Publications

2022

  1. C. Chamzas, C. Quintero-Peña, Z. Kingston, A. Orthey, D. Rakita, M. Gleicher, M. Toussaint, and L. E. Kavraki, “MotionBenchMaker: A Tool to Generate and Benchmark Motion Planning Datasets,” IEEE Robotics and Automation Letters, vol. 7, no. 2, pp. 882–889, Apr. 2022.
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  2. R. F. Tarabini, M. M. Rigo, A. Faustino Fonseca, F. Rubin, R. Bellé, L. E. Kavraki, T. C. Ferreto, D. Amaral Antunes, and A. P. D. de Souza, “Large-Scale Structure-Based Screening of Potential T Cell Cross-Reactivities Involving Peptide-Targets From BCG Vaccine and SARS-CoV-2,” Frontiers in Immunology, vol. 12, Jan. 2022.
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2021

  1. S. Hall-Swan, D. Devaurs, M. M. Rigo, D. A. Antunes, L. E. Kavraki, and G. Zanatta, “DINC-COVID: A webserver for ensemble docking with flexible SARS-CoV-2 proteins,” Computers in Biology and Medicine, vol. 139, p. 104943, Dec. 2021.
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  2. E. E. Litsa, P. Das, and L. E. Kavraki, “Machine learning models in the prediction of drug metabolism: challenges and future perspectives,” Expert Opinion on Drug Metabolism and Toxicology, vol. 17, no. 11, pp. 1245–1247, Nov. 2021.
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  3. R. Fasoulis, G. Paliouras, and L. E. Kavraki, “Graph representation learning for structural proteomics,” Emerging Topics in Life Sciences, vol. 5, no. 6, pp. 789–802, Oct. 2021.
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  4. S. Sobti, R. Shome, S. Chaudhuri, and L. E. Kavraki, “A Sampling-based Motion Planning Framework for Complex Motor Actions,” in 2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Prague, Czech Republic, 2021.
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  5. Z. Kingston, C. Chamzas, and L. E. Kavraki, “Using Experience to Improve Constrained Planning on Foliations for Multi-Modal Problems,” in 2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Prague, Czech Republic, 2021.
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  6. T. Pan, A. M. Wells, R. Shome, and L. E. Kavraki, “A General Task and Motion Planning Framework For Multiple Manipulators,” in 2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Prague, Czech Republic, 2021.
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  7. M. Moll, C. Chamzas, Z. Kingston, and L. E. Kavraki, “HyperPlan: A Framework for Motion Planning Algorithm Selection and Parameter Optimization,” in 2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Prague, Czech Republic, 2021.
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  8. Y. Wang, A. A. R. Newaz, J. D. Hernández, S. Chaudhuri, and L. E. Kavraki, “Online Partial Conditional Plan Synthesis for POMDPs With Safe-Reachability Objectives: Methods and Experiments,” IEEE Transactions on Automation Science and Engineering, vol. 18, no. 3, pp. 932–945, Jul. 2021.
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  9. C. Quintero-Peña, C. Chamzas, V. Unhelkar, and L. E. Kavraki, “Motion Planning via Bayesian Learning in the Dark,” in ICRA 2021: Workshop on Machine Learning for Motion Planning, 2021.
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  10. R. S. Rokosh, W. C. Lewis II, E. L. Chaikof, and L. E. Kavraki, “How Should We Prepare for the Post-Pandemic World of Telehealth and Digital Medicine?,” NAM Perspectives, Jun. 2021.
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  11. A. M. Wells, Z. Kingston, M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “Finite-Horizon Synthesis for Probabilistic Manipulation Domains,” in 2021 IEEE International Conference on Robotics and Automation (ICRA), Xi’an, China, 2021.
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  12. R. Shome and L. E. Kavraki, “Asymptotically Optimal Kinodynamic Planning Using Bundles of Edges,” in 2021 IEEE International Conference on Robotics and Automation (ICRA), Xi’an, China, 2021, pp. 9988–9994.
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  13. C. Quintero-Peña, A. Kyrillidis, and L. E. Kavraki, “Robust Optimization-based Motion Planning for high-DOF Robots under Sensing Uncertainty,” in 2021 IEEE International Conference on Robotics and Automation (ICRA), Xi’an, China, 2021, pp. 9724–9730.
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  14. C. Chamzas, Z. Kingston, C. Quintero-Peña, A. Shrivastava, and L. E. Kavraki, “Learning Sampling Distributions Using Local 3D Workspace Decompositions for Motion Planning in High Dimensions,” in 2021 IEEE International Conference on Robotics and Automation (ICRA), Xi’an, China, 2021, pp. 1283–1289. (Top-4 finalist for best paper in Cognitive Robotics)
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  15. E. Pairet, C. Chamzas, Y. R. Petillot, and L. E. Kavraki, “Path Planning for Manipulation Using Experience-Driven Random Trees,” IEEE Robotics and Automation Letters, vol. 6, no. 2, pp. 3295–3302, Apr. 2021.
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  16. C. K. Verginis, D. V. Dimarogonas, and L. E. Kavraki, “Sampling-Based Motion Planning for Uncertain High-Dimensional Systems via Adaptive Control,” in Algorithmic Foundations of Robotics XIV, Cham, 2021, pp. 159–175.
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  17. K. Daniilidis, L. Guibas, L. Kavraki, P. Koumoutsakos, K. Kyriakopoulos, J. Lygeros, G. J. Pappas, M. Triantafyllou, and P. Tsiotras, “Robotics in the AI era: A vision for a Hellenic Robotics Initiative,” Foundations and Trends® in Robotics, vol. 9, no. 3, pp. 201–265, 2021.
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2020

