Publications

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The following publications gratefully acknowledge the support of NA-MIC. Please see NA-MIC acknowledgement instructions for instructions on how to acknowledge NA-MIC in your publications.

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The majority of our papers are listed in Medline. Please click the link below to see these papers.

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NA-MIC Kit publications also appear in the Insight Journal, an NLM supported effort to implement Open Science. Please click the link below to see these papers.

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Publications not indexed by Medline

Note: Many technical journals are not listed in Medline. Medline therefore only holds a subset of NA-MIC related refereed publications. The rest of this page contains publications that do not appear in Medline.

Peer Reviewed Journal Papers

In Press

  1. Gilmore John H., Lin Weili, Corouge Isabelle, Vetsa Y. Sampath K., Smith J. Keith, Kang Chaeryon, Gu Hongbin, Hamer Robert M., Lieberman Jeffrey A., Gerig Guido, Early Postnatal Development of Corpus Callosum and Corticospinal White Matter Assessed with Quantitative Tractography, accepted AJNR- (American Journal of Neuroradiology), in print
  2. Liu T, Young G, Huang L, Chen N-K, Wong S. “76-space Analysis of Grey Matter Diffusivity: Methods and Applications,” in press, NeuroImage.
  3. Koo MS, Levitt JJ, McCarley RW, Seidman LJ, Dickey CC, Niznikiewicz MA, Voglmaier MM, Zamani P, Long KL, Kim SS, Shenton ME. Reduction of caudate volume in neuroleptic-naive female subjects with schizotypal personality disorder. Biol Psychiatry (In Press).
  4. Onitsuka T, Niznikiewicz MA, Spencer KM, Frumin M, Kuroki N, Lucia LC, Shenton ME, McCarley RW. Schizophrenia is associated with functional and structural deficits in brain regions subserving face processing. Am J Psychiatry (In Press).
  5. Zhu L., Yang Y., Haker S., Tannenbaum A. An Image Morphing Technique Based on Optimal Mass Preserving Mapping. IEEE Trans. Image Processing. 2007. In Press.
  6. Melonakos J., Pichon E., Angenent S., Tannenbaum A. Finsler Active Contours. IEEE PAMI. 2007. In Press.
  7. Georgiou T., Michailovich O., Rathi Y., Tannenbaum A. Distribution Metrics and Image Segmentation. Linear Algebra and Its Applications, 2007. In Press.
  8. Rathi Y, Vaswani N, Tannenbaum A, Yezzi Y. Tracking Deforming Objects Using Particle Filtering for Geometric Active Contours. IEEE PAMI, 2007. In Press.
  9. Gilbertson MW, Williston SK, Paulus LA, Lasko NB, Gurvits TV, Shenton ME, Pitman RK, Orr SP. Configural cue performance in identical twins discordant for PTSD: Theoretical implications for the role of hippocampal function. Biological Psychiatry. 2007. In Press.
  10. M. Nakamura, D. F. Salisbury, Y. Hirayasu, S. Bouix, K. M. Pohl, T. Yoshida, M.-S. Koo, M. E. Shenton and R. W. McCarley, “Neocortical gray matter volume in first episode schizophrenia and first episode affective psychosis: a cross-sectional and longitudinal MRI study”. Biological Psychiatry. 2007. In Press.
  11. S. Bouix, M. Martin-Fernandez, L. Ungar, M. Nakamura, M.-S. Koo, R. W. McCarley and M. E. Shenton, “On evaluating brain tissue classifiers without a ground truth”. Neuroimage. 2007. In Press.
  12. K. M. Pohl, S. Bouix, M. Nakamura, T. Rohlfing, R. W. McCarley, R. Kikinis, W. E. L. Grimson, M. E. Shenton and W. M. Wells, “A hierarchical algorithm for MR brain image parcellation”, IEEE Transactions on Medical Imaging. 2007. In Press.
  13. K. M. Pohl, S. Bouix, M. E. Shenton, R. W. McCarley, W. E. L. Grimson, R. Kikinis and W. M. Wells, “Using the logarithm of odds to define a vector space on probablistic atlases”, Medical Image Analysis. 2007. In Press.

