Difference between revisions of "2008 Winter Project Week:fmri image analysis"

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<h1>Objective</h1>
 
<h1>Objective</h1>
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We have developed techniques for finding the optimal geodesic path (or anchor tract) between two regions of interest in DWMRI data.
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To implement an fMRI analysis pipeline in the Slicer 3 framework including:
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a) Slice timing correction (open)
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The objectives of this project are to port the Fast Sweeping and optimal geodesic path tractography code to ITK as well as the code to provide for volumetric segmentation of DW-MRI data.
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b) Inter-slice motion correction (done)
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c) Spatial normalization (open)
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See our [[Algorithm:GATech:Finsler_Active_Contour_DWI| Project Page]] for more details.
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d) Co-registration of functional and structural data (open)
  
 
</div>
 
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Revision as of 19:59, 19 December 2007

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fMRI Image of the Brain after Inter-slice Motion Correction


Key Investigators

  • Ohio State University: Firdaus Janoos, Raghu Machiraju
  • BWH: Steve Pieper, Wendy Plesniak
  • Kitware: Luis Ibanez

Objective

To implement an fMRI analysis pipeline in the Slicer 3 framework including: a) Slice timing correction (open) b) Inter-slice motion correction (done) c) Spatial normalization (open) d) Co-registration of functional and structural data (open)

Approach, Plan

Our approach is described by the references below. Our challenge is to build the ITK infrastructure (such as new ITK iterators) to support this algorithm. Our main purpose at the Project Week is to collaborate on new algorithms and clinical data to provide the best solutions for our DBP partners.

Progress

June 2007 Project Week

During this Project Week, we did a lot of algorithmic design work, focusing on leveraging optimal or geodesic path information to provide for volumetric segmentations of fiber bundles. Working with Marek Kubicki and the Harvard DBP, we were able to begin the process of applying our algorithm to the full cingulum bundle with new labelmaps and to a new fiber bundle - Arcuate. We have recently achieved significant results in volumetric segmentations using a locally-constrained region-based technique (see the images above).

Jan 2007 Project Half Week

We finished the itkDirectionalIterator which will be needed in the Fast Sweeping implementation. Furthermore, we made progress in porting our Matlab code to ITK.



References

  • J. Melonakos, M. Niethammer, V. Mohan, M. Kubicki, J. Miller, A. Tannenbaum. Locally-Constrained Region-Based Methods for DW-MRI Segmentation. Submitted to MMBIA 2007.
  • V. Mohan, J. Melonakos, M. Niethammer, M. Kubicki, and A. Tannenbaum. Finsler Level Set Segmentation for Imagery in Oriented Domains. BMVC 2007.
  • J. Melonakos, V. Mohan, M. Niethammer, K. Smith, M. Kubicki, and A. Tannenbaum. Finsler Tractography for White Matter Connectivity Analysis of the Cingulum Bundle. MICCAI 2007.
  • J. Melonakos, E. Pichon, S. Angenet, and A. Tannenbaum. Finsler Active Contours. IEEE Transactions on Pattern Analysis and Machine Intelligence, to appear in 2007.
  • E. Pichon and A. Tannenbaum. Curve segmentation using directional information, relation to pattern detection. In IEEE International Conference on Image Processing (ICIP), volume 2, pages 794-797, 2005.
  • E. Pichon, C-F Westin, and A. Tannenbaum. A Hamilton-Jacobi-Bellman approach to high angular resolution diffusion tractography. In International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), pages 180-187, 2005.
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