  1. C. Chamzas, M. Lippi, M. C. Welle, A. Varava, A. Marino, L. E. Kavraki, and D. Kragic, “State Representations in Robotics: Identifying Relevant Factors of Variation using Weak Supervision,” in NeurIPS, 3rd Robot Learning Workshop: Grounding Machine Learning Development in the Real World, 2020.
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  2. S. Butler, M. Moll, and L. E. Kavraki, “A General Algorithm for Time-Optimal Trajectory Generation Subject to Minimum and Maximum Constraints,” in Springer Proceedings in Advanced Robotics, 2020, pp. 368–383.
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  3. T. Arns, D. A. Antunes, J. R. Abella, M. M. Rigo, L. E. Kavraki, S. Giuliatti, and E. A. Donadi, “Structural Modeling and Molecular Dynamics of the Immune Checkpoint Molecule HLA-G,” Frontiers in Immunology, vol. 11, p. 2882, Nov. 2020.
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  4. T. Pan, C. K. Verginis, A. M. Wells, L. E. Kavraki, and D. V. Dimarogonas, “Augmenting Control Policies with Motion Planning for Robust and Safe Multi-robot Navigation,” 2020 IEEE/RSJ International Conference on Intelligent Robots and Systems, pp. 6975–6981, Oct. 2020.
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  5. A. M. Wells, M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “LTLf Synthesis on Probabilistic Systems,” Electronic Proceedings in Theoretical Computer Science, vol. 326, pp. 166–181, Sep. 2020.
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  6. E. E. Litsa, P. Das, and L. E. Kavraki, “Prediction of drug metabolites using neural machine translation,” Chemical Science, vol. 11, no. 47, pp. 12777–12788, Sep. 2020.
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  7. D. A. Antunes, J. R. Abella, S. Hall-Swan, D. Devaurs, A. Conev, M. Moll, G. Lizée, and L. E. Kavraki, “HLA-Arena: a customizable environment for the structural modeling and analysis of peptide-HLA complexes for cancer immunotherapy,” JCO Clinical Cancer Informatics, vol. 4, no. 4, pp. 623–636, Sep. 2020.
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  8. D. Devaurs, D. A. Antunes, and L. E. Kavraki, “Computational analysis of complement inhibitor compstatin using molecular dynamics,” Journal of Molecular Modeling, vol. 26, no. 9, Aug. 2020.
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  9. J. R. Abella, D. A. Antunes, C. Clementi, and L. E. Kavraki, “Large-scale structure-based prediction of stable peptide binding to Class I HLAs using random forests,” Frontiers in Immunology, vol. 11, no. 1583, Jul. 2020.
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  10. S. D. Butler, M. Moll, and L. E. Kavraki, “A General Algorithm for Time-Optimal Trajectory Generation Subject to Minimum and Maximum Constraints,” in Springer Proceedings in Advanced Robotics, 2020, vol. 13, pp. 368–383.
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  11. Z. Kingston, A. M. Wells, M. Moll, and L. E. Kavraki, “Informing Multi-Modal Planning with Synergistic Discrete Leads,” in 2020 IEEE International Conference on Robotics and Automation (ICRA), Paris, France, 2020, pp. 3199–3205.
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  12. J. D. Hernández, S. Sobti, A. Sciola, M. Moll, and L. E. Kavraki, “Increasing Robot Autonomy via Motion Planning and an Augmented Reality Interface,” IEEE Robotics and Automation Letters, vol. 5, no. 2, pp. 1017–1023, Apr. 2020.
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  13. K. E. Bekris, B. Y. Chen, A. M. Ladd, E. Plaku, and L. E. Kavraki, “Multiple Query Probabilistic Roadmap Planning Using Single Query Planning Primitives,” in Proceedings 2003 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS 2003) (Cat. No.03CH37453), Las Vegas, NV, USA, 2020, pp. 656–661.
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  14. O. Kravchenko, A. Varava, F. T. Pokorny, D. Devaurs, L. E. Kavraki, and D. Kragic, “A Robotics-Inspired Screening Algorithm for Molecular Caging Prediction,” Journal of Chemical Information and Modeling, vol. 60, no. 3, pp. 1302–1316, Mar. 2020.
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  15. A. M. Ladd, K. E. Bekris, G. Marceau, A. Rudys, L. E. Kavraki, and D. S. Wallach, “Using Wireless Ethernet for Localization,” in IEEE/RSJ International Conference on Intelligent Robots and System, Lausanne, Switzerland, 2020, vol. 1, pp. 402–408.
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  16. S. M. Kim, M. I. Peña, M. Moll, G. N. Bennett, and L. E. Kavraki, “Improving the organization and interactivity of metabolic pathfinding with precomputed pathways,” BMC Bioinformatics, vol. 21, no. 1, p. 13, Jan. 2020.
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  17. A. Conev, E. Litsa, M. Perez, M. Diba, A. Mikos, and L. E. Kavraki, “Machine Learning Guided 3D Printing of Tissue Engineering Scaffolds,” Tissue Engineering Part A, vol. 26, no. 23-24, pp. 1359–1368, 2020.
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  18. J. R. Abella, D. Antunes, K. Jackson, G. Lizée, C. Clementi, and L. E. Kavraki, “Markov state modeling reveals alternative unbinding pathways for peptide-MHC complexes,” Proceedings of the National Academy of Sciences, vol. 117, no. 48, pp. 30610–30618, 2020.
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  19. Y. Wang, S. Chaudhuri, and L. E. Kavraki, “Online Partial Conditional Plan Synthesis for POMDPs with Safe-Reachability Objectives,” in Springer Proceedings in Advanced Robotics, 2020, pp. 127–143.
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2019

  1. R. Luna, M. Moll, J. M. Badger, and L. E. Kavraki, “A Scalable Motion Planner for High-Dimensional Kinematic Systems,” The International Journal of Robotics Research, vol. 39, no. 4, pp. 361–388, Dec. 2019.
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  2. Z. Kingston, M. Moll, and L. E. Kavraki, “Decoupling Constraints from Sampling-Based Planners,” in Springer Proceedings in Advanced Robotics, Puerto Varas, Chile, 2019, pp. 913–928.
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  3. W. C. Lewis II, M. Moll, and L. E. Kavraki, “How Much Do Unstated Problem Constraints Limit Deep Robotic Reinforcement Learning?,” Rice University, Sep. 2019.
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  4. D. Devaurs, D. A. Antunes, S. Hall-Swan, N. Mitchell, M. Moll, G. Lizée, and L. E. Kavraki, “Using parallelized incremental meta-docking can solve the conformational sampling issue when docking large ligands to proteins,” BMC Molecular and Cell Biology, vol. 20, no. 1, p. 42, Sep. 2019.
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  5. Z. Kingston, M. Moll, and L. E. Kavraki, “Exploring Implicit Spaces for Constrained Sampling-Based Planning,” The International Journal of Robotics Research, vol. 38, no. 10–11, pp. 1151–1178, Aug. 2019.
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  6. E. Vidal Garcia, M. Moll, N. Palomeras, J. D. Hernández, M. Carreras, and L. E. Kavraki, “Online Multilayered Motion Planning with Dynamic Constraints for Autonomous Underwater Vehicles,” in 2019 International Conference on Robotics and Automation (ICRA), Montreal, QC, Canada, 2019, pp. 8936–8942. (Top-3 finalist for best student paper award)
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  7. J. D. Hernández, M. Moll, and L. E. Kavraki, “Lazy Evaluation of Goal Specifications Guided by Motion Planning,” in 2019 International Conference on Robotics and Automation (ICRA), Montreal, QC, Canada, 2019, pp. 944–950.
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  8. K. He, A. M. Wells, L. E. Kavraki, and M. Y. Vardi, “Efficient Symbolic Reactive Synthesis for Finite-Horizon Tasks,” in 2019 International Conference on Robotics and Automation (ICRA), Montreal, QC, Canada, 2019, pp. 8993–8999. (Best paper award in Cognitive Robotics)
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  9. C. Chamzas, A. Shrivastava, and L. E. Kavraki, “Using Local Experiences for Global Motion Planning,” in 2019 International Conference on Robotics and Automation (ICRA), Montreal, QC, Canada, 2019, pp. 8606–8612.
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  10. A. M. Wells, N. T. Dantam, A. Shrivastava, and L. E. Kavraki, “Learning Feasibility for Task and Motion Planning in Tabletop Environments,” IEEE Robotics and Automation Letters, vol. 4, no. 2, pp. 1255–1262, Apr. 2019.
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  11. Y. Wang, S. Chaudhuri, and L. E. Kavraki, “Point-Based Policy Synthesis for POMDPs with Boolean and Quantitative Objectives,” IEEE Robotics and Automation Letters, vol. 4, no. 2, pp. 1860–1867, Apr. 2019.
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  12. K. He, M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “Automated Abstraction of Manipulation Domains for Cost-Based Reactive Synthesis,” IEEE Robotics and Automation Letters, vol. 4, no. 2, pp. 285–292, Apr. 2019.
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  13. J. R. Abella, D. A. Antunes, C. Clementi, and L. E. Kavraki, “APE-Gen: A Fast Method for Generating Ensembles of Bound Peptide-MHC Conformations,” Molecules, vol. 24, no. 5, p. 881, Mar. 2019.
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  14. D. A. Antunes, J. R. Abella, D. Devaurs, M. M. Rigo, and L. E. Kavraki, “Structure-based methods for binding mode and binding affinity prediction for peptide-MHC complexes,” Current Topics in Medicinal Chemistry, vol. 18, no. 26, pp. 2239–2255, Jan. 2019.
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2018

