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Visualization of Brain Structures
We work on visualizing diffusion tensor MRI(DTI) data sets. We extract the diffusion information from the diffusion tensor fields by constructing goemtric models that match different types of diffusions. The models are displayed on various graphics environment, including the Cave and the fishtank VR system. The doctors are using our system to discover features and patterns in DTI data sets.
Project status: Active
Project Home Page: http://www.cs.brown.edu/research/graphics/research/sciviz/brain/brain.html
Research Areas
| Scientific Visualization and Modeling |
Research Themes
| Applications to Medicine |
| Virtual Reality |
People
| Daniel Acevedo |
| Marco DaSilva |
| Cagatay Demiralp |
| Cullen Jackson |
| Daniel Keefe |
| David H. Laidlaw |
| Andreas Wenger |
| Song Zhang |
Publications
Correia, S., Lee, S. Y., Malloy, P., Mehta, N., Zhang, S., Salloway, S., and Laidlaw, D. H. Diffusion-Tensor MRI Tractography Methods for Assesing White Matter Health and Its Relationship to Cognitive Functioning. In Proceedings of the International Neurophisiological Society (Boston, Feb 2006). [ pdf ]
Lee, S., Correia, S., Tate, D., Paul, R., Zhang, S., Salloway, S., Malloy, P., and Laidlaw, D. H. Quantitative Tract-of-Interest Metrics for White-Matter Integrity Based on Diffusion Tensor MRI Data. In Proceedings International Society for Magnetic Resonance in Medicine (ISMRM) (2006). [ pdf ]
Paul, R. H., Laidlaw, D. H., Tate, D. F., Lee, S., Hoth, K., Gunstad, J., Zhang, S., Cohen, R. A., and Flanigan, T. Neuropsychological and neuroimaging outcome of HIV-associated progressive multifocal leukoencephalopathy in the era of ART: a case report. HIV Medicine (2006). [ pdf ]
Zhang, S., Correia, S., Tate, D. F., and Laidlaw, D. H. Correlating DTI fiber clusters with white-matter anatomy. In Proceedings International Society for Magnetic Resonance in Medicine (ISMRM) (2006). [ pdf ]
Simon, J. H., Zhang, S., Laidlaw, D. H., Miller, D. E., Brown, M., Corboy, J., Singel, D., and Bennett, J. Strategy for Detecting Neuronal Fibers at Risk for Neurodegeneration In Earliest MS by Streamtube Tractography at 3T. In Proceedings International Society for Magnetic Resonance in Medicine (ISMRM) (Miami, FL, May 2005). [ pdf ]
Tate, D., Gunstad, J., Paul, R., Zhang, S., Laidlaw, D. H., and Cohen, R. Fractional Anisotropy in Subcortical White Matter Regions of Interest Among Cardiovascular Patients. In Proceedings International Society for Magnetic Resonance in Medicine (ISMRM) (Miami, FL, May 2005). [ pdf ]
Zhang, S., and Laidlaw, D. H. DTI Fiber Clustering and Cross-subject Cluster Analysis. In Proceedings International Society for Magnetic Resonance in Medicine (ISMRM) (Miami, FL, May 2005). [ pdf ]
Correia, S., Brennan-Krohn, T., Zhang, S., Laidlaw, D. H., Malloy, P., and Salloway, S. Diffusion-Tensor Imaging and Executive Function in Subcortical Ischemic Vascular Disease and Mild Cognitive Impairment. In International Neuropsychological Society conference (Feb 2005). [ pdf ]
Correia, S., Brennan-Krohn, T., Schlicting, E., Zhang, S., Laidlaw, D. H., Malloy, P., and Salloway, S. Diffusion-Tensor Imaging in Vascular Cognitive Impairment and Mild Cognitive Impairment: Relationship with Executive Functioning. In Proceedings of the 2nd Congress of the International Society for Vascular, Cognitive and Behavioural Disorders (Florence, Italy, Jun 2005). [ pdf ]
Kaufman, J. A., Ahrens, E. T., Laidlaw, D. H., Zhang, S., and Allman, J. M. Anatomical analysis of an aye-aye brain (Daubentonia madagascariensis, primates: Prosimii) combining histology, structural magnetic resonance imaging, and diffusion-tensor imaging. Anatomical Record 287A, 1 (Nov 2005), 1026-1037. [ pdf ]
Salloway, S., Correia, S., Malloy, P., Heindel, W., and Laidlaw, D. H. Diffusion-Tensor Imaging: Frontal Executive Function in Vascular Cognitive Impairement. In Collaborative for Translational Brain Research Symposium (Apr 2005). [ pdf ]
Simon, J. H., Corboy, J., Zhang, S., and Laidlaw, D. H. Visualization of Fibers at Risk for Neuronal Tract Degeneration in Early MS by Streamtube Diffusion Tractography, Apr 2005.
