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Polina Golland Core 1, MIT
NAMIC Activity Report Polina Golland Core 1, MIT
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Broad Overview of Activities
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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Outline Tissue classification Group-wise registration Tractography
EM segmentation module in Slicer 3 Group-wise registration Atlas construction in ITK Forward compatibility with XNAT Tractography Probabilistic tractography module in Slicer 3
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Tissue Classification
Kilian Pohl (MIT/BWH), Brad Davis (Kitware), Sylvain Bouix (Harvard), Mareck Kubici (Harvard), Martha Shenton (Harvard), Sandy Wells (BWH), Polina Golland (MIT)
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Slicer 3 Module Structure hierarchy Registration Atlas-to-subject
Multimodal
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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.
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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)
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ITK command-line app Jointly align all images Optimization
MI or Variance Affine or BSpline Optimization Stochastic sampling Multi-resolution Gradient descent with line search
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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.
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Future Work Explore structure within populations Preliminary study:
79.5 yrs 68.9 yrs 31.2 yrs Explore structure within populations Representative templates Grouping of subjects Preliminary study: Oasis dataset (oasis-brains.org) 416 subjects, years old run time: 5-6h on a 16 core 128GB PC
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DTI Tractography Tri Ngo (MIT/BWH), Mareck Kubici (Harvard), Carl-Frederick Westin (BWH), Polina Golland (MIT)
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Slicer 3 Module MCMC sampling method ROI initialization
Local uncertainty: DTI tensor ROI initialization Stopping criteria
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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.
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Broad Overview of Activities
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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