Sources of actual imaging data
for mega- or meta-analyses
Jessica A. Turner
Psychology Dept.
Neuroscience Institute
Georgia State University
OHBM workshop, June 2014
Main point
• Where do I get legacy fMRI data to do metaor mega-analyses on?
Levels of “openness”
1) Truly open
– Click and download, no questions asked
• Almost everyone wants you to register…
2) Open, but we want information
– Fill out a form/register, get approval, click and download
– These vary tremendously in complexity!
3) Closed, but we collaborate if you ask nicely
4) Closed, and don’t even ask
Who maintains the
repositories?
• International collaboration
– INCF Dataspace
• Maintained directly by/at NIH
– DbGap, NDAR
• Individual institutions
– COINS, LONI, XNAT
• Individual labs or projects
– Openfmri.org, FBIRN, 1000_FNC/INDI
• Federations of individual sources
– NIF, SzConnect
What kind of data do they
have?
• Some repositories are disease specific
– NDAR: autism
– FITBIR: TBI
– FBIRN: Schizophrenia
• Others are healthy subjects only
– openfMRI.org
• Others are multiple studies, multiple disorders
– COINS: Sz, autism, alcoholism, etc.
– LONI: Autism, Parkinson’s, TBI, etc.
– XNAT Central: ADHD, AD, Glioma, etc.
Types of imaging data
• Structural T1 images (most common)
• DTI images
• fMRI data
– Resting state
– Task based
Institutional databases
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COINS
1000_FNC/INDI
LONI
XNAT Central
COINS Data Exchange
Coins.mrn.org: Requires registering your email so they can let you know when your files are
ready for download.
COINS Data Exchange
Study
Subject types
ABIDE
Autism, control, unknown
COBRE
bipolar, szAff, Sz, control
CoRR
unknown
Discoverysci
subject_count mr_count
1112
2253
233
1782
1418
4858
children, adults, elderly
371
2719
MCICShare
Sz, controls
213
4483
agHyper
diabetic, hypertensive, controls
99
More info on Corr Study: http://fcon_1000.projects.nitrc.org/indi/CoRR/html/
COINS Data Exchange
1000 Functional
Connectomes/INDI project
fcon_1000.projects.nitrc.org
1000 FC
LONI
XNAT Central
Central.xnat.org
FBIRN
http://fbirnbdr.nbirn.net:8080/BDR/
Email required so they can send you links
for downloads.
Data from BrainScape and FBIRN studies
(multi-site, Sz and controls, function &
structure).
PING
Pingstudy.ucsd.edu
openfMRI.org
Openfmri.org
Openfmri.org
US Gov’t hosted
• NDAR: National Database for Autism Research
• dbGAP: Database for Genotypes and
Phenotypes
• FITBIR: Federal Interagency Traumatic Brain
Injury Research (FITBIR) informatics system
NDAR
Not the easiest access…
Searching for Data
FITBIR
dBGAP
Neurodevelopmental Genomics: Trajectories of
Complex Phenotypes
Neuroimaging from PNC
Satterthwaite, et al. Neuroimaging of the Philadelphia Neurodevelopmental Cohort,
NeuroImage, Volume 86, 1 February 2014, Pages 544-553.
Other resources
• NITRC: www.nitrc.org
• NIF: www.neuinfo.org
NITRC
www.nitrc.org: Lots of data sources listed!
NIF
www.neuinfo.org
Live and learn…
Repositories that are coming soon
INCF Data Space
• http://www.incf.org/resources/data-space
INCF Data Space
INCF Terms of Use
INCF Data Space
• Number of available MRI datasets?
SchizConnect
Mediated queries across repositories of schizophrenia neuroimaging datasets.
(coming late2014)
SchizConnect
The actual list
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www.nitrc.org, www.neuinfo.org,
http://ndar.nih.gov/
https://dbgap.ncbi.nlm.nih.gov
https://fitbir.nih.gov/
coins.mrn.org; loni.usc.edu; central.xnat.org
openfmri.org
http://fbirnbdr.nbirn.net:8080/BDR/
Pingstudy.ucsd.edu
http://www.incf.org/resources/data-space
Schizconnect.org (eventually)
Acknowledgments
With thanks to
Neuroimagers everywhere
who are willing to share their data!!
(and funding sources…)