Biblio

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2010
Bhatia, A, Kavraki LE, Vardi MY.  2010.  Sampling-Based Motion Planning with Temporal Goals. IEEE International Conference on Robotics and Automation. :2689-2696.
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     
Bryant, DH, Moll M, Chen BY, Fofanov VY, Kavraki LE.  2010.  Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction. BMC Bioinformatics. 11:242.
Abstract      Preprint PDF     Publisher's web site     
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     
Heath, AP, Bennett GN, Kavraki LE.  2010.  Finding Metabolic Pathways Using Atom Tracking. Bioinformatics. 26:1548-1555.
Abstract      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     
Haspel, N, Moll M, Baker ML, Chiu W, Kavraki LE.  2010.  Tracing conformational changes in proteins. BMC Structural Biology. 10:S1.
Abstract      Preprint PDF     Publisher's web site     
2009
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     
Rusu, R B, Sucan IA, Gerkey BP, Chitta S, Beetz M, Kavraki LE.  2009.  Real-Time Perception-Guided Motion Planning for a Personal Robot. IEEE/RSJ International Conference on Intelligent Robots and Systems. :4245-4252.
Preprint PDF     
Heath, AP, Kavraki LE.  2009.  Computational Challenges in Systems Biology. Computer Science Review. 3:1-17.
Abstract      Publisher's web site     
Plaku, E, Kavraki LE, Vardi MY.  2009.  Falsification of LTL Safety Properties in Hybrid Systems. Proc. of the Conf. on Tools and Algorithms for the Construction and Analysis of Systems (TACAS 2009).
Abstract      Preprint PDF     
Plaku, E, Kavraki LE, Vardi MY.  2009.  Hybrid systems: from verification to falsification by combining motion planning and discrete search. Formal Methods in System Design. 34:157-182.
Abstract      Preprint PDF     Publisher's web site     
Haspel, N, Geisbrecht B, Lambris JD, Kavraki LE.  2009.  Multi-scale Characterization of the Energy Landscape of Proteins with Application to the C3d/Efb-C Complex. Proteins: Structure, function and bioinformatics. 78:1004-1014.
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     
Bekris, KE, Tsianos K, Kavraki LE.  2009.  Safe and Distributed Kinodynamic Replanning for Vehicular networks. ACM/Springer Mobile Networks and Applications (MONET). 14:292–308.
Abstract      Publisher's web site     
Haspel, N, Moll M, Baker ML, Chiu W, Kavraki LE.  2009.  Tracing Conformational Changes in Proteins. IEEE Intl. Conf. on Bioinformatics and Biomedicine Workshops (BIBMW).
Abstract      Preprint PDF     
2008
Plaku, E, Kavraki LE, Vardi MY.  2008.  Impact of Workspace Decompositions on Discrete Search Leading Continuous Exploration (DSLX) Motion Planning. IEEE International Conference on Robotics and Automation. :3751-3756.
Abstract     
Plaku, E, Kavraki LE, Vardi MY.  2008.  Discrete Search Leading Continuous Exploration for Kinodynamic Motion Planning. Robotics: Science and Systems. :326-333.
Abstract      Preprint PDF     Publisher's web site     
Bhatia, A, Frazzoli E.  2008.  Decentralized algorithm for minimum-time rendezvous of Dubins vehicles. American Control Conference, 2008. :1343-1349.
Abstract      Publisher's web site     
Ricklin, D, Ricklin-Lichtsteiner SK, Sfyroera G, Chen H, Tzekou A, Magotti P, Wu Y-Q, Garcia BL, McWorther WJ, Haspel N et al..  2008.  Novel insights into target specificities and molecular mechanisms for two potent complement evasion proteins from Staphylococcus aureus.. XXII International Complement Workshop.
Abstract      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     
Bhatia, A, Frazzoli E, Graziano M, Karaman S, Naldi R.  2008.  Dubins Trajectory Tracking using Commercial O ff-The-Shelf Autopilots. AIAA Guidance, Navigation and Control Conference and Exhibit.
Abstract      Publisher's web site     
Pan, VY, Grady DK, Murphy B, Qian G, Rosholt RE, Ruslanov AD.  2008.  Schur aggregation for linear systems and determinants. Theoretical Computer Science. 409:255-268.
Abstract      Preprint PDF     Publisher's web site     
Haspel, N, Ricklin D, Geisbrecht B, Lambris JD, Kavraki LE.  2008.  Electrostatic Contributions Drive the Interaction Between Staphylococcus aureus Protein Efb-C and its Complement Target C3d.. Protein Science. 17(11):1894-1906.