  1. E. Hruska, J. R. Abella, F. Nüske, L. E. Kavraki, and C. Clementi, “Quantitative comparison of adaptive sampling methods for protein dynamics,” The Journal of Chemical Physics, vol. 149, no. 24, p. 244119, Dec. 2018.
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  2. E. E. Litsa, M. I. Pena, M. Moll, G. Giannakopoulos, G. N. Bennett, and L. E. Kavraki, “Machine Learning Guided Atom Mapping of Metabolic Reactions,” Journal of Chemical Information and Modeling, vol. 59, no. 3, pp. 1121–1135, Nov. 2018.
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  3. J. D. Hernández, E. Vidal, M. Moll, N. Palomeras, M. Carreras, and L. E. Kavraki, “Online Motion Planning for Unexplored Underwater Environments using Autonomous Underwater Vehicles,” Journal of Field Robotics, vol. 36, no. 2, pp. 370–396, Nov. 2018.
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  4. F. Lagriffoul, N. Dantam, C. Garrett, A. Akbari, S. Srivastava, and L. E. Kavraki, “Platform-Independent Benchmarks for Task and Motion Planning,” IEEE Robotics and Automation Letters, vol. 3, no. 4, pp. 3765–3772, Oct. 2018.
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  5. D. Devaurs, D. A. Antunes, and L. E. Kavraki, “Revealing Unknown Protein Structures Using Computational Conformational Sampling Guided by Experimental Hydrogen-Exchange Data,” International Journal of Molecular Sciences, vol. 19, no. 11, p. 3406, Oct. 2018.
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  6. N. T. Dantam, S. Chaudhuri, and L. E. Kavraki, “The Task Motion Kit,” Robotics and Automation Magazine, vol. 25, no. 3, pp. 61–70, Sep. 2018.
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  7. Z. K. Kingston, M. Moll, and L. E. Kavraki, “Sampling-Based Methods for Motion Planning with Constraints,” Annual Review of Control, Robotics, and Autonomous Systems, vol. 1, no. 1, pp. 159–185, May 2018.
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  8. Muhayyuddin, M. Moll, L. E. Kavraki, and J. Rosell, “Randomized Physics-based Motion Planning for Grasping in Cluttered and Uncertain Environments,” IEEE Robotics and Automation Letters, vol. 3, no. 2, pp. 712–719, Apr. 2018.
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  9. N. T. Dantam, Z. K. Kingston, S. Chaudhuri, and L. E. Kavraki, “An Incremental Constraint-Based Framework for Task and Motion Planning,” The International Journal of Robotics Research, vol. 37, no. 10, pp. 1134–1151, Mar. 2018.
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  10. D. A. Antunes, D. Devaurs, M. Moll, G. Lizée, and L. E. Kavraki, “General prediction of peptide-MHC binding modes using incremental docking: A proof of concept,” Scientific Reports, vol. 8, no. 1, p. 4327, Mar. 2018.
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  11. J. R. Abella, M. Moll, and L. E. Kavraki, “Maintaining and Enhancing Diversity of Sampled Protein Conformations in Robotics-Inspired Methods,” Journal of Computational Biology, vol. 25, no. 1, pp. 3–20, Jan. 2018.
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  12. Y. Wang, S. Chaudhuri, and L. E. Kavraki, “Bounded Policy Synthesis for POMDPs with Safe-Reachability Objectives,” in Proceedings of the 17th International Conference on Autonomous Agents and Multiagent Systems, Stockholm, Sweden, 2018, pp. 238–246.
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  13. D. Devaurs, M. Papanastasiou, D. A. Antunes, J. R. Abella, M. Moll, D. Ricklin, J. D. Lambris, and L. E. Kavraki, “Native state of complement protein C3d analysed via hydrogen exchange and conformational sampling,” International Journal of Computational Biology and Drug Design, vol. 11, no. 1/2, p. 90, 2018.
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2017

  1. D. A. Antunes, M. Moll, D. Devaurs, K. R. Jackson, G. Lizée, and L. E. Kavraki, “DINC 2.0: a new protein-peptide docking webserver using an incremental approach,” Cancer Research, vol. 77, no. 21, pp. e55–57, Nov. 2017.
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  2. D. A. Antunes, M. M. Rigo, M. V. Freitas, M. M. FA, M. Sinigaglia, G. Lizée, L. E. Kavraki, L. K. Selin, M. Cornberg, and G. F. Vieira, “Interpreting T-cell cross-reactivity through structure: implications for TCR-based cancer immunotherapy,” Frontiers in Immunology, vol. 8, no. 1210, Oct. 2017.
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  3. S. M. Kim, M. I. Peña, M. Moll, G. N. Bennett, and L. E. Kavraki, “A Review of Parameters and Heuristics for Guiding Metabolic Pathfinding,” Journal of Cheminformatics, vol. 9, no. 1, p. 51, Sep. 2017.
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  4. K. He, M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “Reactive Synthesis For Finite Tasks Under Resource Constraints,” in 2017 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Vancouver, BC, 2017, pp. 5326–5332.
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  5. J. Luo and L. E. Kavraki, “Part Assembly Using Static and Dynamic Force Fields,” in Proceedings. 2000 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS 2000) (Cat. No.00CH37113), Takamatsu, Japan, 2017, vol. 2, pp. 1468–1474.
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  6. C. Holleman, L. E. Kavraki, and J. Warren, “Planning Paths for a Flexible Surface Patch,” in Proceedings. 1998 IEEE International Conference on Robotics and Automation (Cat. No.98CH36146), Leuven, Belgium, 2017, vol. 1, pp. 21–26.
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  7. P. W. Finn, L. E. Kavraki, J.-C. Latombe, R. Motwani, and S. Venkat, “Search Techniques for Rational Drug Design,” in Proceedings Intelligent Information Systems. IIS’97, Grand Bahama Island, Bahamas, 2017, pp. 2–6.
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  8. A. Schweikard, R. Tombropoulos, L. E. Kavraki, J. Adler, and J.-C. Latombe, “Treatment Planning for a Radiosurgical System with General Kinematics,” in Proceedings of the 1994 IEEE International Conference on Robotics and Automation, San Diego, CA, USA, 2017, pp. 1764–1771.
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  9. D. Devaurs, D. A. Antunes, M. Papanastasiou, M. Moll, D. Ricklin, J. D. Lambris, and L. E. Kavraki, “Coarse-grained conformational sampling of protein structure improves the fit to experimental hydrogen-exchange data,” Frontiers in Molecular Biosciences, vol. 4, no. 13, Mar. 2017.
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  10. W. Baker, Z. Kingston, M. Moll, J. Badger, and L. E. Kavraki, “Robonaut 2 and You: Specifying and Executing Complex Operations,” in 2017 IEEE Workshop on Advanced Robotics and its Social Impacts (ARSO), Austin, TX, USA, 2017.
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  11. J. M. Phillips, A. M. Ladd, and L. E. Kavraki, “Simulated Knot Tying,” in Proceedings 2002 IEEE International Conference on Robotics and Automation (Cat. No.02CH37292), Washington, DC, USA, 2017, pp. 841–846.
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  12. A. Sudsang and L. E. Kavraki, “Part Orientation with a Force Field: Orienting Multiple Shapes using a Single Field,” in Proceedings 2001 IEEE/RSJ International Conference on Intelligent Robots and Systems. Expanding the Societal Role of Robotics in the the Next Millennium (Cat. No.01CH37180), Maui, HI, USA, 2017, vol. 1, pp. 208–213.
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  13. A. Sudsang and L. E. Kavraki, “A Geometric Approach to Designing a Programmable Force Field with a Unique Stable Equilibrium for Parts in the Plane,” in Proceedings 2001 ICRA. IEEE International Conference on Robotics and Automation (Cat. No.01CH37164), Seoul, South Korea, 2017, vol. 2, pp. 1079–1085. This paper was a finalist for best conference paper award
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  14. S. M. LaValle, J. Yakey, and L. E. Kavraki, “A Probabilistic Roadmap Approach for Systems with Closed Kinematic Chains,” in Proceedings 1999 IEEE International Conference on Robotics and Automation (Cat. No.99CH36288C), Detroit, MI, USA, 2017, vol. 3, pp. 1671–1677.
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  15. L. E. Kavraki, “Part Orientation with Programmable Vector Fields: Two Stable Equilibria for Most Parts,” in Proceedings of International Conference on Robotics and Automation, Albuquerque, NM, USA, 2017, vol. 3, pp. 2446–2452.
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  16. L. E. Kavraki, M. N. Kolountzakis, and J.-C. Latombe, “Analysis of Probabilistic Roadmaps for Path Planning,” in Proceedings of IEEE International Conference on Robotics and Automation, Minneapolis, MN, USA, 2017, pp. 3020–3026.
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  17. L. E. Kavraki and J.-C. Latombe, “Randomized Preprocessing of Configuration Space for Path Planning: Articulated Robots,” in Proceedings of IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS’94), Munich, Germany, 2017, pp. 1764–1771.
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  18. A. Novinskaya, D. Devaurs, M. Moll, and L. E. Kavraki, “Defining low-dimensional projections to guide protein conformational sampling,” Journal of Computational Biology, vol. 24, no. 1, pp. 79–89, Jan. 2017.
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  19. D. Halperin, L. E. Kavraki, and K. Solovey, “Robotics,” in Handbook of Discrete and Computational Geometry, J. E. Goodman, J. O’Rourke, and C. D. Tóth, Eds. Boca Raton, NY: CRC Press, 2017.
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2016

