Ongoing BIRN-GCRC Collaborations
description
Transcript of Ongoing BIRN-GCRC Collaborations
Ongoing BIRN-GCRC Collaborations
• Medical College Wisconsin (non BIRN site)– Functional MRI acquisition calibration
• University of Texas (non BIRN site)– Expand taxonomy for neuroimaging database
• BWH, Harvard Medical School– Enhance cardiac MRI analysis & visualization tools
• BWH & MGH, Harvard Medical School– Functional MRI cross-site calibration
Jorge Jovicich, Ph.D.Massachusetts General Hospital - Harvard Medical School
Functional MRI acquisition calibration
• Sites– GCRC: MCW (P.I. Steven Rao)– BIRN: UCI, Stanford
• Collaboration goal– Apply FBIRN QA methods in a novel environment
• Value to GCRC– Experience using the QA methods to determine that
scanner quality is comparable with other sites
• Value to BIRN– Validate QA methods outside of FBIRN network– Receive feedback improve
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Quality Assurance: stability of MRI Signal
0
0.025
0.05
0.075
0.1
0.125
0.15
0.175
0.2
0.225
0.25
0.275
0.3
0.325
0.35
0.375
0.4
0.425
0.45
10/31/99
11/14/99
1/7/00
1/25/00
2/16/00
2/26/00#2
3/15/00
4/1/00#1
4/8/00
4/18/00
4/25/00
5/12/00
6/9/00
7/12/00
7/21/00
8/16/00
8/29/00
9/13/00#2
9/18/00#2
9/18/00#4
10/14/00
10/25/00#1
10/26/00
11/17/00
12/15/00
1/5/01
1/31/01
2/23/01#2
3/15/01
3/22/01#2
5/21/01
7/2/01
7/27/01#1
8/10/01
fBIRN recommendation
Typical brain
BIRN Interactions with MCW
• MCW: new 3T GE MRI scanner• Interested in:
– Method for assessing fMRI signal stability– Comparison with fBIRN
• Doped-water phantom shipped for QA• Agar phantom being procured
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Sample Results
• Sites– GCRC: UTSA (P.I. Peter Fox)– BIRN: UCI
• Background– Brainmap (www.brainmap.org) stores published neuroimaging results – Used for meta-analyses prior to experimental design– BIRN HID stores clinical info, fMRI metadata results, link to images
• Collaboration goal:– Enable [BrainMap + BIRN HID] queries for fMRI experimental results– Need common descriptors (taxonomy) for fMRI experiments
• Value to GCRCs– Improved experimental taxonomies (better BrainMap database)
– Improved experimental designs (meta-analysis [BrainMap + BIRN HID])
• Value to BIRN– Improved experimental taxonomies for a better HID design
– Improved query interface through integration with BrainMap
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Expanding taxonomy for neuroimaging databases
• Integrating BIRN and BrainMap data descriptions– BIRN describes data from every subject– BrainMap describes only group results– Integration & expansion of Meta-data descriptions
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Expanding taxonomy for neuroimaging databases
Expansions to
include fBIRN
cognitive tasks
Brain Map
• Sites– GCRC: BWH (P.I. Gail Adler)– BIRN: BWH
• Background– PET standard for cardiac perfusion– Perfusion MRI has potentials– Challenge quantification due to physiological motion. Automate.
• Collaboration goals
Extend and apply function BIRN tools for:
• Image registration algorithms (fully & semi-automated)
• Interactive time-series data management
• Value to GCRCs– Dissemination of improved tools (3D Slicer and Insight Toolkit)
– Training, expertise sharing, requirements definition future projects
• Value to BIRN– Extend and validate tools for non-brain imaging
– Expertise sharing
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Enhance cardiac perfusion MRI analysis & visualization tools
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Cardiac perfusion MRI
time series
Original sequence
Correctedsequence
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Need for data management & manual interaction (BIRN)
Interval Browser (3D Slicer) fBIRN visualization. In development
Extensions
Load, inspect , animate DICOM cardiac perfusion MRI datasets, key frame registrations
Future work• Investigate non-rigid registration
• Integrate perfusion processing in registration
• Sites– GCRC: BWH (P.I. Reisa Sperling)– BIRN: BWH & MGH
• Background– Longitudinal fMRI for clinical trials– Challenge: optimize reproducibility
• Collaboration goalCombine expertise from mBIRN & fBIRN toquantify and improve test-retest reproducibility
• Value to GCRCs– Dissemination acquisition protocols & correction methods– Improved multi-site MRI clinical trials
• Value to BIRN– Test and improve calibration methods
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Functional MRI cross-site calibration
Evolution of fMRI activation
Early vs. Late MCI
Early MCI (N=12) Late MCI (N=11)
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
Value of longitudinal MRI studies
Goal: detect neuroimaging changes before behavioural changes
MCI: Mild Cognitive Impairment
Hippocampus
Preliminary Test-Retest Assessments
MGH BWH
Retest
Activation in LH hippocampus
MGH – Siemens 3T
Activation in LH hippocampus
BWH – GE 3TTest
GCRC:
• MCW
• UTSA
• BWH
• BWH/MGH
LH: Left Hemisphere
Future work:
• Optimize reproducibility metrics
• Minimize variability in acquisition protocols
• Introduce fBIRN & mBIRN calibration methods
Statistical power estimationfrom measured reproducibility errors
Acknowledgements
• For all the work: – Our GCRC collaborators and BIRN
• For these slides:– UCI: Jessica Turner– BWH: Wendy Plesniak, Steve Pieper,
Reisa Sperling– MGH: Doug Greve