2007

  1. Taylor WD, MacFall JR, Gerig G, Krishnan KR. Structural integrity of the uncinate fasciculus in geriatric depression: Relationship with age of onset. In press, Neuropsychiatric Disease and Treatment.
  2. Martin K, Hoffman B. An Open Source Approach to Developing Software in a Small Organization. IEEE Software. January/February 2007 (Vol. 24, No. 1).
  3. Rathi Y., Vaswani N., Tannenbaum A. Generic Framework for Tracking Using Particle Filter with Dynamic Shape Prior. IEEE Transactions on Image Processing. 2007: 16:1370-1382.

2006

  1. Niethammer M, Vela P, Tannenbaum A. On the evolution of closed curves by means of vector distance functions. Int. Journal Computer Vision, 2006; 65: 5-27. PDF
  2. Niethammer M, Tannenbaum A, Angenent S. Dynamic active contours. IEEE Trans. Automatic Control. 2006; 51:562-579. PDF
  3. Angenent S., Pichon E., Tannenbaum A. Mathematical Methods in Medical Imaging. Bull. Amer. Math. Soc. 2006; 43: 365-396.
  4. Niethammer M, Tannenbaum A, Kalies W, Mischaikow K. Detecting simple points in higher dimensions. IEEE Trans. Image Processing, 2006. 15: 2462- 2469.
  5. Rathi Y, Dambreville S, Tannenbaum A. Comparative analysis of kernel methods for statistical shape learning. CVAMIA'06, 2006.
  6. Fletcher PT, Joshi S. Riemannian Geometry for the Statistical Analysis of Diffusion Tensor Data. Signal Processing, 2006.
  7. Keator, D.; Grethe, J.S.; Marcus, D.; Ozyurt, B.; Gadde, S.; Murphy, S.; Pieper, S.; Greve, D.; Notestine, R.; Bockholt, H.J; Papadopoulos, P.; Function BIRN; Morphometry BIRN; BIRNCoordinating Center. A National Human Neuroimaging Collaboratory Enabled By The Biomedical Informatics Research Network (BIRN). IEEE Transactions on Information Technology in Biomedicine Special Bio-Grid edition. 2006.

Peer Reviewed Conference Proceedings

Conferences included here represent the major high quality conferences in medical image analysis (MICCAI, IPMI, MMBIA, ISBI). These conferences only accept submission of full papers and guarantee a peer review process by at least three reviewers and an area chair. Acceptance rates are below 40% for MICCAI, IPMI and MMBIA and around 50% for ISBI.