  1. J. Bohg, M. Ciocarlie, J. Civera, and L. E. Kavraki, “Big Data in Robotics,” Big Data, vol. 4, no. 4, pp. 195–196, Dec. 2016.
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  2. J. D. Hernández, M. Moll, E. Vidal Garcia, M. Carreras, and L. E. Kavraki, “Planning Feasible and Safe Paths Online for Autonomous Underwater Vehicles in Unknown Environments,” in 2016 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), Daejeon, South Korea, 2016, pp. 1313–1320.
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  3. N. T. Dantam, Z. K. Kingston, S. Chaudhuri, and L. E. Kavraki, “Incremental Task and Motion Planning: A Constraint-Based Approach,” in Robotics: Science and Systems XII, 2016.
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  4. M. Moll, P. W. Finn, and L. E. Kavraki, “Structure-Guided Selection of Specificity Determining Positions in the Human Kinome,” BMC Genomics, vol. 17, no. S4, p. 431, Aug. 2016.
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  5. M. Lahijanian, M. R. Maly, D. Fried, L. E. Kavraki, H. Kress-Gazit, and M. Y. Vardi, “Iterative Temporal Planning in Uncertain Environments with Partial Satisfaction Guarantees,” IEEE Transactions on Robotics, vol. 32, no. 3, pp. 583–599, Jun. 2016.
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  6. F. T. Pokorny, D. Kragic, L. E. Kavraki, and K. Goldberg, “High-Dimensional Winding-Augmented Motion Planning with 2D Topological Task Projections and Persistent Homology,” in 2016 IEEE International Conference on Robotics and Automation (ICRA), Stockholm, Sweden, 2016, pp. 24–31.
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  7. N. T. Dantam, K. Bøndergaard, M. A. Johansson, T. Furuholm, and L. E. Kavraki, “Unix Philosophy and the Real World: Control Software for Humanoid Robots,” Frontiers in Robotics and AI, vol. 3, Mar. 2016.
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  8. Y. Wang, N. T. Dantam, S. Chaudhuri, and L. E. Kavraki, “Task and Motion Policy Synthesis as Liveness Games,” in Proceedings of the International Conference on Automated Planning and Scheduling, 2016, pp. 536–540.
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  9. S. M. Kim, M. I. Peña, M. Moll, G. Giannakopoulos, G. N. Bennett, and L. E. Kavraki, “An Evaluation of Different Clustering Methods and Distance Measures Used for Grouping Metabolic Pathways,” in 2016 International Conference on Bioinformatics and Computational Biology. ISCA, 2016, pp. 115–122.
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  10. L. E. Kavraki and M. Moll, “Editorial: Special Issue on the 2014 ‘Robotics: Science & Systems’ Conference,” International Journal of Robotics Research, vol. 3–4, no. 1–3, 2016.
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  11. L. E. Kavraki and S. M. LaValle, “Motion Planning,” in Handbook of Robotics, 2nd Edition, Springer, 2016.
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2015

  1. A. Novinskaya, D. Devaurs, M. Moll, and L. E. Kavraki, “Improving protein conformational sampling by using guiding projections,” in 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Washington, DC, USA, 2015, pp. 1272–1279.
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  2. M. Moll, P. W. Finn, and L. E. Kavraki, “Structure-Guided Selection of Specificity Determining Positions in the Human Kinome,” in 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Washington, DC, USA, 2015, pp. 21–28.
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  3. P. K. Mandal, P. Morlacchi, J. M. Knight, T. M. Link, G. R. Lee, R. Nurieva, D. Singh, A. Dhanik, L. E. Kavraki, D. B. Corry, J. E. Ladbury, and J. S. McMurray, “Targeting the Src homology 2 (SH2) domain of signal transducer and activator of transcription 6 (STAT6) with cell-permeable, phosphatase-stable phosphopeptide mimics potently inhibits Tyr641 phosphorylation and transcriptional activity,” Journal of Medicinal Chemistry, vol. 58, no. 22, pp. 8970–8984, Nov. 2015.
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  4. Z. Kingston, N. Dantam, and L. E. Kavraki, “Kinematically constrained workspace control via linear optimization,” in 2015 IEEE-RAS 15th International Conference on Humanoid Robots (Humanoids), Seoul, South Korea, 2015, pp. 758–764.
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  5. D. A. Antunes, D. Devaurs, and L. E. Kavraki, “Understanding the challenges of protein flexibility in drug design,” Expert Opinion on Drug Discovery, vol. 10, no. 12, pp. 1301–1313, Sep. 2015.
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  6. D. K. Grady, M. Moll, and L. E. Kavraki, “Extending the Applicability of POMDP Solutions to Robotic Tasks,” IEEE Transactions on Robotics, vol. 31, no. 4, pp. 948–961, Aug. 2015.
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  7. K. He, M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “Towards Manipulation Planning with Temporal Logic Specifications,” in 2015 IEEE International Conference on Robotics and Automation (ICRA), Seattle, WA, USA, 2015, pp. 346–352.
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  8. C. Voss, M. Moll, and L. E. Kavraki, “A Heuristic Approach to Finding Diverse Short Paths,” in 2015 IEEE International Conference on Robotics and Automation (ICRA), Seattle, WA, USA, 2015, pp. 4173–4179.
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  9. R. Luna, M. Lahijanian, M. Moll, and L. E. Kavraki, “Asymptotically Optimal Stochastic Motion Planning with Temporal Goals,” in Springer Tracts in Advanced Robotics, Istanbul, Turkey, 2015, pp. 335–352.
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  10. M. Lahijanian, S. Almagor, D. Fried, L. E. Kavraki, and M. Y. Vardi, “This Time the Robot Settles for a Cost: A Quantitative Approach to Temporal Logic Planning with Partial Satisfaction,” in Proceedings of The Twenty-Ninth AAAI Conference (AAAI-15), Austin, TX, 2015, pp. 3664–3671.
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  11. L. E. Kavraki, D. Hsu, and J. Buchli, Eds., Robotics Science and Systems XI. 2015.
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  12. L. E. Kavraki and M. Likhachev, “Editorial: Special Issue on the 2014 ‘Robotics: Science & Systems’ Conference,” Autonomous Robots, vol. 39, no. 3, 2015.
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2014

