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We propose a non-parametric, probabilistic model for the automatic segmentation of medical images,
given a training set of images and corresponding label maps. The resulting inference algorithms we
develop rely on pairwise registrations between the test image and individual training images. The
training labels are then transferred to the test image and fused to compute a final segmentation of
the test subject. More...
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In this project we develop and validate a method for fully automated segmentation of the subfields of the hippocampus in ultra-high resolution in vivo MRI. More...
New: Automated Segmentation of Hippocampal Subfields from Ultra-High Resolution In Vivo MRI, K. Van Leemput, A. Bakkour, T. Benner, G. Wiggins, L.L. Wald, J. Augustinack, B.C. Dickerson, P. Golland, and B. Fischl. Hippocampus. Accepted for Publication, 2009.
Encoding Probabilistic Atlases Using Bayesian Inference, K. Van Leemput. IEEE Transactions on Medical Imaging. Accepted for Publication, 2009.
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In this work, we propose and investigate an algorithm that jointly co-registers a collection of images while computing multiple templates. The algorithm, called iCluster, is used to compute multiple atlases for a given population.
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New: Image-driven Population Analysis through Mixture-Modeling, M.R. Sabuncu, S.K. Balci, M.E. Shenton and P. Golland. IEEE Transactions on Medical Imaging. Accepted for Publication, 2009.
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We present the fast Spherical Demons algorithm for registering two spherical images. By exploiting spherical vector spline interpolation theory, we show that a large class of regularizers for the modified demons objective function can be efficiently approximated on the sphere using convolution. Based on the one parameter subgroups of diffeomorphisms, More...
New: B.T.T. Yeo, M. Sabuncu, T. Vercauteren, N. Ayache, B. Fischl, P. Golland. Spherical Demons: Fast Surface Registration. MICCAI, volume 5241 of LNCS, 745--753, 2008.
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We propose a unified framework for computing atlases from manually labeled data sets at various degrees of “sharpness” and the joint registration and segmentation of a new brain with these atlases. Using this framework, we investigate the tradeoff between warp regularization and image fidelity, i.e. the smoothness of the new subject warp and the sharpness of the atlas in a segmentation application.
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New: B.T.T. Yeo, M.R. Sabuncu, R. Desikan, B. Fischl, P. Golland. Effects of Registration Regularization and Atlas Sharpness on Segmentation Accuracy. Medical Image Analysis, 12(5):603--615, 2008.
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In this project we aim to improve the EPI distortion correction algorithms More...
New: Poynton C., Jenkinson M., Whalen S., Golby A.J., Wells III W. Fieldmap-Free Retrospective Registration and Distortion Correction for EPI-Based Functiona Imaging. MICCAI 2008.
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In this project we study the application of model-based clustering algorithms in identification of functional connectivity in the brain. More...
New: D. Lashkari, E. Vul, N. Kanwisher, P. Golland. Discovering Structure in the Space of Activation
Profiles in fMRI. MICCAI 2008.
New: A. Venkataraman, K.R.A. Van Dijk, R.L. Buckner, P. Golland. Exploring Functional Connectivity in fMRI via Clustering. ICASSP 2009.
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In this work, we extend the Euclidean wavelets to the sphere. The resulting over-complete spherical wavelets are invariant to the rotation of the spherical image parameterization. We apply the over-complete spherical wavelet to cortical folding development More...
New: B.T.T. Yeo, P. Yu, P.E. Grant, B. Fischl, P. Golland. Shape Analysis with Overcomplete Spherical Wavelets. Proceedings of the International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), volume 5241 of LNCS, 468--476, 2008
B.T.T. Yeo, W. Ou, P. Golland. On the Construction of Invertible Filter Banks on the 2-Sphere. Yeo, Ou and Golland. IEEE Transactions on Image Processing. 17(3):283--300. 2008.
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The goal of this work is to model the shape of the fiber bundles and use this model description in clustering and statistical analysis of fiber tracts. More...
New: Mahnaz Maddah, Marek Kubicki, William M. Wells, Carl-Fredrik Westin, Martha E. Shenton and W. Eric L. Grimson, Findings in Schizophrenia by Tract-Oriented DT-MRI Analysis. MICCAI 2008.
M. Maddah, L. Zollei, W. E. L. Grimson, W. M. Wells, Modeling of Anatomical Information in Clustering of White Matter Fiber Trajectories Using Dirichlet Distribution. MMBIA 2008.
M. Maddah, L. Zollei, W. E. L. Grimson, C-F Westin, W. M. Wells, A Mathematical Framework for Incorporating Anatomical Knowledge in DT-MRI Analysis. ISBI 2008.
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Spatial priors, such as probabilistic atlases, play an important role in MRI segmentation. The atlases are typically generated by averaging manual labels of aligned brain regions across different subjects. However, the availability of comprehensive, reliable and suitable manual segmentations is limited. We therefore propose a joint segmentation of corresponding, aligned structures in the entire population that does not require a probability atlas. More...
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This type of algorithm assigns a tissue type to each voxel in the volume. Incorporating prior shape information biases the label assignment towards contiguous regions that are consistent with the shape model. More...
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We extend a previously demonstrated entropy based groupwise registration method to include a free-form deformation model based on B-splines. We provide an efficient implementation using stochastic gradient descents in a multi-resolution setting. We demonstrate the method in application to a set of 50 MRI brain scans and compare the results to a pairwise approach using segmentation labels to evaluate the quality of alignment.
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The goal of this work is to jointly register and cluster DWI fiber tracts obtained from a group of subjects. More...
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The goal of this project is to provide structural description of the white matter architecture as a partition into coherent fiber bundles and clusters, and to use these bundles for quantitative measurement. More...
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We are exploring algorithms for improved fMRI detection and interpretation by incorporting spatial priors and anatomical information to guide the detection. More...
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Unlike conventional MRI, DTI provides adequate contrast to segment the thalamic nuclei, which are gray matter structures. More...
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This work calculates posterior distributions of white matter fiber tract parameters given diffusion observations in a DWI volume. More...
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Our goal is to develop mathematical approaches to modeling anatomical variability within and across populations using tools like local shape descriptors of specific regions of interest and global constellation descriptors of multiple ROI's. More...
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