SCI Publications
2008
K. Vieira, L. Barbosa, J. Freire, A. Silva.
Siphon++: A Hidden-Web Crawler for Keyword-Based Interfaces, In Proceeding of the 17th ACM conference on Information and knowledge management (CIKM), pp. 1361--1362. November, 2008.
I. Wald, T. Ize, S.G. Parker.
Fast, Parallel, and Asynchronous Construction of BVHs for Ray Tracing Animated Scenes, In Computers and Graphics, Vol. 32, No. 1, pp. 3--13. February, 2008.
H. Wang, C.E. Scheidegger, C.T. Silva.
Optimal Bandwidth Selection for MLS Surfaces, In IEEE International Conference on Shape Modeling and Applications (SMI) 2008, pp. 111--120. 2008.
ISBN: 978-1-4244-2260-9
DOI: 10.1109/SMI.2008.4547957
R.T. Whitaker, R.M. Kirby, J.G. Sinstra, M.D. Meyer.
Multimaterial Meshing of MRI Head Data for Bioelectric Field Simulations, In Proceedings of the 17th International Meshing Roundtable, 2008.
The problem of body fitting meshes that are both adaptive and geometrically accurate is important in a variety of biomedical applications in a multitude of clinical settings, including electrocardiology, neurology, and orthopedics. Adaptivity is necessary because of the combination of large-scale and smallscale structures (e.g. relatively small blood vessels spanning a human head). Geometric accuracy is important for several reasons. In some cases, such as computational fluid dynamics, the fine-scale structure of the fluid domain is important for qualitative and quantitative accuracy of the solutions. More generally, finite element approximations of elliptic problems with rough coefficients require increased spatial resolution normal to material boundaries [3]. The problem of constructing meshes from biomedical images is particularly difficult because of the complexity and irregularity of the structures, and thus tuning or correcting meshes by hand is quite difficult and time consuming. Many researchers and, indeed, commercial products simply subdivide the underlying hexahedral image grid and assign material properties to tetrahedra based on standard decomposition of each hexahedron into tetrahedra.
This paper presents a small case study of the results of a recently developed method for multimaterial, tetrahedral meshing of biomedical volumes [6]. The method uses an iterative relaxation of surface point point positions that are constrained to subsets of the volume that correspond to boundaries between different materials. In this paper we briefly review the method and present results on a set of MRI head images for use in bioelectric field simulation and source localization.
D. Xiu.
Numerical Integration Formulas of Degree Two, In Applied Numerical Mathematics, Vol. 58, No. 10, pp. 1515--1520. 2008.
DOI: 10.1016/j.apnum.2007.09.004
Numerical integration formulas in n-dimensional nonsymmetric Euclidean space of degree two, consisting of n+1 equally weighted points, are discussed, for a class of integrals often encountered in statistics. This is an extension of Stroud's theory [A.H. Stroud, Remarks on the disposition of points in numerical integration formulas, Math. Comput. 11 (60) (1957) 257–261; A.H. Stroud, Numerical integration formulas of degree two, Math. Comput. 14 (69) (1960) 21–26]. Explicit formulas are given for integrals with nonsymmetric weights. These appear to be new results and include the Stroud's degree two formula as a special case.
Keywords: Numerical integration, Cubature formulas
S. Xu, M. Styner, J.H. Gilmore, G. Gerig.
Multivariate Longitudinal Statistics for Neonatal-Pediatric Brain Tissue Development, In Proceedings of SPIE Medical Imaging 2008, Vol. 6914, February, 2008.
DOI: 10.1117/12.773966
The topic of studying the growth of human brain development has become of increasing interests in the neuroimaging community. Cross-sectional studies may allow comparisons between means of different age groups, but they do not provide any growth model that integrates the continuum of time, nor do they present any information about how individuals/population change over time. Longitudinal data analysis method arises as a strong tool to address these questions. In this paper, we use longitudinal analysis methods to study tissue development in early brain growth; a novel approach of multivariate longitudinal analysis is applied to study the associations between the growth of different brain tissues. We present in this paper the methodologies to statistically study scalar (univariate) and vector (multivariate) longitudinal data, and our exploratory results in the study of neonatal-pediatric brain tissue development. We obtained growth curves as a quadratic function of time for all three tissues. The quadratic terms were then tested to be statistically signicant, showing that there was indeed a quadratic growth of tissues in early brain development. Moreover, our result shows that there is a positive correlation between repeated measurements of any single tissue, and among those of different tissues. Our approach is generic in natural and thus can be applied to any longitudinal data with multiple outcomes, even brain structures. Also, our joint mixed model is flexible enough to allow incomplete and unbalanced data, i.e. subjects do not need to have the same number of measurements, or be measured at the exact time points.
