Biblio

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Zhang M, Kavraki LE.  2001.  Efficiently Maintaining Molecular Conformations Using Local Frames. Currents in Computational Molecular Biology. :97-98.
Zhang M, Kavraki LE.  2002.  Solving Molecular Inverse Kinematics Problems for Protein Folding and Drug Design. Currents in Computational Molecular Biology. :214-215.
Zhang M, White RA, Wang L, Goldman R, Kavraki LE, Hassett B.  2005.  Improving Conformational Searches by Geometric Screening. Bioinformatics. 21:624-630.
Abstract      Preprint PDF     Publisher's web site     
Zhang M, Kavraki LE.  2002.  Approximating Solutions of Molecular Inverse Kinematics Problems by Subdivision. The 24th International Conference of the IEEE Engineering in Medicine and Biology Society (EMBS) and the Annual Meeting of the Biomedical Engineering Society (BMES). :2182-2183.
Abstract           Publisher's web site     
Zhang M, Kavraki LE.  2002.  A New Method for Fast and Accurate Derivation of Molecular Conformations. Journal of Chemical Information and Computer Sciences. 42:64-70.
Abstract      Preprint PDF     Publisher's web site     
Zeng XY, Gipson B, Zheng ZY, Renault L, Stahlberg H.  2007.  Automatic lattice determination for two-dimensional crystal images.. Journal of structural biology. 160:353–61.
Abstract           Publisher's web site     
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Yin J, Dhanik A, Hsu D, Wang Y.  2004.  The Creation of a Music-driven Digital Violinist. ACM international conference on Multimedia. :476-479.
Yim M, Shen W-M, Salemi B, Rus D, Moll M, Lipson H, Klavins E.  2007.  Modular Self-reconfigurable Robot Systems: Challenges and Opportunities for the Future. IEEE Robotics & Automation Magazine. 14
Abstract           Publisher's web site     
Yao H, Kristensen DM, Mihalek I, Sowa M, Shaw C, Kimmel M, Kavraki LE, Lichtarge O.  2003.  An Accurate, Sensitive, and Scalable Method to Identify Functional Sites in Protein Structures. Journal of Molecular Biology. 326:255-261.
Abstract           Publisher's web site     
Yao P, Dhanik A, Marz N, Propper R, Kou C, Liu G, van den Bedem H, Latombe J-C, Landsbergz IH, Altman RB.  2008.  Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 5:534-545.
Yakey J, LaValle S, Kavraki LE.  2001.  Randomized Path Planning for Linkages with Closed Kinematics Chains. IEEE Transactions on Robotics and Automation. 17:951-959.
Abstract      Preprint PDF     Publisher's web site     
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Wilson RH, Kavraki LE, Latombe J-C, Lozano-Perez T.  1995.  Two-Handed Assembly Sequencing. International Journal of Robotics Research. 14(4):335-350.
Abstract      Preprint PDF     Publisher's web site     
White RW, Richardson M, Bilenko M, Heath AP.  2008.  Enhancing web search by promoting multiple search engine use. SIGIR ’08: Proceedings of the 31st annual international ACM SIGIR conference on research and development in information retrieval. :43-50.
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Wang F, Burdet E, Dhanik A, Poston T, Teo CL.  2005.  Dynamic Thread for Real-Time Knot-Tying. 1st Joint Eurohaptics Conference and Symposium on Haptic Interfaces for Virtual Environment and Teleoperator Systems (WHC’05). :507-508.
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Tsianos K, Sucan IA, Kavraki LE.  2007.  Sampling-based robot motion planning: Towards realistic applications. Computer Science Review. 1(1):2--11.
Abstract      Preprint PDF     Publisher's web site     
Tsianos K, Kavraki LE.  2008.  Replanning: A powerful planning strategy for hard kinodynamic problems. IEEE/RSJ International Conference on Intelligent Robots and Systems. :1667-1672.
Abstract      Preprint PDF
Tsianos K.  2008.  Replanning: A Powerful Planning Strategy for Systems with Differential Constraints. Department of Computer Science.
Abstract      Preprint PDF
Tsianos K, Halperin D, Kavraki LE, Latombe J-C, Attalah M.  2008.  Robot Algorithms. Algorithms and Theory of Computation Handbook.
Ter Doest H, Moll M, Bos R, Van de Burgt S, Nijholt A.  1996.  Language Engineering in Dialogue Systems.
Abstract      Preprint PDF
Ter Doest H, Moll M, Bos R, Van de Burgt S, Nijholt A.  1996.  Language Engineering in Dialogue Systems. Computers in Engineering Symposium. :68--79.
Abstract     
Teodoro ML, Phillips, Jr. GN, Kavraki LE.  2002.  A Dimensionality Reduction Approach to Modeling Protein Flexibility. Proceedings of the 2002 ACM International Conference on Research in Computational Biology (RECOMB 2002). :299-308.
Abstract           Publisher's web site     
Teodoro ML, Phillips, Jr. GN, Kavraki LE.  2003.  Understanding Protein Flexibility through Dimensionality Reduction. The Journal of Computational Biology. 10:617-634.
Abstract      Preprint PDF     Publisher's web site     
Teodoro ML, Kavraki LE.  2002.  Pharmacology. Handbook of Data Mining and Knowledge Discovery. :808-816.
Teodoro ML.  2003.  Modeling Protein Flexibility Using Collective Modes of Motion: Applications to Drug Design. :255.
Abstract      Preprint PDF
Teodoro ML, Phillips, Jr. GN, Kavraki LE.  2000.  Singular Value Decomposition of Protein Conformational Motions: Application to HIV-1 Protease. Currents in Computational Molecular Biology. :198-199.
