ANDRÉS JARAMILLO-BOTERO, Ph.D.

Year

• "Molecular origin of enhanced mechanical strength in double network polymer hydrogels", Jaramillo-Botero, A., Qi, A. and Goddard, WA III. Nature Materials. in preparation
• "Silica surface reactions with H2, N2 and O2 using reactive molecular dynamics", Soules, T.F., Jaramillo-Botero, A., Xiao, H., Matthews, M.J., Goddard III, W.A, and Elhadj, S., Journal of Non-crystalline Solids. In preparation
• "Carbon Phases Under Extreme Conditions of Temperature and Pressure during Shock Compression", Qi, A., Su, J., Jaramillo-Botero, A., Zybin, S.V., and Goddard III, W.A., Phys. Rev. B. in preparation
• "Complementary Field Effect Nanopore Device for Charge-tagged Nucleic Acid Sequence Identification", Jaramillo-Botero, A., Cvicek, V., Goddard III, W.A Nanotechnology. In preparation
• "The percolation limit near the Flory-Stockmayer Transition in Polymer Hydrogel Networks", Blanco, M., Jaramillo-Botero, A., Goddard, WA III. In preparation

2012

• Jaramillo-Botero, A., Non-adiabatic dynamics of systems in extreme conditions, invited talk 2012 Exploring the Physics and Chemistry of Giant Planets on NIF workshop, Dec 7, 2012.
• Jaramillo-Botero, A, Hypervelocity shock-induced phenomena, Caltech-PSAAP Tri-lab Sponsor Team (TST) meeting, November 15, 2012
• Jaramillo-Botero, A., Qi, A., Cheng, M.J., Goddard, W.A. III,  Beegle, L., and Hodyss, R., "Hypervelocity impact effect of molecules from Enceladus' Plume and Titan's upper atmosphere on NASA's Cassini Spectrometer from Reactive Dynamics Simulations", Phys. Rev. Letters (PRL), 109, 213201, 2012.  Editor highlighted article.
• Qi An, Konrad Samwer, William A. Goddard, William L. Johnson, Andres Jaramillo-Botero, Glenn Garret, and Marios D. Demetriou, "Predicted Optimum Composition for Glass Forming Ability of Bulk Amorphous Alloys: Application to Cu-Zr-Al", J. Phys. Chem. Lett., 3 (21), pp 3143-3148, 2012
• Jaramillo-Botero, A., An, Q., Theofanis, P.L. and William A. Goddard III, Large-Scale Reactive Molecular Simulation of Hypervelocity Impact of Materials, Procedia Engineering, Elsevier, Hypervelocity Impact Symposium 2012, Baltimore, MD, Sept. 17, 2012.
• Jaramillo-Botero, A. and Goddard, W.A. III "Large-Scale Reactive Simulations of Materials in Extreme Conditions", APS March Meeting 2012, Focus Session: Simulation of Matter at Extreme Conditions - Warm Dense Matter, February 28, 2012.
• Jaramillo-Botero, A., Tahir-Kheli, J., von Allmen, P., Goddard WA III, "Multiscale, multiparadigm modeling for nano systems characterization and design", CRC handbook of Nanoscience, Engineering and Technology, 3rd ed. Chapter 29. In press (May 2012).
• Liu, L, Jaramillo-Botero, A., Goddard, W.A. III, and Huan, S. "Development of a ReaxFF Reactive Force Field for Ettringite and Study of its Mechanical Failure Modes from Reactive Dynamics Simulations", J. Phys. Chem. A, 2012, 116 (15), pp 3918-3925.
• Theofanis, P.L, Jaramillo-Botero, A., Goddard, W.A. III, Mattsson, T., Thompson, A. "Electron dynamics of shocked polyethylene crystal", Phys. Rev. B 85, 094109 (2012).
• Jaramillo-Botero, A., Nielsen, R., Pascal, T., Abrol, R., Mueller, J., and Goddard, WA III, "First-principles-based multiscale, multiparadigm molecular methods for describing complex chemical processes", Topics in Current Chemistry, Volume 307, pages 1-42, (2012). Special issue on Multiscale Molecular Methods in Applied Chemistry, Ed. Kirchner, B, Vrabec, J, 307:1-42 (2012).
• Qi, A., Zybin, S., Goddard, W.A., III, Jaramillo-Botero, A. "Elucidation of the dynamics of hot spot initiation and chemical reactions at interfaces of highly shocked materials", Phys. Rev. B, 84 (22), 2011.
• Theofanis, P.L, Jaramillo-Botero, A., Goddard, W.A. III, "Non-adiabatic study of dynamic electronic effects during brittle fracture in silicon", Phys. Rev. Lett. 108, 045501, 2012.