  1. R. Luna, M. Lahijanian, M. Moll, and L. E. Kavraki, “Optimal and Efficient Stochastic Motion Planning in Partially-Known Environments,” in Proceedings of The Twenty-Eighth AAAI Conference on Artificial Intelligence, Quebec City, Canada, 2014, pp. 2549–2555.
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  2. R. Luna, M. Lahijanian, M. Moll, and L. E. Kavraki, “Fast Stochastic Motion Planning with Optimality Guarantees using Local Policy Reconfiguration,” in 2014 IEEE International Conference on Robotics and Automation (ICRA), Hong Kong, China, 2014, pp. 3013–3019.
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  3. M. Lahijanian, L. E. Kavraki, and M. Y. Vardi, “A Sampling-Based Strategy Planner for Nondeterministic Hybrid Systems,” in 2014 IEEE International Conference on Robotics and Automation (ICRA), Hong Kong, China, 2014, pp. 3005–3012.
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  4. Z. Wang, Z. Wang, M. Moll, P.-S. Huang, D. K. Grady, N. Nasrabadi, T. Huang, L. E. Kavraki, and M. Hasegawa-Johnson, “Active Planning, Sensing and Recognition Using a Resource-Constrained Discriminant POMDP,” in Proceedings of the IEEE/ISPRS Workshop on Multi-Sensor Fusion for Outdoor Dynamic Scene Understanding at CVPR, 2014.
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  5. D. Fox, L. E. Kavraki, and H. Kurniawati, Eds., Robotics Science and Systems X. 2014.
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  6. S. Nedunuri, S. Prabhu, M. Moll, S. Chaudhuri, and L. E. Kavraki, “SMT-Based Synthesis of Integrated Task and Motion Plans for Mobile Manipulation,” in Proceedings of the IEEE International Conference on Robotics and Automation, 2014, pp. 655–662.
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2013

  1. M. Moll, J. Bordeaux, and L. E. Kavraki, “Software for Project-Based Learning of Robot Motion Planning,” Computer Science Education, vol. 23, no. 4, pp. 332–348, Dec. 2013.
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  2. D. K. Grady, M. Moll, and L. E. Kavraki, “Combining a POMDP Abstraction with Replanning to Solve Complex, Position-Dependent Sensing Tasks,” in Proceedings of the AAAI Fall Symposium, Arlington, Virginia, 2013.
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  3. A. Dhanik, J. McMurray, and L. E. Kavraki, “DINC: A new AutoDock-based protocol for docking large ligands,” BMC Structural Biology, vol. 13, no. S1, p. S11, Nov. 2013.
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  4. J. Chyan, M. Moll, and L. E. Kavraki, “Improving the Prediction of Kinase Binding Affinity Using Homology Models,” in Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics, Wshington DC USA, 2013.
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  5. B. Gipson, M. Moll, and L. E. Kavraki, “SIMS: A hybrid method for rapid conformational analysis,” PLoS ONE, vol. 8, no. 7, p. e68826, Jul. 2013.
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  6. D. H. Bryant, M. Moll, P. W. Finn, and L. E. Kavraki, “Combinatorial clustering of residue position subsets predicts inhibitor affinity across the human kinome,” PLoS Computational Biology, vol. 9, no. 6, p. e1003087, Jun. 2013.
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  7. D. K. Grady, M. Moll, and L. E. Kavraki, “Automated Model Approximation for Robotic Navigation with POMDPs,” in 2013 IEEE International Conference on Robotics and Automation, Karlsruhe, Germany, 2013, pp. 78–84.
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  8. B. Gipson, M. Moll, and L. E. Kavraki, “Resolution Independent Density Estimation for Motion Planning in High-Dimensional Spaces,” in 2013 IEEE International Conference on Robotics and Automation, Karlsruhe, Germany, 2013, pp. 2429–2435.
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  9. M. R. Maly, M. Lahijanian, L. E. Kavraki, H. Kress-Gazit, and M. Y. Vardi, “Iterative Temporal Motion Planning for Hybrid Systems in Partially Unknown Environments,” in Proceedings of the 16th international conference on Hybrid systems: computation and control - HSCC ’13, Philadelphia, Pennsylvania, USA, 2013, pp. 353–362.
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2012