2007

  1. U. Ziyan, M.R. Sabuncu, L. O'Donnell, C-F. Westin. Fiber Bundle-based Nonlinear Registration of Diffusion MR Images. MICCAI 2007. In Press.
  2. B.T.T. Yeo, M.R. Sabuncu, R. Desikan, P. Golland, B. Fischl. Effects of Registration Regularization and Atlas Sharpness on Segmentation Accuracy. To appear in Proc. MICCAI 2007: International Conference on Medical Image Computing and Computer Assisted Intervention.
  3. Goodlett, Casey , Fletcher, P. Thomas , Lin, Weili , and Gerig, Guido, "Quantification of measurement error in DTI: Theoretical predictions and validation", in print MICCAI 2007, to appear Nov. 2007
  4. M. Maddah, W. M. Wells, S. K. Warfield, C.-F. Westin, and W. E. L. Grimson, Probabilistic Clustering and Quantitative Analysis of White Matter Fiber Tracts, IPMI 2007, Netherlands.
  5. P. Golland, Y. Golland, R. Malach. Detection of Spatial Activation Patterns Through Unsupervised Segmentation of fMRI Images. To appear in Proc. MICCAI 2007: International Conference on Medical Image Computing and Computer Assisted Intervention.
  6. W. Ou, P. Golland, Matti Hamalainen. Sources of Variability in MEG Signals. To appear in Proc. MICCAI 2007: International Conference on Medical Image Computing and Computer Assisted Intervention.
  7. G. M. Postelnicu, L. Zöllei, R. Desikan and B. Fischl, "Geometry Driven Volumetric Registration", IPMI 2007, Netherlands.
  8. L. Zöllei, M. Jenkinson, S. Timoner and W. M. Wells:"A marginalized MAP approach and EM optimization for pair-wise registration", IPMI 2007, Netherlands.
  9. Styner M, Xu SC, El-Sayed M, Gerig G, Correspondence Evaluation in Local Shape Analysis and Structural Subdivision, IEEE Symposium on Biomedical Imaging ISBI 2007, in print
  10. Zhou C, Park DC, Styner M, Wang YM, ROI Constrained Statistical Surface Morphometry, IEEE Symposium on Biomedical Imaging ISBI 2007, in print
  11. D. Nain, M. Styner, M. Niethammer, J. J. Levitt, M E Shenton, G Gerig, A. Bobick, A. Tannenbaum. Statistical Shape Analysis of Brain Structures using Spherical Wavelets. Accepted in The Fourth IEEE International Symposium on Biomedical Imaging (ISBI ’07), April 12-15, 2007, Washington DC, USA.
  12. Goodlett C, Fletcher PT, Lin W, and Gerig G. Noise-induced bias in low-direction diffusion tensor MRI: Replication of Monte-Carlo simulation with in-vivo scans. Accepted ISMRM 2007.
  13. M. Styner, I. Oguz, S. Xu, D. Pantazis, and G. Gerig. Statistical group differences in anatomical shape analysis using hotelling T2 metric. Proc SPIE Medical Imaging Conference, in print, 2007.
  14. D. Nain, M. Styner, M. Niethammer, J. Levitt, M. Shenton, G. Gerig, A. Tannenbaum. Statistical Shape Analysis of Brain Structures Using Spherical Wavelets. ISBI'07. 2007.
  15. J. Malcolm , Y. Rathi, A. Tannenbaum, Graph Cut Segmentation with Nonlinear Shape Priors. ICIP`07. In Press.
  16. O. Michailovich and A. Tannenbaum. Segmentation of Medical Ultrasound Images Using Active Contours. ICIP`07. In Press.
  17. J. Melonakos, V. Mohan, A. Tannenbaum. Finsler Tractography for White Matter Connectivity Analysis of Cingulum Bundle. MICCAI'07. In Press.
  18. Y. Rathi, J. Malcolm, A. Tannenbaum. Segmenting Images on the Tensor Manifold. CVPR'07. In Press.
  19. M. Niethammer, S. Bouix, C.-F. Westin, M. E. Shenton. "Outlier Rejection for Diffusion Weighted Images", MICCAI'07. In Press.

