neuroscience Labs at UAB===
*[http://www.markbolding.com/ Bolding Lab]

*[http://www.uab.edu/engineering/home/component/contact/contact/82-be/19-allan-c-dobbins?Itemid=999/ Dobbins Lab]

*[https://www.uab.edu/medicine/ophthalmology/faculty/gamlin/ Gamlin Lab]

*[https://www.uab.edu/optometry/home/faculty-staff/faculty-directory/29-facultystaff/facultybio/111-gawnetimothy/ Gawne Lab]

*[http://www.uab.edu/medicine/psychiatry/71-merida-m-grant/ Grant Lab]

*[http://www.uab.edu/cbra/ Kana Lab/Cognition, Brain, and Autism Laboratory]

*[http://www.uab.edu/medicine/radiology/directory/neuro-imaging/24-directory/neuro-imaging/470-rkessler Kessler Lab]

*[http://www.uab.edu/cas/psychology/psy-fac/33-primary-faculty/48-dr-david-knight Knight Lab]

*[http://labs.uab.edu/kwon/ Kwon Lab]

*[http://www.uab.edu/medicine/psychiatry/faculty/faculty-bios/78-adrienne-c-lahti Lahti Lab]

*[http://www.mcconathylab.com/ McConathy Lab]

*[http://www.uab.edu/medicine/neurology/faculty/by-specialty/skidmore/ Skidmore Lab]

*[http://www.uab.edu/medicine/neurology/faculty/a-z/szaflarski Szaflarski Lab]

*[http://visscher.neurobiology.uab.edu/Home.html Visscher Lab ]

*[http://www.uab.edu/medicine/neurology/faculty/by-specialty/walker Walker Lab]

*[http://www.psy.uab.edu/younger/ Younger Lab/Neuroinflammation, Pain and Fatigue Laboratory]

(UAB folks, please let us know if your lab should be included on this list, or add more information about it!)

Here is a [[partial list of manuscripts]] that have resulted from CINL and Visual Brain Core resources.

===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===

'''[http://www.eng.auburn.edu/research/centers/mri/ Auburn University MRI Research Center]'''
'''[http://www.eng.auburn.edu/research/centers/mri/equipment/siemens-magnetom-7t.html 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 alahti at uab.edu

'''[[UAB & Auburn Neuroimaging Retreat]]'''

[[Photos]]

==How To...==

===Computer and coding related how-to's===

[[Using Linux]]

[[Matlab]]

[[Psychtoolbox]]

[[Coding Help]]

[[https://docs.uabgrid.uab.edu/wiki/Box.com_bulk_transfer Saving Data in Box]]

*[[Unix shortcuts]]
*[[Eye Tracker]]

===fMRI related how-to's and important links===

[[General Information]]

[[Tools]]

[[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]]

[[https://uab.box.com/s/1wtg1qbk9st1pekui2dtjksvt2os9els blah]]