Research and Publications that make use of TAO

Dressed TDDFT study of low-lying electronic excited states in selected linear polyenes and diphenylopolyenes, Mazur, G., Makowski, M., Włodarczyk, R., and Aoki, Y., International Journal of Quantum Chemistry, 111, 4, 819--825, 2011. BibTeX

Secondary thermal cracks in EGS: a variational approach, Bourdin, B., Knepley, M., and Maurini, C., Proceedings of the 34th annual meeting of the Geothermal resources council, 2010. BibTeX

Adaptive Real-Time Bioheat Transfer Models for Computer Driven MR-guided Laser Induced Thermal Therapy, Fuentes, D., Feng, Y., Elliott, A., Shetty, A., McNichols, R. J., Oden, J. T., and Stafford, R. J., IEEE Trans. Biomed. Eng., 5, 1024--1030, 2010. BibTeX

Easy plane baby skyrmions, Jäykkä, J. and Speight, M. , Phys. Rev. D, 82, 12, 125030, 2010. BibTeX

Comparative analysis of effectiveness of two timing-driven design approaches, Meyerov, I., Kamaev, A., Kornyakov, K., and Zhivoderov, A., Proceedings of the Second Russia-Taiwan conference on Methods and tools of parallel programming multicomputers, 277--282, 2010. BibTeX

Semi-supervised remote sensing image classification via maximum entropy , Erkan, A.N., Camps-Valls, G., and Altun, Y., Machine Learning for Signal Processing (MLSP), 2010 IEEE International Workshop on, 313 -318, 2010. BibTeX

A simple geometric model for elastic deformations, Chao, Isaac, Pinkall, Ulrich, Sanan, Patrick, and Schröder, Peter, ACM SIGGRAPH 2010 papers, 38:1--38:6, 2010. BibTeX

Semi-supervised Learning via Generalized Maximum Entropy, Erkan, A. N., 2010. BibTeX

Using NHDPlus as the Land Base for the Noah-distributed Model, Cédric H. David, David J. Gochis, David R. Maidment, Wei Yu, David N. Yates, and Zong-Liang Yang, T. GIS, 363-377, 2009. BibTeX

Preserving sharp edges in geometry images, Gauthier, M. and Poulin, P., Proceedings of Graphics Interface 2009, 1--6, 2009. BibTeX

Towards time-aware link prediction in evolving social networks, Tylenda, Tomasz, Angelova, Ralitsa, and Bedathur, Srikanta, Proceedings of the 3rd Workshop on Social Network Mining and Analysis, 9:1--9:10, 2009. BibTeX

A framework for planning comfortable and customizable motion of an assistive mobile robot, Gulati, Shilpa, Jhurani, Chetan, Kuipers, Benjamin, and Longoria, Raul, Proceedings of the 2009 IEEE/RSJ international conference on Intelligent robots and systems, 4253--4260, 2009. BibTeX

Tests of the affinity assumption in phantomlike elastomer networks, Davies, M. and Lew, A., Mater. Res. Soc. Symp. Proc., 2009. BibTeX

Multiscale modeling using goal-oriented adaptivity and numerical homogenization, 2009. BibTeX

Nanoshell-mediated laser surgery simulation for prostate cancer treatment, Feng, Y., Fuentes, D., Hawkins, A., Bass, J., Rylander, N.R., Elliott, A., Shetty, A., Stafford, R.J., and Oden, J.T., Engineering with Computers, 25, 3--13, 2009. BibTeX

Optimization and real-time control for laser treatment of heterogeneous soft tissues, Feng, Y., Fuentes, D., Hawkins, A., and Bass, J.M. andRylander, M.N., Computer Methods in Applied Mechanics and Engineering, 2009. BibTeX

Generalized Maximum Entropy, Convexity, and Machine Learning, Sears, T. D., 2008. BibTeX

Inducing Gazetteers for Named Entity Recognition by Large-Scale Clustering of Dependency Relations, Kazama, J. and Torisawa, K., Proceedings of ACL-08: HLT, 407--415, 2008. BibTeX

An analytical approach to placement legalization, Ayupov, A., Marchenko, A., and Tiourin, V., Proceedings of the 18th ACM Great Lakes symposium on VLSI, 167--170, 2008. BibTeX

A novel timing-driven placement algorithm using smooth timing analysis, Ayupov, A. and Kraginskiy, L., Design Test Symposium (EWDTS), 2008 East-West, 137--140, 2008. BibTeX