  1. A. Dhanik, J. S. McMurray, and L. E. Kavraki, “Binding Modes of Peptidomimetics Designed to Inhibit STAT3,” PLoS ONE, vol. 7, no. 12, p. e51603, Dec. 2012.
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  2. D. K. Grady, M. Moll, C. Hegde, A. C. Sankaranarayanan, R. G. Baraniuk, and L. E. Kavraki, “Multi-Robot Target Verification with Reachability Constraints,” in 2012 IEEE International Symposium on Safety, Security, and Rescue Robotics (SSRR), College Station, TX, USA, 2012, pp. 1–6.
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  3. D. K. Grady, M. Moll, C. Hegde, A. C. Sankaranarayanan, R. G. Baraniuk, and L. E. Kavraki, “Multi-Objective Sensor-Based Replanning for a Car-Like Robot,” in 2012 IEEE International Symposium on Safety, Security, and Rescue Robotics (SSRR), College Station, TX, USA, 2012, pp. 1–6.
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  4. M. R. Maly and L. E. Kavraki, “Low-Dimensional Projections for SyCLoP,” in 2012 IEEE/RSJ International Conference on Intelligent Robots and Systems, Vilamoura-Algarve, Portugal, 2012, pp. 420–425.
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  5. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Falsification of LTL safety properties in hybrid systems,” International Journal on Software Tools for Technology Transfer, vol. 15, no. 4, pp. 305–320, May 2012.
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  6. I. A. Sucan and L. E. Kavraki, “Accounting for Uncertainty in Simultaneous Task and Motion Planning Using Task Motion Multigraphs,” in 2012 IEEE International Conference on Robotics and Automation, Saint Paul, MN, 2012, pp. 4822–4828.
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  7. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Falsification of LTL Safety Properties in Hybrid Systems,” in International Journal on Software Tools for Technology Transfer, York, UK, 2012, vol. 15, no. 4, pp. 305–320.
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  8. B. Gipson, D. Hsu, L. E. Kavraki, and J.-C. Latombe, “Computational Models of Proteins Kinematics and Dynamics: Beyond Simulation,” Annual Reviews of Analytical Chemistry, vol. 5, pp. 273–291, Apr. 2012.
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  9. A. Shehu and L. E. Kavraki, “Modeling Structures and Motions of Loops in Protein Molecules,” Entropy, vol. 14, no. 2, pp. 252–290, Feb. 2012.
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  10. K. E. Bekris, D. K. Grady, M. Moll, and L. E. Kavraki, “Safe Distributed Motion Coordination for Second-Order Systems With Different Planning Cycles,” The International Journal of Robotics Research, vol. 31, no. 2, pp. 129–150, Feb. 2012.
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  11. I. A. Sucan and L. E. Kavraki, “A Sampling-Based Tree Planner for Systems With Complex Dynamics,” IEEE Transactions on Robotics, vol. 28, no. 1, pp. 116–131, Feb. 2012.
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  12. A. Dhanik, J. S. McMurray, and L. E. Kavraki, “AUTODOCK-based Incremental Docking Protocol to Improve Docking of Large Ligands,” in IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW), Philadelphia, 2012, pp. 48–55.
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  13. A. Dhanik and L. E. Kavraki, “Protein-ligand interactions: computational docking,” Encyclopedia of Life Sciences, 2012.
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2011

  1. A. P. Heath, G. N. Bennett, and L. E. Kavraki, “An Algorithm for Efficient Identification of Branched Metabolic Pathways,” Journal of Computational Biology, vol. 18, no. 11, pp. 1575–1597, Nov. 2011.
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  2. M. Moll, I. A. Sucan, J. Bordeaux, and L. E. Kavraki, “Teaching Motion Planning Concepts to Undergraduate Students,” in Advanced Robotics and its Social Impacts, Menlo Park, CA, USA, 2011.
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  3. D. K. Grady, M. Moll, C. Hegde, A. C. Sankaranarayanan, R. G. Baraniuk, and L. E. Kavraki, “Look Before You Leap: Predictive Sensing and Opportunistic Navigation,” in Workshop on Progress and Open Problems in Motion Planning at the IEEE/RSJ International Conference on Intelligent Robots and Systems, San Francisco, 2011.
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  4. A. Bhatia, M. R. Maly, L. E. Kavraki, and M. Y. Vardi, “Motion Planning with Complex Goals,” IEEE Robotics and Automation Magazine, vol. 18, no. 3, pp. 55–64, Sep. 2011.
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  5. A. Dhanik, J. S. McMurray, and L. E. Kavraki, “On modeling peptidomimetics in complex with the SH2 domain of Stat3,” in 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Boston, MA, 2011, pp. 3329–3332.
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  6. M. Moll, D. H. Bryant, and L. E. Kavraki, “The LabelHash Server and Tools for Substructure-Based Functional Annotation,” Bioinformatics, vol. 27, no. 15, pp. 2161–2162, Jun. 2011.
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  7. I. A. Sucan and L. E. Kavraki, “Mobile Manipulation: Encoding Motion Planning Options Using Task Motion Multigraphs,” in 2011 IEEE International Conference on Robotics and Automation, Shanghai, China, 2011, pp. 5492–5498.
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  8. I. A. Sucan and L. E. Kavraki, “On the Advantages of Using Task Motion Multigraphs for Efficient Mobile Manipulation,” in IEEE/RSJ International Conference on Intelligent Robots and Systems, San Francisco, CA, 2011, pp. 4621–4626.
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  9. A. P. Heath, G. N. Bennett, and L. E. Kavraki, “Identifying Branched Metabolic Pathways by Merging Linear Metabolic Pathways,” Lecture Notes in Computer Science, vol. 6577/2011, pp. 70–84, 2011.
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  10. D. K. Grady, K. E. Bekris, and L. E. Kavraki, “Asynchronous Distributed Motion Planning with Safety Guarantees under Second-Order Dynamics,” in Algorithmic Foundations of Robotics IX, vol. 68, Singapore, Singapore: Springer Berlin / Heidelberg, 2011, pp. 53–70.
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2010

  1. A. Bhatia, L. E. Kavraki, and M. Y. Vardi, “Motion Planning with Hybrid Dynamics and Temporal Goals,” in 49th IEEE Conference on Decision and Control (CDC), Atlanta, GA, USA, 2010, pp. 1108–1115.
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  2. M. Moll, D. H. Bryant, and L. E. Kavraki, “The LabelHash Algorithm for Substructure Matching,” BMC Bioinformatics, vol. 11, no. 1, p. 555, Nov. 2010.
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  3. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Motion Planning with Dynamics by a Synergistic Combination of Layers of Planning,” IEEE Transactions on Robotics, vol. 26, no. 3, pp. 469–482, Jun. 2010.
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  4. A. Bhatia, L. E. Kavraki, and M. Y. Vardi, “Sampling-Based Motion Planning with Temporal Goals,” in 2010 IEEE International Conference on Robotics and Automation, Anchorage, AK, 2010, pp. 2689–2696.
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  5. I. A. Sucan and L. E. Kavraki, “On the Implementation of Single-Query Sampling-Based Motion Planners,” in 2010 IEEE International Conference on Robotics and Automation, Anchorage, AK, 2010, pp. 2005–2011.
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  6. D. H. Bryant, M. Moll, B. Y. Chen, V. Y. Fofanov, and L. E. Kavraki, “Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction,” BMC Bioinformatics, vol. 11, no. 1, p. 242, May 2010.
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  7. A. P. Heath, G. N. Bennett, and L. E. Kavraki, “Finding Metabolic Pathways Using Atom Tracking,” Bioinformatics, vol. 26, no. 12, pp. 1548–1555, Apr. 2010.
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  8. H. Stamati, C. Clementi, and L. E. Kavraki, “Application of nonlinear dimensionality reduction to characterize the conformational landscape of small peptides,” Proteins: Structure, Function, and Bioinformatics, vol. 78, no. 2, pp. 223–235, Feb. 2010.
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  9. M. Moll, J. Bordeaux, and L. E. Kavraki, “Teaching Robot Motion Planning,” Computers in Education (Special Issue on Novel Approaches to Robotics Education), vol. 20, no. 3, pp. 50–59, 2010.
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  10. N. Haspel, M. Moll, M. L. Baker, W. Chiu, and L. E. Kavraki, “Tracing conformational changes in proteins,” BMC Structural Biology, vol. 10, no. Suppl 1, p. S1, 2010.
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2009

