Difference between revisions of "2010 Summer Project Week Cortical Thickness Analysis"
From NAMIC Wiki
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Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]] | Image:PW-MIT2010.png|[[2010_Summer_Project_Week#Projects|Projects List]] | ||
Image:Arctic_Logo.png|[http://www.nitrc.org/projects/arctic ARCTIC: Automatic Regional Cortical ThICkness] | Image:Arctic_Logo.png|[http://www.nitrc.org/projects/arctic ARCTIC: Automatic Regional Cortical ThICkness] | ||
− | Image:BrainDevelopment.jpg|[http://www.nitrc.org/projects/gambit GAMBIT: Group-wise Automatic Mesh-Based analysis of cortIcal Thickness ] | + | Image:BrainDevelopment.jpg|[http://www.nitrc.org/projects/gambit GAMBIT: Group-wise Automatic Mesh-Based analysis of cortIcal Thickness] |
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Image:MeshBasedCortThick_Particles.jpg|Particles on inflated genus-zero cortical surface | Image:MeshBasedCortThick_Particles.jpg|Particles on inflated genus-zero cortical surface | ||
</gallery> | </gallery> | ||
− | + | {| | |
+ | | [[Image:GAMBIT_QC_CorticalThickness.png|thumb|500px|Cortical thickness overlayed on inflated cortical surfaces]] | ||
+ | | [[Image:GAMBIT_QC_SulcalDepth.png|thumb|500px|Sulcal depth overlayed on inflated cortical surfaces]] | ||
+ | |} | ||
==Key Investigators== | ==Key Investigators== | ||
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* Follow-up on GAMBIT: further developmenent | * Follow-up on GAMBIT: further developmenent | ||
** Prodiving new 3D Slicer MRML scenes for improved quality control | ** Prodiving new 3D Slicer MRML scenes for improved quality control | ||
− | ** Meet with Manasi Datar and Josh Cates (Utah U.) regarding ShapeWorks | + | ** Meet with Manasi Datar and Josh Cates (Utah U.) regarding new features on ShapeWorks (future use of template/sample dataset with fixed particles...) |
</div> | </div> |
Revision as of 15:38, 23 June 2010
Home < 2010 Summer Project Week Cortical Thickness AnalysisKey Investigators
- UNC: Clement Vachet, Heather Cody Hazlett, Martin Styner
Objective
We would like to create end-to-end applications within Slicer3 allowing voxel-based and mesh-based group analyses of cortical thickness.
Such a workflow applied to the young brain (2-4 years old) is our goal in order to start a longitudinal study of early brain development in autism (UNC DBP).
See our Roadmap for more details.
Approach, Plan
Our approach is described in the following wiki pages:
Two 3D Slicer high-level modules have been developped in that regard:
- ARCTIC: Automatic Regional Cortical ThICkness
- GAMBIT: Group-wise Automatic Mesh-Based analysis of cortIcal Thickness
Our plan for the project week is to:
- Follow-up on ARCTIC: Make it directly available as a 3D Slicer extension on MAC (compilation issues apparently)
- Follow-up on GAMBIT: further developmenent
- Prodiving new 3D Slicer MRML scenes for improved quality control
- Meet with Manasi Datar and Josh Cates (Utah U.) regarding new features on ShapeWorks (future use of template/sample dataset with fixed particles...)
Progress
Delivery Mechanism
This work will be delivered to the NA-MIC Kit as a:
- ITK Module
- Slicer Module
- Built-in
- Extension -- commandline - YES
- Extension -- loadable
- Other (Please specify)
References
- I. Oguz, M. Niethammer, J. Cates, R. Whitaker, T. Fletcher, C. Vachet, and M. Styner, Cortical Correspondence with Probabilistic Fiber Connectivity, Information Processing in Medical Imaging, IPMI 2009, LNCS, in print.
- H.C. Hazlett, C. Vachet, C. Mathieu, M. Styner, J. Piven, Use of the Slicer3 Toolkit to Produce Regional Cortical Thickness Measurement of Pediatric MRI Data, presented at the 8th Annual International Meeting for Autism Research (IMFAR) Chicago, IL 2009.
- C. Vachet, H.C. Hazlett, M. Niethammer, I. Oguz, J.Cates, R. Whitaker, J. Piven, M. Styner, Mesh-based Local Cortical Thickness Framework, UNC Radiology Research Day 2010 abstract
- C. Mathieu, C. Vachet, H.C. Hazlett, G. Geric, J. Piven, and M. Styner, ARCTIC – Automatic Regional Cortical ThICkness Tool, UNC Radiology Research Day 2009 abstract
- J Cates, P T Fletcher, M Styner, M Shenton, R Whitaker. Shape Modeling and Analysis with Entropy-Based Particle Systems. Information Processing in Medical Imaging IPMI 2007, LNCS 4584, pp. 333-345, 2007