2006

  1. Kim S, Smyth P. Hierarchical Dirichlet processes with random effects. Advances in Neural Information Processing Systems 19, to appear, 2006. PDF
  2. Styner M, Jomier M, Gerig G: Closed and Open Source Neuroimage Analysis Tools and Libraries at UNC. IEEE Symposium on Biomedical Imaging ISBI. 2006; 702-705. PDF
  3. M. Maddah, W. E. L. Grimson, and S. Warfield, Statistical Modeling and EM Clustering of White Matter Fiber Tracts, ISBI 2006: IEEE 2006 International Symposium on Biomedical Imaging, Arlington, VA, April 6-9, 2006
  4. Gerig G, Joshi S, Fletcher T, Gorczowski K, Xu S, Pizer SM, Styner M. Statistics of populations of images and its embedded objects: Driving applications in neuroimaging. IEEE Symposium on Biomedical Imaging ISBI. 2006; 1120-1123. PDF
  5. Pieper S, Lorensen W, Schroeder W, Kikinis R. The NA-MIC Kit: ITK, VTK, Pipelines, Grids and 3D Slicer as An Open Platform for the Medical Image Computing Community. IEEE Symposium on Biomedical Imaging ISBI. 2006; 698-701.
  6. Rathi Y, Olver P, Sapiro G, Tannenbaum A. Affine Invariant Surface Evolutions for 3D Image Segmentation, SPIE 2006
  7. Rathi Y, Dambreville S, Tannenbaum A. Comparative Analyis of Kernel Methods for Statistical Shape Learning, 2nd Workshop on Computer Vision Approaches to Medical Image Analysis (in conjunction with ECCV) 2006.
  8. Eric Pichon, Delphine Nain, and Marc Niethammer. A Laplace Equation Approach for Shape Comparison. Proc SPIE Medical Imaging, 2006.
  9. Al-Hakim R, Fallon J, Nain D, Melonakos J, Tannenbaum A. A Dorsolateral Prefrontal Cortex Semi-Automatic Segmenter. Proc SPIE Medical Imaging, 2006.
  10. O'Donnell L, Westin C-F. A High-Dimensional Fiber Tract Atlas. ISMRM 2006.
  11. Zöllei L, Wells WM III. Multi-modal Image Registration Using Dirichlet-encoded Prior Information. oral presentation at WBIR06
  12. Cates J, Meyer M, Fletcher PT, Whitaker R. Entropy-Based Particle Systems for Shape Correspondence. accepted to MICCAI'06 Workshop on Mathematical Foundations of Computational Anatomy (MFCA).
  13. Pohl KM, Fisher J, Shenton M, McCarley R, Grimson WEL, Kikinis R, Wells WW. Logarithm Odds Maps for Shape Represention. Ninth International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2006, Lecture Notes in Computer Science, volume 4191, pp. 955-963, 2006. Springer Berlin, Heidelberg 2006 (http://dx.doi.org/10.1007/11866763_117 ).
  14. Haidar H, Bouix S, Levitt JJ, Dickey CC, McCarley RW, Shenton ME, Soul JS. Characterizing the Shape of Anatomical Structures with Poisson’s Equation. Proceedings of the Seventh International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2006;25:1249-57.
  15. Niethammer M, Bouix S, Westin C-F, Shenton M. Fiber Bundle Estimation and Parameterization. Ninth International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2006; 4191:252-259.
  16. Niethammer M, Estepar RSJ, Bouix S, Shenton ME, Westin C-F. On Diffusion Estimation. Paper presented at the International Conference of the Engineering in Medicine and Biology Society, New York, New York, 2006.
  17. M. Niethammer, R. San Jose Estepar, S. Bouix, M. E. Shenton and C.-F. Westin, On Diffusion Tensor Estimation, in: International Conference of the IEEE Engineering in Medicine and Biology Society, pp. 2622–2625, 2006.
  18. Styner M, Oguz I, Xu S, Brechbuhler C, Pantazis D, Levitt J, Shenton M, Gerig G. Framework for the statistical shape analysis of brain structures using SPHARM-PDM, Open Science Workshop at the Ninth International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2006, Copenhagen, published at Insight Journal Dspace link: http://hdl.handle.net/1926/215.

2005

  1. Pichon E, Tannenbaum A. Curve segmentation using directional information, relation to pattern detection. Proc IEEE International Conference on Image Processing (ICIP), 2005
  2. Pohl KM, Fisher J, Kikinis R, Grimson WEL, Wells WM. Shape Based Segmentation of Anatomical Structures in Magnetic Resonance Images, In Proc. ICCV 2005: Computer Vision for Biomedical Image Applications: Current Techniques and Future Trend, An International Conference on Computer Vision Workshop, Beijing, China, Springer-Verlag, vol. 3765 of Lecture Notes in Computer Science, 2005
  3. Zöllei L, Learned-Miller E, Grimson WEL, Wells WM III. Efficient Population Registration of 3D Data. Proc ICCV 2005, Computer Vision for Biomedical Image Applications; Beijing, China
  4. Fletcher PT, Whitaker RT. Riemannian Metrics on the Space of Solid Shapes. accepted to MICCAI'06 Workshop on Mathematical Foundations of Computational Anatomy (MFCA).
  5. Martin-Fernandez M, Bouix S, Ungar L, McCarley RW, Shenton ME. Two Methods for Validating Brain Tissue Classifiers. Eighth International Conference on Medical Image Computing and Computer Assisted Interention, MICCAI 2005, Palm Springs, CA, USA: J. Duncan and G. Gerig (Eds.): Lecture Notes in Computer Science, volume 3749, pp 515-522, 2005. Springer-Verlag Berlin Heidelberg, 2005.
  6. Pohl KM, Fisher F, Levitt JJ, Shenton ME, Kikinis R, Grimson WEL, Wells WM. A unifying approach to registration, segmentation, and intensity correction. Eighth International Conference on Medical Image Computing and Computer Assisted Intervention, MICCAI 2005, Palm Springs, CA, USA: J. Duncan and G. Gerig (Eds.): Lecture Notes in Computer Science, volume 3749, pp. 310-318, 2005. Springer Verlag Berlin Heidelberg, 2005.
  7. Pohl KM, Bouix S, Shenton ME, Grimson WEL, Kikinis R. Automatic segmentation using non-rigid registration. In short communications of MICCAI 2005: Eighth International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Palm Springs, CA, USA, 2005.

