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NAMIC Activity Report

NAMIC Activity Report. Polina Golland Core 1, MIT. Registration and Segmentation EM segmentation Atlas construction DTI Probabilistic tractography DTI fiber clustering. Shape analysis Overcomplete wavelets on a sphere fMRI Activation profiles Spatial patterns.

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NAMIC Activity Report

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  1. NAMIC Activity Report Polina Golland Core 1, MIT

  2. Registration and Segmentation EM segmentation Atlas construction DTI Probabilistic tractography DTI fiber clustering Shape analysis Overcomplete wavelets on a sphere fMRI Activation profiles Spatial patterns Broad Overview of Activities

  3. Outline • Tissue classification • EM segmentation module in Slicer 3 • Group-wise registration • Atlas construction in ITK • Forward compatibility with XNAT • Tractography • Probabilistic tractography module in Slicer 3

  4. Tissue Classification Kilian Pohl (MIT/BWH), Brad Davis (Kitware), Sylvain Bouix (Harvard), Mareck Kubici (Harvard), Martha Shenton (Harvard), Sandy Wells (BWH), Polina Golland (MIT)

  5. Slicer 3 Module • Structure hierarchy • Registration • Atlas-to-subject • Multimodal

  6. Publications • K.M. Pohl et al. A hierarchical algorithm for MR brain image parcellation. IEEE TMI 2007. • L. Zollei et al. The Impact of Atlas Formation Methods on Atlas-Guided Brain Segmentation, Statistical Registration. MICCAI 2007 Statistical Registration Workshop: Pair-wise and Group-wise Alignment and Atlas Formation, 2007. • M. Nakamura et al. Neocortical gray matter volume in first episode schizophrenia and first episode affective psychosis: a cross-sectional and longitudinal MRI study. Biological Psychiatry 2007. • Min-Seong Koo et al. Smaller neocortical gray matter and larger sulcal CSF volumes in neuroleptic-naive females with schizotypal personalitydisorder. Archives of General Psychiatry 2006.

  7. Group-wise Registration Serdar Balci (MIT), Brad Davis (Kitware), Mert Sabuncu (MIT), Lilla Zollei (MGH), Sylvain Bouix (Harvard), Mareck Kubici (Harvard), Martha Shenton (Harvard), Sandy Wells (BWH), Polina Golland (MIT)

  8. ITK command-line app • Jointly align all images • MI or Variance • Affine or BSpline • Optimization • Stochastic sampling • Multi-resolution • Gradient descent with line search

  9. Publications • MICCAI 2007 Statistical Registration Workshop: • S.K. Balci et al. Free-Form B-spline Deformation Model for Groupwise Registration. • L. Zöllei et al. The Impact of Atlas Formation Methods on Atlas-Guided Brain Segmentation. • M.R. Sabuncu, et al. Joint Registration and Clustering of Images. • S.K. Balci, et al. Non-rigid Groupwise Registration using B-Spline Deformation Model. MICCAI 2007 Workshop on Open-Source and Open-Data. • A. Mewes, et al. Displacement of Brain Regions in Preterm Infants with Non-Synostotic Dolichocephaly Investigated by MRI, NeuroImage 2007.

  10. 31.2 yrs 68.9 yrs 79.5 yrs Future Work • Explore structure within populations • Representative templates • Grouping of subjects • Preliminary study: • Oasis dataset (oasis-brains.org) • 416 subjects, 18-96 years old • run time: 5-6h on a 16 core 128GB PC

  11. DTI Tractography Tri Ngo (MIT/BWH), Mareck Kubici (Harvard), Carl-Frederick Westin (BWH), Polina Golland (MIT)

  12. Slicer 3 Module • MCMC sampling method • Local uncertainty: DTI tensor • ROI initialization • Stopping criteria

  13. Publications & Plans • T.M. Ngo, et al. A White Matter Stochastic Tractography System. MICCAI 2007 Workshop on Open-Source and Open-Data. • Collaborative clinical study with Harvard.

  14. Registration and Segmentation EM segmentation Atlas construction DTI Probabilistic tractography DTI fiber clustering Shape analysis Overcomplete wavelets on a sphere fMRI Activation profiles Spatial patterns Broad Overview of Activities

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