2011

• Jaramillo-Botero, A. "Modeling and simulation of large-scale reactive systems in extreme conditions", invited talk HPC User Forum, San Diego, September 7, 2011.
• Jaramillo-Botero, A., Cheng, MJ, Beegle, L., Hodyss, R., Goddard, WA III. "Predicting the molecular composition of Enceladus' south pole plume after hypervelocity impact with the Cassini orbiter", 42nd Lunar and Planetary Science Conference, March 7-11, 2011, Texas.  
• Jaramillo-Botero A, Su J, Qi A, Goddard WA III, "Large-scale, long-term nonadiabatic electron molecular dynamics for describing material properties and phenomena in extreme environments". J Comput Chem, 32 (3). pp 497-512, February, 2011

2010

• "First-principles-based characterization and optimization of mechanical strength in polymer-based hydrogel networks for tissue engineering", invited seminar, University of California San Diego, Department of Mechanical and Aerospace Engineering, Nov. 8, 2010.
• "The Caltech-KAIST collaboration on energy environment water sustainability", Caltech Sustainable Energy and Infrastructure Forum, Pasadena, California, Sept.16, 2010.
• "Multiscale Modeling of Materials with Applications to Electrochemical Properties for Batteries and Fuel Cells, and to Material Subjected to Extreme Environments", Invited talk U.S. Army Research Laboratory (ARL), Multi-Scale Multi-Disciplinary Modeling of Electronic Materials Workshop, Fairfax, Virginia, Sept. 2-3, 2010.
• Jaramillo-Botero, A., Blanco, M, Li, Y.  and Goddard III, W.A. "First-Principles-based Approaches to Nano-Mechanical and Biomimetic Characterization of Polymeric Hydrogel Networks for Cartilage Scaffold-supported Therapies", special issue of Journal of Computational and Theoretical Nanoscience, Materiomics: properties of Biological and de Novo Bioinspired Materials, 7, 1238-1256 (2010).

2009

2008

• Jaramillo-Botero, A., Abrol, R., van Duin, A. and Goddard III, W.A. "Multiscale-Multiparadigm Modeling and Simulation of Nanometer Scale Systems and Processes for Nanomedical Applications", invited Book chapter, Nanomedicine: A Systems Engineering Approach, Pan Stanford Publishing (World Scientific), Nov. 2008.

2007

• "First-principles based multiparadigm, multiscale modeling and simulation", Invited Plenary at the II Colombian Computation Congress, April 20-22, Bogota, Colombia.
• "Computational Nanotechnology in Predicting Bio-Material Properties", Invited Plenary at the Converging Technologies Forum 2007: NBICs Health and Society, January 25-26, Barcelona, Spain.

2006

• Jaramillo-Botero, A., Matta, A., Correa, J.F, Perea, W. "ROBOMOSP: Robot Modeling and Simulation Platform" IEEE Robotics and Automation Magazine, December 2006.

2005

• (Text Book) Computational Robotics: theory and algorithms for control and simulation (Spanish). Available for registered undergraduate/graduate students by request.  See sample Chapter on Spatial Transformations.  Other chapters: Mathematical foundations, Kinematics, Dynamics, Trajectory Planning, Control and Simulation.