MRTI-Based Optimization and Real-Time Laser Surgical Control for Cancer Treatment Using Fast Inverse Analysis Techniques, Feng, Y., Fuentes, D., Hawkins, A., and Oden, J.T., 2008. BibTeX

Integration of Ab Initio Nuclear Physics Calculations with Optimization Techniques, Sosonkina, M., Sharda, A., Negoita, A., and Vary, J.P., Lecture Notes in Computer Science, 5101, 833--842, 2008. BibTeX

Photons, photosynthesis, and high-performance computing: challenges, progress, and promise of modeling metabolism in green algae, Chang, C., Graf, P,, Alber, D., Kim, K.,, Murray, G., Posewitz, M., and Seibert, M., 125, 012048, 2008. BibTeX

CRF-OPT: An efficient high-quality conditional random field solver, Chen, M., Chen, Y., and Brent, M.R., Association for the Advancement of Artificial Intelligence, 2008. BibTeX

Solution of the nonlinear elasticity imaging inverse problem: the compressible case, Gokhale, N.H., Barbone, P.E., and Oberai, A.A, Inverse Problems, 24, 045010, 2008. BibTeX

Computational infrastructure for the real-time patient-specific treatment of cancer, Diller, K.R, Oden, J.T, Bajaj, C., Browne, J.C, Hazle, J., Babuska, I., Bass, J., Bidaut, L., Demkowicz, L., Elliott, A., Feng, Y., Fuentes, D., Goswami, S., Hawkins, A., Khoshnevis, S., Kwon, B., Prodhomme, S., and Stafford, R.J., 2008. BibTeX

Mining and Modeling Relations between Formal and Informal Chinese Phrases from Web Corpora, Li, Zhifei and Yarowsky, David, Proceedings of the 2008 Conference on Empirical Methods in Natural Language Processing, 1031--1040, 2008. BibTeX

Conformal equivalence of triangle meshes, Springborn, B., Schroder, P., and Pinkall, U., ACM Transactions on Graphics, 27, 3, 2008. BibTeX

Adaptive multiscale modeling of polymeric materials with Arlequin coupling and Goals algorithms, Bauman, P.T., Oden, J.T., and Prudhomme, S., Computer Methods in Applied Mechanics and Engineering, 2008. BibTeX

Parameters identification in a seawater intrusion model using adjoint sensitive method, Tber, M.H., El Alaoui Talibi, M., and Ouazar, D., Mathematics and Computers in Simulation, 77, 2-3, 301--312, 2008. BibTeX

Early experiences in application level I/O tracing on blue gene systems, Seelam, S., Chung, I.H., Hong, D.Y., Wen, H.F., and Yu,H., 2008. BibTeX

Faster solutions of the inverse pairwise Ising problem, Broderick, T., Dudik, M., Tkacik, R., Schapire, R., and Bialek, W., 2007. BibTeX

Energy minimizers for curvature-based surface functionals, Joshi, P. and Séquin, C., Comput. Aided Design Appl, 4, 5, 607--617, 2007. BibTeX

Unconstrained spherical parameterization, Friedel, I., Schröder, P., and Desbrun, M., Journal of Graphics Tools, 12, 1, 17--26, 2007. BibTeX

Hyperparameter Learning for Graph Based Semi-supervised Learning Algorithms, Xinhua Zhang and Wee Sun Lee, Advances in Neural Information Processing Systems 19, B. Schölkopf, J. Platt, and T. Hoffman, 1585--1592, 2007. BibTeX

Discriminative n-gram language modeling, Roark, B., Saraclar, M., and Collins, M., Computer Speech & Language, 21, 2, 373--392, 2007. BibTeX

Addressing unknown constants and metabolic network behaviors through petascale computing: understanding H2 production in green algae, Chang, C., Alber, D., Graf, P., Kim, K., and Seibert, M., Institute of Physics Publishing, 1, 2007. BibTeX

Quasicontinuum-like reduction of DFT calculations of nanostructures, Negrut, D., Anitescu, M., El-Azab, A., and Zapol, P., J. Nanosci. Nanotechnol, 2007. BibTeX

Log-linear models of non-projective trees, k-best MST parsing and tree-ranking, Hall, K., Havelka, J., and Smith, D.A., 2007. BibTeX

Identification of the hydraulic conductivities in a saltwater intrusion problem, Talibi, M.E.A, Ouazar, D., and Tber, M.H., Journal of Inverse and Ill-posed Problems, 15, 935--954, 2007. BibTeX