Vilanova, A., Zhang, S., Kindlmann, G., and Laidlaw, D. H. An Introduction to Visualization of Diffusion Tensor Imaging and its Applications. In Visualization and Image Processing of Tensor Fields, J. Weichert and H. Hagen, Eds. Springer-Verlag, 2005. [ pdf ]
Acevedo, D., Zhang, S., Laidlaw, D. H., and Bull, C. Color Rapid Prototyping for Diffusion Tensor MRI Visualization. In Proceedings of MICCAI 2004 Short Papers (Sep 2004).
Ahrens, E. T., J.M.Allman, E.Bush, Laidlaw, D. H., and Zhang, S. Comparative 3D Anatomy of the Prosimian Brain:DTI and Histological Studies. In Proceedings of the Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (2004).
Brennan-Krohn, T., Correia, S., Zhang, S., Laidlaw, D. H., Malloy, P., and Salloway, S. Diffusion-Tensor Imaging and Executive Function in Subcortical Vascular Disease. In Proceedings of the Workshop on Aging Connections: Advanded MRI of Age-related White Matter Changes in the Brain (2004), ISMRM.
Correia, S., Brennan-Krohn, T., Zhang, S., Laidlaw, D. H., Malloy, P., and Salloway, S. Diffusion-Tensor Imaging and Executive Function in Subcortical Ischemic Vascular Disease and Mild Cognitive Impairment. In Proceedings of the International Neurophisiological Society (2004). [ pdf ]
Laidlaw, D. H., davidkremers, Toga, A., Drury, F., and Jacobs, R. E. Panel: Applying Lessons from Visual Art to Exploration of the Brain. In Proceedings of the 37th Annual Winter Conference on Brain Research (Jan 2004). [ pdf ]
Laidlaw, D. H., Zhang, S., Bastin, M., Correia, S., Salloway, S., and Malloy, P. Ramifications of Isotropic Sampling and Acquisition Orientation on DTI Analyses. In Proceedings of the Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (2004).
Laidlaw, D. H., Zhang, S., Bastin, M., Correia, S., Salloway, S., and Malloy, P. Ramifications of Isotropic Sampling and Acquisition Orientation on DTI Analyses. In Proceedings of the Scientific Meeting and Exhibition of the International Society for Magnetic Resonance in Medicine (2004). [ pdf ]
Wenger, A., Keefe, D., Zhang, S., and Laidlaw, D. H. Interactive Volume Rendering of Thin Thread Structures within Multivalued Scientific Datasets. IEEE Transactions on Visualization and Computer Graphics 10, 6 (Nov 2004), 664-672.
Zhang, S., and Laidlaw, D. H. DTI Fiber Clustering in the Whole Brain. In Proceedings of the IEEE Visualization Conference (Oct 2004), p. 28. [ pdf ]
Zhang, S., Kindlmann, G., and Laidlaw, D. H. Diffusion Tensor MRI Visualization. In Visualization Handbook, C. Johnson and C. Hansen, Eds. Academic Press, Jun 2004. [ pdf ]
Zhang, S., and Laidlaw, D. H. A Model for Some Subcortical DTI Planar and Linear Anisotropy. In Proceedings of the International Conference on Medical Image Computing and Computer Assisted Intervention (Sep 2004), pp. 1071-1073. [ pdf ]
Zhang, S., and Laidlaw, D. H. Towards a Global Tractography-based Model of FA. In Proceedings of the Workshop on Aging Connections: Advanced MRI of Age Related White Matter Changes in the Brain (2004), International Society for Magnetic Resonance in Medicine. [ pdf ]
Zhang, S., Bastin, M., Laidlaw, D. H., Sinha, S., Armitage, P. A., and Deisboeck, T. S. Visualization and Analysis of White Matter Structural Asymmetry in Diffusion Tensor MR Imaging Data. Magnetic Resonance in Medicine 51, 1 (2004), 140-147.
Zhang, S., Simon, J. H., Laidlaw, D. H., Brown, M., and Miller, D. M. Visualization of the Interaction of Multiple Sclerosis lesions with adjacent white matter fibers using Streamtubes and Streamsurfaces. In IEEE Visualization Poster Compendium (Oct 2004).
Demiralp, C., Laidlaw, D. H., Jackson, C., Keefe, D., and Zhang, S. Subjective Usefulness of CAVE and Fish Tank VR Display Systems for a Scientific Visualization Application. In Proceedings of the IEEE Visualization Conference Poster Compendium (Seattle, WA, 2003). [ pdf ]
DaSilva, M., Zhang, S., Demiralp, C., and Laidlaw, D. H. Visualizing the Differences between Diffusion Tensor Volume Images. In Proceedings ISMRM Workshop in Diffusion MRI: Biophysical Issues (Mar 2002), pp. 237-238.