  1. N. Haspel, M. Moll, M. L. Baker, W. Chiu, and L. E. Kavraki, “Tracing Conformational Changes in Proteins,” in 2009 IEEE International Conference on Bioinformatics and Biomedicine Workshop, Washington, DC, 2009.
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  2. I. A. Sucan and L. E. Kavraki, “On the Performance of Random Linear Projections for Sampling-Based Motion Planning,” in 2009 IEEE/RSJ International Conference on Intelligent Robots and Systems, St. Louis, MO, 2009, pp. 2434–2439.
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  3. R. B. Rusu, I. A. Sucan, B. P. Gerkey, S. Chitta, M. Beetz, and L. E. Kavraki, “Real-Time Perception-Guided Motion Planning for a Personal Robot,” in 2009 IEEE/RSJ International Conference on Intelligent Robots and Systems, St. Louis, MO, 2009, pp. 4245–4252.
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  4. A. Shehu, L. E. Kavraki, and C. Clementi, “Multiscale characterization of protein conformational ensembles,” Proteins: Structure, Function, and Bioinformatics, vol. 76, no. 4, pp. 837–851, Sep. 2009.
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  5. N. Haspel, B. Geisbrecht, J. D. Lambris, and L. E. Kavraki, “Multi-scale Characterization of the Energy Landscape of Proteins with Application to the C3d/Efb-C Complex,” Proteins: Structure, Function, and Bioinformatics, vol. 78, no. 4, pp. 1004–1014, Sep. 2009.
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  6. A. P. Heath and L. E. Kavraki, “Computational Challenges in Systems Biology,” Computer Science Review, vol. 3, no. 1, pp. 1–17, Feb. 2009.
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  7. K. E. Bekris, K. I. Tsianos, and L. E. Kavraki, “Safe and Distributed Kinodynamic Replanning for Vehicular networks,” Mobile Networks and Applications, vol. 14, no. 3, pp. 292–308, Feb. 2009.
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  8. I. A. Sucan and L. E. Kavraki, “Kinodynamic Motion Planning by Interior-Exterior Cell Exploration,” in Springer Tracts in Advanced Robotics, Guanajuato, Mexico, 2009, vol. 57, pp. 449–464.
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  9. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Hybrid systems: from verification to falsification by combining motion planning and discrete search,” Formal Methods in System Design, vol. 34, pp. 157–182, 2009.
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2008

  1. N. Haspel, D. Ricklin, B. Geisbrecht, J. D. Lambris, and L. E. Kavraki, “Electrostatic Contributions Drive the Interaction Between Staphylococcus aureus Protein Efb-C and its Complement Target C3d,” Protein Science, vol. 17(11), pp. 1894–1906, Nov. 2008.
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  2. V. Y. Fofanov, B. Y. Chen, D. H. Bryant, M. Moll, O. Lichtarge, L. E. Kavraki, and M. Kimmel, “A Statistical Model to Correct Systematic Bias Introduced by Algorithmic Thresholds in Protein Structural Comparison Algorithms,” in 2008 IEEE International Conference on Bioinformatics and Biomeidcine Workshops, Philadelphia, PA, 2008.
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  3. K. I. Tsianos and L. E. Kavraki, “Replanning: A powerful planning strategy for hard kinodynamic problems,” in 2008 IEEE/RSJ International Conference on Intelligent Robots and Systems, Nice, 2008, pp. 1667–1672.
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  4. I. A. Sucan, J. F. Kruse, M. Yim, and L. E. Kavraki, “Kinodynamic Motion Planning with Hardware Demonstrations,” in 2008 IEEE/RSJ International Conference on Intelligent Robots and Systems, Nice, 2008, pp. 1661–1666.
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  5. D. Ricklin, S. K. Ricklin-Lichtsteiner, G. Sfyroera, H. Chen, A. Tzekou, P. Magotti, Y.-Q. Wu, B. L. Garcia, W. J. McWorther, N. Haspel, L. E. Kavraki, B. Geisbrecht, and J. D. Lambris, “Novel insights into target specificities and molecular mechanisms for two potent complement evasion proteins from Staphylococcus aureus.,” in XXII International Complement Workshop, Basel, Switzerland, 2008.
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  6. M. Moll and L. E. Kavraki, “Matching of Structural Motifs Using Hashing on Residue Labels and Geometric Filtering for Protein Function Prediction,” in Computational Systems Bioinformatics, Stanford University, USA, 2008, pp. 157–168.
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  7. M. Moll and L. E. Kavraki, “LabelHash: A Flexible and Extensible Method for Matching Structural Motifs,” in Nature Precedings, 2008.
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  8. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Discrete Search Leading Continuous Exploration for Kinodynamic Motion Planning,” in Robotics, Atlanta, Georgia, 2008, pp. 326–333.
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  9. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Impact of Workspace Decompositions on Discrete Search Leading Continuous Exploration (DSLX) Motion Planning,” in 2008 IEEE International Conference on Robotics and Automation, Pasadena, CA, 2008, pp. 3751–3756.
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  10. A. P. Heath, G. Balázsi, and L. E. Kavraki, “Bipolarity of the saccharomyces cerevisiae genome,” 2008 2nd International Conference on Bioinformatics and Biomedical Engineering, pp. 330–333, May 2008.
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  11. A. Shehu, L. E. Kavraki, and C. Clementi, “Unfolding the Fold of Cyclic Cysteine-rich Peptides,” Protein Science, vol. 17, no. 3, pp. 482–493, Mar. 2008.
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  12. I. A. Sucan, J. F. Kruse, M. Yim, and L. E. Kavraki, “Reconfiguration for modular robots using kinodynamic motion planning,” in ASME 2008 Dynamic Systems and Control Conference, Parts A and B, Ann Arbor, Michigan, USA, 2008.
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  13. D. M. Kristensen, M. R. Ward, A. M. Lisewski, S. Edrin, B. Y. Chen, V. Y. Fofanov, M. Kimmel, L. E. Kavraki, and O. Lichtarge, “Prediction of enzyme function based on 3D templates of evolutionarily important amino acids,” BMC Bioinformatics, vol. 9, no. 1, Jan. 2008.
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  14. K. I. Tsianos, D. Halperin, L. E. Kavraki, and J.-C. Latombe, “Robot Algorithms,” in Algorithms and Theory of Computation Handbook, Second., vol. 2, Boca Raton, FL: CRC Press, 2008.
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2007