Tabletop computed lighting for practical digital photography, Mohan, A., Bailey, R., Waite, J., Tumblin, J., Grimm, C., and Bodenheimer, B., IEEE Transactions on Visualization and Computer Graphics, 13, 4, 652--662, 2007. BibTeX

A scalable modular convex solver for regularized risk minimization, Teo, C.H., Le, Q., Smola, A., and Vishwanathan, S.V.N., ACM, 2007. BibTeX

Geometric, variational integrators for computer animation, Kharevych, L., Yong, W., Tong, Y., Kanso, E., Marsden, J.E., Schroder, P., and Desbrun, M., 2006. BibTeX

General implementation of multilevel parallelization in a gradient-based design optimization algorithm, Rajan, S. D., Belegundu, A. D., Damle, A. S., Lau, D., and St. Villek, J., AIAA J, 44, 9, 1993--2008, 2006. BibTeX

Activity recognition from physiological data using conditional random fields, Chieu, H.L, Lee, W.S., and Kaelbling, L.P, Singapore-MIT Alliance, 2006. BibTeX

Utterance classification with discriminative language modeling, Saraclar, M. and Roark, B, Speech Communication, 48, 3--4, 276--287, 2006. BibTeX

Maximum Entropy Models with Inequality Constraints: A Case Study on Text Categorization, J. Kazama and J. Tsujii, Machine Learning, 60, 1-3, 159--194, 2005. BibTeX

A Differentiation-Enabled Fortran 95 Compiler, U. Naumann and J. Riehme, ACM Tr. on Mat. Soft., 31, 4, 2005. BibTeX

Guiding Unsupervised Grammar Induction Using Contrastive Estimation, Noah A. Smith and Jason Eisner, In Working Notes of the International Joint Conference on Artificial Intelligence, Workshop on Grammatical Inference Applications, 2005. BibTeX

Contrastive Estimation: Training Log-Linear Models on Unlabeled Data, Noah A. Smith and Jason Eisner, Proceedings of the Association for Computational Linguistics, 2005. BibTeX

Context-Based Morphological Disambiguation with Random Fields, Noah A. Smith, David A. Smith, and Roy W. Tromble, Proceedings of the Conference on Human Language Technology and Empirical Methods in Natural Language Processing, 2005. BibTeX

DFT-Based Nanostructure Investigation, Dan Negrut and Mihai Anitescu, Argonne National Laboratory. BibTeX

Discrete Willmore Flow, A.I. Bobenko and P. Schröder, Eurographics Symposium on Geometry Processing, M. Desbrun and H. Pottmann, 2005. BibTeX

Unconstrained Spherical Parameterizations, I. friedel, P. Schröder, and M. Desbrun, ACM/SIGGRAPH, 2005. BibTeX

Coarse-to-Fine n-Best Parsing and MaxEnt Discriminative Reranking, E. Charniak and M. Johnson, Proc. of the 43rd Annual Meeting of the Association for Computational Linguistics (ACL'05), 173--180, Software for Maximum Entropy Discriminative reranking for computational linguistics, 2005. BibTeX

On-line Optimization-Based Simulators for Fractured and Non-fractured Reservoirs, Deo, M. D., Final Report, Department of Chemical and Fuels Engineering, University of Utah, DOE contract FC26-01BC15313, 2005. BibTeX

Discriminative Methods for Label Sequence Learning, Altun, Y., 2005. BibTeX

Simulation of a three-phase transformer using an improved anisotropy model, Sande, H.V., Boonen, T., Podoleanu, I., Henrotte, F., and Hameyer, K., Magnetics, IEEE Transactions on, 40, 2, 850 - 855, 2004. BibTeX

Discriminative language modeling with conditional random fields and the perceptron algorithm, B. Roark, M. Saraclar, M. Collins, and M. Johnson, Proceedings of the 42nd Annual Meeting of the Association for Computational Linguistics (ACL'04), 2004. BibTeX

Raising the Level of Programming Abstraction in Scalable Programming Models, D. Bernholdt, J. Nieplocha, and P. Sadayappan, Proceedings of the HPCA Workshop on Productivity and Performance in High-End Computing, 2004. BibTeX

Relevance Models to Help Estimate Document and Query Models, D. Bodoff, ACM Transactions on Information Systems, 22, 357 - 380, 2004. BibTeX

