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NCBC CollaborationNCBC Collaboration1 R01 EB008171-01A13D Shape Analysis for Computational Anatomy3D Shape Analysis for Computational Anatomy
Michael I Miller [email protected] N Botteron (Psychiatry, Washington University School of Medicine)Will Schroeder (Kitware)Tilak Ratnanather (JHU)Michael Bowers (JHU)Michael Bowers (JHU)Anthony Kolasny (JHU)Laurent Younes (JHU)Joseph Hennessey (JHU)
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Computational Functional AnatomyComputational Functional Anatomy is the study of structure and function of populations in anatomical coordinatesanatomical coordinates.
One thing that is hard is that Anatomical coordinates are curved.
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We compute statistics using p gGaussian random fields on the
i bl d l tresponse variables and complete orthonormal bases indexed over the anatomical coordinates.
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The Statistical ParadigmSh E d d
Caudate Template Injected into Targets
Shape Encoded onTemplate Surface
Structures via R d Fi ldMRI Target Random Field
ModelsMRI Target
Caudate
Template
k kF F φ=∑structure-function Laplace-Beltrami orresponse-variables PCA Basis
k kk
φ∑
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Laplace‐Beltrami Operatorh lOrthonormal Base
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Computational AnatomyAnalysis Toolkit
CIS Contribution to ITKYears 1&2Years 1&2
•Laplace Beltrami
•PCA
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NCBC Pipeline Data Flow
Atlas SceneAtlas
ATLAS
Subject Files
Atlas SceneGraph Library
Data
ATLASvtkPolyDatavtkImageData
vtkPolyDatavtkImageData
lddmmvtkPolyDatavtkImageData
Visualization
CIS Comp.Anat. ToolkititkVtkConv
itk::Meshitk::Image
Visualization
Grant Results/Atlas
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CA Analysis Example cont.: l lLaplace‐Beltrami Operator
• Implement asImplement as itk::QuadEdgeMeshToQuadEdgeMeshFilter
• Eventually add to itk:: under BasicFilters• Eventually add to itk:: under BasicFilters
• Use existing itk and vnl functions (i.e., no new d d i h ARPACK)dependencies such as ARPACK)
• Add capability for closed and open surfaces
• Add capability for PCA base
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The CFA Program: Calculate Bijections Between Anatomical Coordinate Systems
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Surface Harmonics
0 05
2.5
3
3.5
0
0.05
Amygdala
1.5
2
-0.05
Hippocampus
LB Basis 1 LB Basis 2 LB Basis 3
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Template Injection into Populations
hippocampusventricle hippocampus
caudate hippocampus
Qiu, Miller “Multi‐Structure Network Shape Analysis via Normal Momentum Maps”, NeuroImage, 2008.
caudate
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Left and right templates of the basal ganglia in the medial view. The caudate (C), putamen (P), and globus pallidus (G) are respectively represented in blue, yellow, and greenp y g
Qui A, Crocetti D, Adler M, Mahone EM, Denckla M, Miller MI, Mostofsky SH (2009) Basal Ganglia Volume and Shape in Children With Attention Deficit H ti it Di d A J P hi t 166 74 82Hyperactivity Disorder. Am. J. Psychiatry. 166: 74-82. http://dx.doi.org/10.1176/appi.ajp.2008.08030426
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Diagnostic effects within boys
Qui A, Crocetti D, Adler M, Mahone EM, Denckla M, Miller MI, Mostofsky SH (2009) Basal Ganglia Volume and Shape in Children With Attention Deficit H ti it Di d A J P hi t 166 74 82Hyperactivity Disorder. Am. J. Psychiatry. 166: 74-82. http://dx.doi.org/10.1176/appi.ajp.2008.08030426
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Subcortical Shape Analysis in DementiaGroups N
gender age(mean±SD)male female
control 133 71 62 75.8±4.90MCI 170 119 51 74.6±7.39MCI 170 119 51 74.6±7.39AD 80 49 31 75.2±7.62
CON vs. AD
Am
VHp
V
shrinkageexpansion
VV
Reconstructions in statistically significant p<.05 Anqi Qiu Christine Fennema Notestine, Anders M. Dale, Michael I. Miller, and the Alzheimer’s Disease Neuroimaging Initiative, "Regional Subcortical Shape Abnormalities in Mild Cognitive Impairment and Alzheimer's Disease ", NeuroImage,45:656‐661, 2009
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The ROI Statistical ParadigmSh E d d
Caudate Template Injected into Targets
Shape Encoded onTemplate Surface
Structures via R d Fi ldMRI Target Random Field
ModelsMRI Target
Caudate
Template
k kF F φ=∑structure-function Laplace-Beltrami orresponse-variables PCA Basis
k kk
φ∑