  1. M. Moll, D. Schwarz, and L. E. Kavraki, “Roadmap Methods for Protein Folding,” in Protein Structure Prediction: Methods and Protocols, Humana Press, 2007.
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  2. K. E. Bekris, K. I. Tsianos, and L. E. Kavraki, “A Distributed Protocol for Safe Real-Time Planning of Communicating Vehicles with Second-Order Dynamics,” in The Proceedings of First International Conference on Robot Communication and Coordination, Athens, Greece, 2007.
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  3. K. E. Bekris, K. I. Tsianos, and L. E. Kavraki, “A Decentralized Planner that Guarantees the Safety of Communicating Vehicles with Complex Dynamics that Replan Online,” in 2007 IEEE/RSJ International Conference on Intelligent Robots and Systems, San Diego, CA, 2007.
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  4. B. Y. Chen, D. H. Bryant, A. E. Cruess, J. H. Bylund, V. Y. Fofanov, M. Kimmel, O. Lichtarge, and L. E. Kavraki, “Composite Motifs Integrating Multiple Protein Structures Increase Sensitivity for Function Prediction,” in Computational Systems Bioinformatics, University of California, San Diego, USA, 2007, pp. 343–355.
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  5. K. I. Tsianos, I. A. Sucan, and L. E. Kavraki, “Sampling-based robot motion planning: Towards realistic applications,” Computer Science Review, vol. 1, no. 1, pp. 2–11, Aug. 2007.
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  6. A. Shehu, C. Clementi, and L. E. Kavraki, “Sampling Conformation Space to Model Equilibrium Fluctuations in Proteins,” Algorithmica, vol. 48, no. 4, pp. 303–327, Jul. 2007.
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  7. B. Y. Chen, V. Y. Fofanov, D. H. Bryant, B. D. Dodson, D. M. Kristensen, A. M. Lisewski, M. Kimmel, O. Lichtarge, and L. E. Kavraki, “The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs,” Journal of Computational Biology, vol. 14, no. 6, pp. 791–816, Jul. 2007.
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  8. A. P. Heath, L. E. Kavraki, and C. Clementi, “From coarse-grain to all-atom: Toward multiscale analysis of protein landscapes,” Proteins: Structure, Function, and Bioinformatics, vol. 68, no. 3, pp. 646–661, May 2007.
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  9. K. E. Bekris and L. E. Kavraki, “Greedy but Safe Replanning under Kinodynamic Constraints,” in Proceedings 2007 IEEE International Conference on Robotics and Automation, Rome, Italy, 2007, pp. 704–710.
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  10. E. Plaku and L. E. Kavraki, “Nonlinear Dimensionality Reduction Using Approximate Nearest Neighbors,” in Proceedings of the 2007 SIAM International Conference on Data Mining, Minneapolis, Minnesota, 2007, pp. 3711–3716.
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  11. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “A Motion Planner for a Hybrid Robotic System with Kinodynamic Constraints,” in Proceedings 2007 IEEE International Conference on Robotics and Automation, Roma, 2007, pp. 692–697.
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  12. B. Y. Chen, D. H. Bryant, V. Y. Fofanov, D. M. Kristensen, A. E. Cruess, M. Kimmel, O. Lichtarge, and L. E. Kavraki, “Cavity Scaling: Automated Refinement of Cavity-Aware Motifs in Protein Function Prediction,” Journal of Bioinformatics and Computational Biology, vol. 05, no. 02a, pp. 353–382, Apr. 2007.
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  13. A. Shehu, L. E. Kavraki, and C. Clementi, “On the Characterization of Protein Native State Ensembles,” Biophysical Journal, vol. 92, no. 5, pp. 1503–1511, Mar. 2007.
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  14. E. Plaku, H. Stamati, C. Clementi, and L. E. Kavraki, “Fast and Reliable Analysis of Molecular Motion Using Proximity Relations and Dimensionality Reduction,” Proteins: Structure, Function, and Bioinformatics, vol. 67, no. 4, pp. 897–907, Mar. 2007.
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  15. E. Plaku and L. E. Kavraki, “Distributed Computation of the KNN Graph for Large High-Dimensional Point Sets,” Journal of Parallel and Distributed Computing, vol. 67, no. 3, pp. 346–359, Mar. 2007.
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  16. D. Schwarz and L. E. Kavraki, “Protein-Ligand Interactions: Computational Docking,” in Encyclopedia of Life Sciences, Wiley, 2007, pp. Article #A4105.
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  17. E. Plaku, L. E. Kavraki, and M. Y. Vardi, “Hybrid Systems: From Verification to Falsification,” in International Conference on Computer Aided Verification (CAV), vol. 4590, Berlin, Germany: Lecture Notes in Computer Science, Springer-Verlag Heidelberg, 2007, pp. 468–481.
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  18. E. Plaku, K. E. Bekris, and L. E. Kavraki, “OOPS for Motion Planning: An Online Open-source Programming System,” in IEEE International Conference on Robotics and Automation (ICRA), Rome, Italy, 2007, pp. 3711–3716.
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2006

  1. M. Moll and L. E. Kavraki, “Path Planning for Deformable Linear Objects,” IEEE Transactions on Robotics, vol. 22, no. 4, pp. 625–636, Aug. 2006.
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  2. A. Shehu, C. Clementi, and L. E. Kavraki, “Modeling Protein Conformational Ensembles: From Missing Loops to Equilibrium Fluctuations,” Proteins: Structure, Function, and Bioinformatics, vol. 65, no. 1, pp. 164–179, Aug. 2006.
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  3. B. Y. Chen, D. H. Bryant, V. Y. Fofanov, D. M. Kristensen, A. E. Cruess, M. Kimmel, O. Lichtarge, and L. E. Kavraki, “Cavity-Aware Motifs Reduce False Positives in Protein Function Prediction,” in Computational Systems Bioinformatics, Stanford CA, 2006, vol. 4, pp. 311–323.
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  4. P. Das, M. Moll, H. Stamati, L. E. Kavraki, and C. Clementi, “Low-dimensional Free-energy Landscapes of Protein-Folding Reactions by Nonlinear Dimensionality Reduction,” Proceedings of the National Academy of Sciences, vol. 103, no. 26, pp. 9885–9890, Jun. 2006.
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  5. D. M. Kristensen, B. Y. Chen, V. Y. Fofanov, M. R. Ward, A. M. Lisewski, M. Kimmel, L. E. Kavraki, and O. Lichtarge, “Recurrent Use of Evolutionary Importance for Functional Annotation of Proteins Based on Local Structural Similarity,” Protein Science, vol. 15, no. 6, pp. 1530–1536, Jun. 2006.
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  6. K. E. Bekris, M. Glick, and L. E. Kavraki, “Evaluation of Algorithms for Bearing-Only SLAM,” in Proceedings 2006 IEEE International Conference on Robotics and Automation, 2006. ICRA 2006., Orlando, FL, 2006, pp. 1937–1944.
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  7. B. Y. Chen, V. Y. Fofanov, D. H. Bryant, B. D. Dodson, D. M. Kristensen, A. M. Lisewski, M. Kimmel, O. Lichtarge, and L. E. Kavraki, “Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction,” in Lecture Notes in Computer Science, Venice, Italy, 2006, pp. 500–515.
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  8. E. Plaku and L. E. Kavraki, “Quantitative Analysis of Nearest Neighbors Search in High-Dimensional Sampling-based Motion Planning,” in Workshop on Algorithmic Foundations of Robotics (WAFR), New York, NY, 2006.
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  9. K. E. Bekris, A. A. Argyros, and L. E. Kavraki, “Exploiting Panoramic Vision for Angle-Based Robot Navigation,” in Lecture Notes in Computer Science, Vol. 33, Springer, 2006, pp. 229–251.
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2005

  1. E. Plaku, K. E. Bekris, B. Y. Chen, A. M. Ladd, and L. E. Kavraki, “Sampling-Based Roadmap of Trees for Parallel Motion Planning,” IEEE Transactions on Robotics, vol. 21, no. 4, pp. 597–608, Aug. 2005.
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  2. A. A. Argyros, K. E. Bekris, S. C. Orphanoudakis, and L. E. Kavraki, “Robot Homing by Exploiting Panoramic Vision,” Autonomous Robots, vol. 19, no. 1, pp. 7–25, Jul. 2005.
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  3. A. M. Ladd and L. E. Kavraki, “Motion Planning in the Presence of Drift, Underactuation and Discrete System Changes,” in Robotics: Science and Systems I, Boston, MA, 2005, pp. 233–241.
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  4. H. Choset, W. Burgard, S. Hutchinson, G. Kantor, L. E. Kavraki, K. Lynch, and S. Thrun, Principles of Robot Motion: Theory, Algorithms, and Implementation. MIT Press, 2005.
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