Finite Element Analysis & Design Optimization in a Distributed Computing Environment, Rajan, S.D., Belegundu, A.D., Lee, D., Damle, A.S., and St. Ville, J, American Institute of Aeronautics and Astronautics, 2004. BibTeX

Bilingual Parsing with Factored Estimation: Using English to Parse Korean, David A. Smith and Noah A. Smith, Proceedings of the Conference on Empirical Methods in Natural Language Processing, 49--54, 2004. BibTeX

Wide Coverage Parsing with Stochastic Attribute Value Grammars, R. Malouf and G. van Noord, IJCNLP-04 Workshop: Beyond shallow analyses - Formalisms and statistical modeling for deep analyses., 2004. BibTeX

Evaluation and extension of maximum entropy models with inequality constraints, J. Kazama and J. Tsujii, Proceedings of the 2002 Empirical Methods in Natural Language Processing, 137--144, 2003. BibTeX

Client-Server Component Architecture for Scientific Computing, Hala Dajani, 2003. BibTeX

Scalable parallel micromagnetic solvers for magnetic nanostructures, W. Scholz, J. Fidler, T. Schrefl, D. Suess, R. Dittrich, H. Forster, and V. Tsiantos, Comp. Mat. Sci., 28, 366--383, Parallel Finite Element Micromagnetics Package (magpar), 2003. BibTeX

Implementation of a high performance parallel finite element micromagnetics package, W. Scholz, D. Suess, R. Dittrich, T. Schrefl, V. Tsiantos, H. Forster, and J. Fidler, J. Magn. Magn. Mater., 2004. BibTeX

Optimization of A fed-batch fermentation process control competition problem using the NEOS server, J. Liang and Y.-Q. Chen, Proceedings - Institution of Mechanical Engineers Part I Journal of Systems and Control Engineering, 217; Part 5, 427--432, 2003. BibTeX

Solving tough optimal control problems by Network Enabled Optimization Server (NEOS), J. Liang, Y.-Q. Chen an M. Meng, and R. Fullmer, Proc. of the 2003 IEEE Intelligent Automation Conference, 2003. BibTeX

Nonlinear Conjugate Gradient Methods and Their Implementations by TAO on Dawning 2000-II, J. Wang, X. Chi, and T. Gu, In Inter. Conf. on Parallel Algorithms and Computing Environments (ICPACE) 2003. BibTeX

An interactive environment for supporting the transition from simulation to optimization, C. Bischof, H. Busker, B. Lang, and A. Rasch, Sci. Prog., 4, 263--272, 2003. BibTeX

Solving nonlinear magnetic problems using Newton trust region methods, Vande Sande, H., De Gersem, H., Henrotte, F., and Hameyer, K., IEEE Transactions on Magnetics, 30, 3, 1709-1712, 2003. BibTeX

Accelerating non-linear time-harmonic problems by a Hybrid Picard-Newton approach, Vande Sande, H., Boonen, T., De Gersem, H., Henrotte, F., and Hameyer, K., 2002. BibTeX

Efficient Training of Conditional Random Fields, Hanna Wallach, 2002. BibTeX

Mechanistic Process Modeling for Subsurface Remediation, S. Yabusaki, S. Bryant, S. Chen, G. Fann, G. Flach, W. Gray, J. Holland, K. Jordan, R. Maier, J. Malard, D. Rector, W. Soll, C. Steefel, A. Tompson, H. Trease, M. Wheeler, and B. Wood, PNNL-14011, Published by Pacific Northwest National Laboratory for the Environmental Molecular Sciences Laboratory, 2002. BibTeX

The Sourcebook of Parallel Computing, J. Dongarra, I. Foster, G. Fox, W. Gropp, K. Kennedy, L. Torczon, and A. White, Elsevier, 2002. BibTeX

A comparison of algorithms for maximum entropy parameter estimation, Robert Malouf, In Sixth Conf. on Natural Language Learning, 49--55, 2002. BibTeX

Parallel restricted maximum likelihood estimation for linear models with a dense exogenous matrix, J. Malard, Parallel Computing, 28, 2, 343--353, ACRE software package for maximum likelihood estimates of covariance matrices, 2002. BibTeX

Algorithms for Linguistic Processing. NWO PIONIER Progress Report., L. v. d. Beek, G. Bouma, J. Daciuk, T. Gaustad, R. Malouf, G. v. Noord, R. Prins, and B. Villada, 2002. BibTeX