Keywords: ucnia
S. Xu, M. Styner, J. Gilmore, J. Piven, G. Gerig.
Multivariate Nonlinear Mixed Model to Analyze Longitudinal Image Data: MRI Study of Early Brain Development, In Proceedings of IEEE Workshop on Mathematical Methods in Biomedical Image Analysis (MMBIA) 2008, IEEE Computer Society, pp. 1--8. June, 2008.
ISBN: 978-1-4244-2339-2
DOI: 10.1109/CVPRW.2008.4563011
Y. Yang, X. Chen, G. Gopalakrishnan, R.M. Kirby.
Efficient Stateful Dynamic Partial Order Reduction, In Proceedings of Model Checking Software: 15th International SPIN Workshop, Los Angeles, CA, Vol. 5156, pp. 288--305. August, 2008.
DOI: 10.1007/978-3-540-85114-1_20
In applying stateless model checking methods to realistic multithreaded programs, we find that stateless search methods are ineffective in practice, even with dynamic partial order reduction (DPOR) enabled. To solve the inefficiency of stateless runtime model checking, this paper makes two related contributions. The first contribution is a novel and conservative light-weight method for storing abstract states at runtime to help avoid redundant searches. The second contribution is a stateful dynamic partial order reduction algorithm (SDPOR) that avoids a potential unsoundness when DPOR is naively applied in the context of stateful search. Our stateful runtime model checking approach combines light-weight state recording with SDPOR, and strikes a good balance between state recording overheads, on one hand, and the elimination of redundant searches, on the other hand. Our experiments confirm the effectiveness of our approach on several multithreaded benchmarks in C, including some practical programs.
S. Yau, K. Damevski, D. Zorin, V. Karamcheti, S.G. Parker.
Result Reuse in Design Space Exploration: A Study in System Support for Interactive Parallel Computing, In Proceedings of the 22nd International Parallel and Distributed Processing Symposium (IPDPS 2008), Miami, Florida, pp. 1--12. 2008.
F. Zhang, E.R. Hancock, C. Goodlett, G. Gerig.
Probabilistic White Matter Fiber Tracking using, Particle Filtering and von Mises-Fisher Sampling, In Medical Image Analysis (MedIA), pp. (in print). 2008.
2007
G. Adluru, S.P. Awate, T. Tasdizen, R.T. Whitaker, E.V.R. DiBella.
Temporally Constrained Reconstruction of Dynamic Cardiac Perfusion MRI, In Magnetic Resonance in Medicine, Vol. 57, pp. 1027--1036. 2007.
G. Adluru, R.T. Whitaker, E.V.R. DiBella.
Spatio-Temporal Constrained Reconstruction of Sparse Dynamic Contrast Enhanced Radial MRI Data, In Proceedings of the IEEE International Symposium on Biomedical Imaging, pp. 109--112. 2007.
G. Adluru, E. Hsu, E.V.R. DiBella.
Constrained Reconstruction of Sparse Cardiac MR DTI Data, In Proceedings of FIMH 2007, LNCS, No. 4466, pp. 91--99. 2007.
O. Alter.
Genomic Signal Processing: From Matrix Algebra to Genetic Networks, In Microarray Data Analysis: Methods in Molecular Biology, Vol. 377, Edited by M.J. Korenberg, Humana Press, Totowa, pp. 17--59. 2007.
DOI: 10.1007/978-1-59745-390-5_2
E.W. Anderson, S.P. Callahan, C.E. Scheidegger, J.M. Schriener, C.T. Silva.
Hardware-Assisted Point-Based Volume Rendering of Tetrahedral Meshes, In Proceedings of SIBGRAPI 2007, pp. 163--170. 2007.
E.W. Anderson, G.A. Preston, C.T. Silva.
Towards Development of a Circuit Based Treatment for Impaired Memory: A Multidisciplinary Approach, In Proceedings of IEEE EMBS Neural Engineering 2007, pp. 163--172. 2007.
A.E. Anderson, B.J. Ellis, J.A. Weiss.
Verification, Validation and Sensitivity Studies in Computational Biomechanics, In Computer Methods in Biomechanics and Biomedical Engineering, Vol. 10, No. 3, pp. 171--184. 2007.
E.W. Anderson, S.P. Callahan, D.A. Koop, E. Santos, C.E. Scheidegger, H.T. Vo, J. Freire, C.T. Silva.
VisTrails: Using Provenance to Streamline Data Exploration, In Poster Proceedings of the International Workshop on Data Integration in the Life Sciences (DILS) 2007, Note: Poster presentation, 2007.
G.A. Ateshian, B.J. Ellis, J.A. Weiss.
Equivalence Between Short-Time Biphasic and Incompressible Elastic Material Response, In Journal of Biomechanical Engineering, Vol. 129, No. 3, pp. 405--412. 2007.
S. Awate, R.T. Whitaker.
Feature-Preserving MRI Denoising: A Nonparametric Empirical-Bayes Approach, In IEEE Transactions on Medical Imaging, Vol. 26, No. 9, pp. 1242--1255. 2007.
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