Zhang, S., Laidlaw, D. H., Bastin, M., Sinha, S., and Deisboeck, T. S. Application of DTI Visualization and Analysis on a Data Set from a Brain Tumor Patient. In Proceedings of the IEEE Visualization Conference Poster Compendium (Oct 2002). [ pdf ]
Zhang, S., and Laidlaw, D. H. Hierarchical Clustering of Streamtubes. Tech. Rep. CS-02-18, Brown University, Department of Computer Science, Aug 2002. [ pdf ]
Ahrens, E. T., Dubowitz, D. J., and Laidlaw, D. H. FMRI in Mouse at 11.7 Tesla. In Proceedings of the International Society for Magnetic Resonance in Medicine 9th Scientific Meeting (Berkeley, CA, 2001).
Ahrens, E. T., Dubowitz, D., and Laidlaw, D. H. Peripheral Somatosensory fMRI in Mouse at 11.7 Tesla. In Proceedings of the Meeting of the International Society for Magnetic Resonance in Medicine (ISMRM) (Glasgow, Scotland, 2001). [ pdf ]
DaSilva, M., Zhang, S., Demiralp, C., and Laidlaw, D. H. Visualizing Diffusion Tensor Volume Differences. In Proceedings of the IEEE Visualization Conference, Work in Progress (Oct 2001), pp. 16-17. [ pdf ]
Jacobs, R. E., Laidlaw, D. H., Burns, G., Moats, R., and Toga, A. Multimodal Multidimensional Digital Develomental Atlas of Mouse Brain. In Proceedings of the Winter Conference on Brain Research, Panel Session (Jan 2001).
Laidlaw, D. H., Fleischer, K., and Barr, A. Partial-Volume Bayesian Classification with Voxel Histograms. In Handbook of Medical Image Processing, I. N. Bankman, Ed. Academic Press, 2001, pp. 195-211.
Severance, K., Brewster, P., Lazos, B., and Keefe, D. Wind Tunnel Data Fusion and Visualization in an Immersive Environment: A Case Study. In Proceedings of IEEE Visualization 2001 (Oct 2001), pp. 505-508. [ pdf ]
Simon, J. H., Jacobs, L., and Kinkel, R. Transcallosal bands: a sign of neuronal tract degeneration in early MS? Neurology, 10 (Nov 2001), 1888-90.
Zhang, S., and Laidlaw, D. H. Ellucidating Neural Structure in Diffusion Tensor MRI Volumes using Streamtubes and Streamsurfaces. In Proceedings of the 9th International Society of Magnetic Resonance in Medicine (Apr 2001). [ pdf ]
Zhang, S., Demiralp, C., Keefe, D., DaSilva, M., Greenberg, B. D., Basser, P. J., Pierpaoli, C., Chiocca, E. A., Deisboeck, T. S., and Laidlaw, D. H. An Immersive Virtual Environment for DT-MRI Volume Visualization Applications: a Case Study. In Proceedings of the IEEE Visualization Conference (Oct 2001), pp. 437-440. [ pdf ]
Zhang, S., Demiralp, C., DaSilva, M., Keefe, D., Laidlaw, D. H., Greenberg, B. D., Basser, P. J., Pierpaoli, C., Chiocca, E., and Diesboeck, T. S. Toward Application of Virtual Reality to Visualization of DT-MRI Volumes. In Proceedings of the Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI) (Oct 2001), pp. 1406-1408. [ pdf ]
Zhang, S., Curry, C. T., Morris, D. S., and Laidlaw, D. H. Visualizing Diffusion Tensor MR Images Using Streamtubes and Streamsurfaces. In Poster at Human Brain Project Annual Meeting (May 2000). [ pdf ]
DaSilva, M., Laidlaw, D. H., and Tyszka, J. M. Reducing Errors due to Partial-Volume Effects and Noise in Pressure Maps Calculated for MR Velocity Data. In Proceedings of the 8th International Conference of the Society for Magnetic Resonance in Medicine (Apr 2000).
Simon, J. H., Kinkel, R., Jacobs, L., Bub, L., and Simonian, N. A Wallerian degeneration pattern in patients at risk for MS. Neurology, 5 (Mar 2000), 1155-60.
Zhang, S., Curry, C. T., Morris, D. S., and Laidlaw, D. H. Streamtubes and Streamsurfaces for Visualizing Diffusion Tensor MRI Volume Images. In Proceedings of the IEEE Visualization Conference, Work in Progress (Oct 2000). [ pdf ]
Ahrens, E. T., Laidlaw, D. H., Readhead, C., and Fraser, S. E. Investigating White Matter Diffusion Anisotropy Using the Desmyelinating Shiverer Mutant Mouse. In Proceedings of the 7th Meeting of the International Society for Magnetic Resonance in Medicine (May 1999).