Book Chapters

2006

  1. S. Bouix, K. Siddiqi, A. Tannenbaum, and S. Zucker. Medial axis computation and evolution. Statistics and Analysis of Shape edited by Hamid Krim and A. Yezzi, Birhauser, 2006, pages 1-29.
  2. S. Dambreville, Y. Rathi, and A. Tannenbaum. A shape-based approach to robust image segmentation. Image Analysis and Recognition, Lecture Notes in Computer Science volume 4141 (2006), pp. 173-183.
  3. Y. Rathi, S. Dambreville, A. Tannenbaum. Particle filtering with dynamic shape priors. Image Analysis and Recognition, Lecture Notes in Computer Science 4141 (2006), pp. 886-897.

2005

  1. Nain D, Tannenbaum A, Unal G, Yezzi A, Zeitouni O. On a stochastic model of geometric snakes. Mathematical Methods in Computer Vision: A Handbook, edited by Faugeras O, Paragios N, Springer-Verlag, 2005.
  2. Angenent S, Tannenbaum A, Yezzi A, Zeitouni O. Curve shortening and interacting particle systems. Book chapter in a volume edited by Hamid Krim, 2005.

Submitted and in Preparation

  1. Szymczak A, Tannenbaum A, Stillman A. 3D models of airway trees from CT scans: a point-based approach. submitted to IEEE Trans. Medical Imaging, 2007.
  2. Michailovich O, Tanenbaum A. Fast approximation of smooth functions from samples of partial derivatives. Submitted for publication to IEEE Signal Processing, 2006.
  3. Flashman LA, Roth RM, Koven NS, McAllister TW, Vidaver RM, Pendergrass JC. Neural Correlates of Self-Evaluation in Individuals with Schizophrenia. in preparation.
  4. Han X, Fischl B. Intensity Renormalization for Improved Brain MR Image Segmentation across Scanner Platforms, submitted to IEEE Transactions on Medical Imaging.
  5. Voineskos AN, Zai G, Bulgin N, Shaikh S, Lang D, Honer WG, Kennedy JL. MAG but not CNP Gene Associated with Total Brain White Matter. In Preparation. Presented in Part at World Congress of Psychiatric Genetics Annual Meeting. October, 2006.
  6. Michailovich O., Tannenbaum A. Image Segmentation Using Active Contours Driven by Information-Based Criteria. Submitted to IEEE Trans. Image Processing, 2006.
  7. Michailovich O., Rathi Y., Tannenbaum A. Blind Deconvolution of Medical Ultrasound Images: Parametric Inverse Filtering Approach. Submitted to IEEE Trans. Image Processing, 2007.

List of publications from other NCBCs:

  1. Search Medline for CCB-enabled publications
  2. Search Medline for I2B2-enabled publications
  3. Search Medline for SIMBIOS-enabled publications
  4. Search Medline for NCIBI-enabled publications
  5. Search Medline for C2B2-enabled publications
  6. Search Medline for Bioontology-enabled publications
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