Teodoro ML, Kavraki LE.  2003.  Conformational Flexibility Models for the Receptor in Structure Based Drug Design. Current Pharmaceutical Design. 9:1419-1431.
Abstract      Preprint PDF     Publisher's web site     
Teodoro ML, Phillips, Jr. GN, Kavraki LE.  2001.  Molecular Docking: A Problem with Thousands of Degrees of Freedom. Proc. of the 2001 IEEE International Conference on Robotics and Automation (ICRA 2001). :960-966.
Abstract      Preprint PDF     Publisher's web site     
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Sudsang A, Kavraki LE.  2001.  A Geometric Approach to Designing a Programmable Force Field with a Unique Stable Equilibrium for Parts in the Plane. Proceedings of The 2001 IEEE International Conference on Robotics and Automation (ICRA 2001). 2:1079-1085.
Abstract      Preprint PDF     Publisher's web site     
Sudsang A, Kavraki LE.  2001.  Part Orientation with a Force Field: Orienting Multiple Shapes using a Single Field. Proceedings of The 2001 IEEE/RJS International Conference on Intelligent Robots and Systems (IROS 2001). 1:208-213.
Abstract      Preprint PDF     Publisher's web site     
Sucan IA, Kavraki LE.  2011.  On the Advantages of Using Task Motion Multigraphs for Efficient Mobile Manipulation. IEEE/RSJ International Conference on Intelligent Robots and Systems. :4621-4626.
Preprint PDF     Publisher's web site     
Sucan IA, Kavraki LE.  2010.  On the Implementation of Single-Query Sampling-Based Motion Planners. IEEE International Conference on Robotics and Automation. :2005-2011.
Preprint PDF     Publisher's web site     
Sucan IA, Kavraki LE.  2011.  Mobile Manipulation: Encoding Motion Planning Options Using Task Motion Multigraphs. IEEE International Conference on Robotics and Automation. :5492--5498.
Preprint PDF     Publisher's web site     
Sucan IA, Kavraki LE.  2012.  Accounting for Uncertainty in Simultaneous Task and Motion Planning Using Task Motion Multigraphs. IEEE International Conference on Robotics and Automation. :4822-4828.
Abstract      Preprint PDF
Sucan IA, Kruse JF, Yim M, Kavraki LE.  2008.  Reconfiguration for modular robots using kinodynamic motion planning. ASME -- Dynamic Systems and Control.
Sucan IA, Kavraki LE.  2012.  A Sampling-Based Tree Planner for Systems With Complex Dynamics. IEEE Transactions on Robotics. 28:116-131.
Abstract      Preprint PDF     Publisher's web site     
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Şucan IA.  2011.  Task and Motion Planning for Mobile Manipulators.
Abstract      Preprint PDF
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Sucan IA, Kavraki LE.  2009.  On the Performance of Random Linear Projections for Sampling-Based Motion Planning. IEEE/RSJ International Conference on Intelligent Robots and Systems. :2434-2439.
Preprint PDF     Publisher's web site     
Sucan IA, Kruse JF, Yim M, Kavraki LE.  2008.  Kinodynamic Motion Planning with Hardware Demonstrations. IEEE/RSJ International Conference on Intelligent Robots and Systems. :1661--1666.
Abstract      Preprint PDF     Publisher's web site     
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Şucan IA, Moll M, Kavraki LE.  2012.  The Open Motion Planning Library. IEEE Robotics & Automation Magazine. 19(4):72-82.
Abstract      Preprint PDF     Publisher's web site     
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Sucan IA.  2008.  Kinodynamic Motion Planning for High-dimensional Physical Systems. Department of Computer Science.
Preprint PDF
Sucan IA, Kalakrishnan M, Chitta S.  2010.  Combining Planning Techniques for Manipulation Using Realtime Perception. IEEE International Conference on Robotics and Automation. :2895-2901.
Preprint PDF     Publisher's web site     
Sucan IA, Kavraki LE.  2009.  Kinodynamic Motion Planning by Interior-Exterior Cell Exploration. Algorithmic Foundation of Robotics VIII (Proceedings of Workshop on the Algorithmic Foundations of Robotics). 57:449-464.
Abstract      Preprint PDF     Publisher's web site     
Stamati H, Clementi C, Kavraki LE.  2010.  Application of nonlinear dimensionality reduction to characterize the conformational landscape of small peptides. Proteins. 78:223-235.
Abstract           Publisher's web site     
Stamati H.  2007.  Analysis of Molecular Motion using Non-Linear Dimensionality Reduction. Department of Computer Science.
Abstract      Preprint PDF
Shehu A.  2008.  Molecules in Motion: Computing Structural Flexibility. Department of Computer Science.
Abstract      Preprint PDF
Shehu A, Kavraki LE.  2012.  Modeling Structures and Motions of Loops in Protein Molecules. Entropy. 14(2):252-290.
Abstract      Preprint PDF     Publisher's web site     
Shehu A, Clementi C, Kavraki LE.  2006.  Modeling Protein Conformational Ensembles: From Missing Loops to Equilibrium Fluctuations. Proteins: Structure, Function and Bioinformatics. 65:164-179.
Abstract           Publisher's web site     
Shehu A, Clementi C, Kavraki LE.  2007.  Sampling Conformation Space to Model Equilibrium Fluctuations in Proteins. Algorithmica. 48(4):303-327.
Abstract           Publisher's web site     
Shehu A, Kavraki LE, Clementi C.  2008.  Unfolding the Fold of Cyclic Cysteine-rich Peptides. Protein Science. 17(3):482-493.
Abstract           Publisher's web site     
Shehu A, Kavraki LE, Clementi C.  2009.  Multiscale characterization of protein conformational ensembles. Proteins. 76:837-851.
Abstract           Publisher's web site