Laidlaw, D. H., and Tyszka, J. A Demonstration of Errors in Relative Pressure Calculations for MR Velocity Data. In Proceedings of the 7th Meeting of the International Society for Magnetic Resonance in Medicine (May 1999). [ pdf ]
Laidlaw, D. H., Cook, K. L., and Goldfeld, Y. M. Evaluating Effects of Diffusion Weighting Choice on Accuracy of Diffusion Tensor MRI of Fixed Mouse Spinal Cord. In Proceedings of the 7th Meeting of the International Society for Magnetic Resonance in Medicine, Poster Session (May 1999). [ pdf ]
Jacobs, R. E., Ahrens, E. T., Dickinson, M. E., and Laidlaw, D. H. Towards a MicroMRI Atlas of Mouse Development. Computerized Medical Imaging and Graphics 23, 1 (Jan 1999), 15-24. [ pdf ]
Laidlaw, D. H. Continuous Bayesian Tissue Classification for Visualization Techniques. In Data Visualization Techniques, C. Bajaj, Ed. 1999, pp. 107-129.
Laidlaw, D. H., and Tyszka, J. M. Evaluating Numerical Methods for Blood Pressure MRI. In Proceedings of the Laverna Titus Young Investigators Forum (May 1998).
Ahrens, E. T., Laidlaw, D. H., Readhead, C., Brosnan, C. F., and Fraser, S. E. MR Microscopy of Transgenic Mice that Spontaneously Aquire Experimental Allergic Encephalomyelitis. Magnetic Resonance In Medicine 40, 1 (Jul 1998), 119-132. [ pdf ]
Ahrens, E. T., Fraser, S. E., Narasimhan, P. T., Jacobs, R. E., and Laidlaw, D. H. Multi-valued MR Microscopy of the Embryonic Mouse Nervous System. In abstract and poster, ENC (1998).
Laidlaw, D. H., Ahrens, E. T., Avalos, M. J., Montague, M. D., Barr, A. H., Jacobs, R. E., and Fraser, S. E. Goal-directed Optimization of Magnetic Resonance Imaging. In Neuroscience Abstracts (Nov 1998).
Laidlaw, D. H. On the Optimality of Partial Volume Classification Methods: Voxel Histogram Classification vs. Eigenimage Filtering. IEEE Transactions on Medical Imaging 17, 6 (Dec 1998), 1094-1096.
Laidlaw, D. H., Fleischer, K. W., and Barr, A. H. Partial-Volume Bayesian Classification of Material Mixtures in MR Volume Data Using Voxel Histograms. IEEE Transactions on Medical Imaging 17, 1 (Feb 1998), 74-86. [ pdf ]
Simon, J. H., Jacobs, L., Campion, M., Wende, K., Simonian, N., Cookfair, D., Rudick, R., Herndon, R., Richert, J., Salazar, A., Alam, J., Fischer, J., Goodkin, D., Granger, C., Lajaunie, M., Martens-Davidson, A., Meyer, M., Sheeder, J., Choi, K., Scherzinger, A., Bartoszak, D., Bourdette, D., Braiman, J., Brownscheidle, C., Coats, M., Cohan, S., Dougherty, D., Kinkel, R., Mass, M., Munschauer, F., Priore, R., Pullicino, P., Scherokman, B., Weinstock-Guttman, B., Whitham, R., and (MSCRG), T. M. S. C. R. G. Magnetic Resonance Studies of Intramuscular r-Interferon Beta-1a for Relapsing Magnetic Resonance Studies of Intramuscular r-Interferon Beta-1a for Relapsing Multiple Sclerosis. Annals of Neurology (1998), 79-87.
Laidlaw, D. H., Barr, A. M., and Jacobs, R. E. Goal-directed Magnetic Resonance Brain Micro-imaging. In Neuroinformatics: An Overview of the Human Brain Project, S. Koslow and M. F. Huerta, Eds. 1997, pp. 125-202.
Ghosh, P., Laidlaw, D. H., Fleischer, K. W., Barr, A., and Jacobs, R. E. Pure Phase-Encoded MRI and Classification of Solids. IEEE Transactions on Medical Imaging 14, 3 (1995), 608-615. [ pdf ]
Laidlaw, D. H. Bayesian Mixture Classification of MRI Data for Geometric Modeling and Visualization. In abstract and poster for International Workshop on Mixtures (Sep 1995).
Laidlaw, D. H. Geometric Model Extraction from Magnetic Resonance Volume Data. PhD thesis, California Institute of Technology, 1995. [ pdf ]
Kirk, D. B., Laidlaw, D. H., and Barr, A. H. Registration and Computational Staining of Multiple MRI Data Sets. In Proceedings of the Australian Conference for Computer Graphics (AUSGRAPH 1990) (Sep 1990).
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