Abstract      Publisher's web site     
Bhatia, A.  2008.  Sampling-based Algorithms for Analysis and Design of Hybrid and Embedded Systems. Mechanical and Aerospace Engineering. Ph.D.:156.
Heath, AP, Balázsi G, Kavraki LE.  2008.  Bipolarity of the saccharomyces cerevisiae genome. International Conference on Bioinformatics and Biomedical Engineering (iCBBE). :330–333.
Abstract      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.
Publisher's web site     
Plaku, E.  2008.  From High-Level Tasks to Low-Level Motions: Motion Planning for High-Dimensional Nonlinear Hybrid Robotic Systems. Department of Computer Science.
Abstract      Preprint PDF     
Bekris, KE.  2008.  Informed Planning and Safe Distributed Replanning under Physical Constraints. Department of Computer Science.
Abstract      Preprint PDF     
Sucan, IA, Kavraki LE.  2008.  Kinodynamic Motion Planning by Interior-Exterior Cell Exploration. International Workshop on the Algorithmic Foundations of Robotics.
Abstract      Preprint PDF     Publisher's web site     
Sucan, IA.  2008.  Kinodynamic Motion Planning for High-dimensional Physical Systems. Department of Computer Science.
Preprint PDF     
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     
Moll, M, Kavraki LE.  2008.  LabelHash: A Flexible and Extensible Method for Matching Structural Motifs. Automated Function Prediction / BioSapiens meeting (AFP-BioSapiens).
Preprint PDF     Publisher's web site     
Moll, M, Kavraki LE.  2008.  Matching of Structural Motifs Using Hashing on Residue Labels and Geometric Filtering for Protein Function Prediction. The Seventh Annual International Conference on Computational Systems Bioinformatics (CSB2008). :157-168.
Abstract      Preprint PDF     Publisher's web site     
Shehu, A.  2008.  Molecules in Motion: Computing Structural Flexibility. Department of Computer Science.
Abstract      Preprint PDF     
Kristensen, DM, Ward MR, Lisewski AM, Edrin S, Chen BY, Fofanov VY, Kimmel M, Lichtarge O.  2008.  Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinformatics. 9(17)
Abstract      Publisher's web site     
Sucan, IA, Kruse JF, Yim M, Kavraki LE.  2008.  Reconfiguration for modular robots using kinodynamic motion planning. ASME -- Dynamic Systems and Control.
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.
Bhatia, A, Frazzoli E.  2008.  Sampling-Based Resolution-Complete Algorithms for Safety Falsification of Linear Systems. Hybrid Systems: Computation and Control, 2008. :606-609.
Abstract      Publisher's web site     
Moll, M, Rus D.  2008.  Special Issue on Self-Reconfiguring Modular Robots (Guest Editorial). Intl. J. of Robotics Research. 27(3/4):277-278.
Preprint PDF     Publisher's web site     
Fofanov, VY, Chen BY, Bryant DH, Moll M, Lichtarge O, Kavraki LE, Kimmel M.  2008.  A Statistical Model to Correct Systematic Bias Introduced by Algorithmic Thresholds in Protein Structural Comparison Algorithms. IEEE Intl. Conf. on Bioinformatics and Biomedicine (BIBM).
Abstract      Preprint PDF     Publisher's web site     
Balázsi, G, Heath AP, Shi L, Gennaro ML.  2008.  The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Molecular Systems Biology. 4
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     
2007
Bekris, KE, Tsianos K, Kavraki LE.  2007.  A Distributed Protocol for Safe Real-Time Planning of Communicating Vehicles with Second-Order Dynamics. First International Conference on Robot Communication and Coordination (ROBOCOMM 07).
Abstract      Preprint PDF     
Moll, M, Schwarz D, Kavraki LE.  2007.  Roadmap Methods for Protein Folding. Protein Structure Prediction: Methods and Protocols.
Abstract      Preprint PDF     Publisher's web site     
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     
Bhatia, A, Frazzoli E.  2007.  Sampling-based resolution-complete safety falsification of linear hybrid systems. Decision and Control, 2007 46th IEEE Conference on. :3405-3411.
Abstract      Publisher's web site     
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     
Heath, AP, Kavraki LE, Clementi C.  2007.  From coarse-grain to all-atom: Toward multiscale analysis of protein landscapes. Proteins: Structure, Function and Bioinformatics. 68:646-661.
Abstract      Publisher's web site