• Ramos, N., Jaramillo-Botero, A. "Reduced Dynamics Complexity of Robot Manipulators via Tensor Analysis of its Joint Space Mass Operator," Epiciclos, Vol 4, No. 1, December 2005

2004

• Jaramillo-Botero, A. "Molecular Nanomanipulator Dynamic Design Criteria", Dekker Encyclopedia of Nanoscience and Nanotechnology. 1st Ed. New York : Marcel Dekker Publ., 2004.
• Jaramillo-Botero, A., Matta, A., Correa, JF, Perea, W. Software platform for robot modeling and simulation, Vol. 3, No. 1, December 2004.
• "Computational Nanotechnology in the Design of Nanoscale Molecular Positional Devices", NASA Jet Propulsion Laboratory Seminar, Pasadena, California (US) November 23, 2004.
• "Molecular Nanotechnology: A Computational Approach", Plenary II IEEE International Congress for the Andean Region (Andescon 2004), Bogota (Colombia), September 2004.
• "Design Criteria for a 3 DOF positional nanomanipulator based on a Constrained Molecular Dynamics Model", Nanoscale Science and Engineering 2004 Reunion Conference, Institute of Pure and Applied Mathematics, University of California at Los Angeles, Lake Arrowhead Conference, California (US) January 2004.
• "How to build a Beowulf Cluster for Scientific Computation", Computational Nanotechnology and Molecular Eng. Workshop, Caltech, Pasadena, California (US) January 2004.
• "Massively Parallel Molecular Dynamics (O(log2))", Computational Nanotechnology and Molecular Eng. Workshop, Caltech, Pasadena, California (US) January 2004.
• "Rigid Body Manipulator Design Criteria for Simplified Dynamics", Computational Nanotechnology and Molecular Eng. Workshop, Caltech, Pasadena, California (US) January 2004.

2003

• "Molecular Mechanosynthesis", Plenary VI National Congress of the Sugar Cane Technical Association Congreso, Cali, Colombia, 2003.
• "Nanoscale Manipulator Design Criteria", Computational Nanotechnology Session, Proceedings American Chemical Society (ACS) National Meeting (invited talk), New Orleans, Louisiana, March 23-27, 2003.
• "Nanoscale Molecular Manipulator Design Criteria for Reduced Constrained Dynamics" (Nanotechnology session) The 7th World Multiconference on Systemics, Cybernetics and Informatics (invited talk), Orlando, Florida, 2003.

2002

• Jaramillo-Botero, A. and Crespo, A. "A Unified Formulation For Massively Parallel Rigid Multibody Dynamics Of O(Log2 N) Computational Complexity", Journal of Parallel and Distributed Computing, Academic Press, Vol. 62, No. 6, June 1, 2002.
• Jaramillo-Botero, A., "Nanotechnology: scientific and engineering principles", (Spanish), Science and Innovation Magazine, ACAC (Colombian Association for the Advancement of Science), Vol. 10, No. 2, August, 2002.
• Jaramillo-Botero, A., "Design Theory of Reduced Complexity Robotic Manipulators", Epiciclos (Spanish Journal), Vol. 1, No.1, 2002.
• "Massively Parallel Constrained Dynamics for MD Simulation", NANO Seminar Series, Institute of Pure and Applied Mathematics, UCLA, Los Angeles, California (US), 2002.

2000

1998

• Fijany, A., Jaramillo-Botero, A., Cagin, T., and Goddard, W.A. III, "A Fast Algorithm for Massively Parallel, Long Term Simulations of Complex Molecular Dynamics Systems", pp 505-515 (1998), Parallel Computing: Fundamentals, Applications and New Directions, Eds. E. H. D'Hollander, G. R. Joubert, F. J. Peters and U. Trottenberg.
• Fijany, A., Cagin, T., A., Jaramillo-Botero, and Goddard, W. A. III. Novel Algorithms for massively parallel, long term simulation of molecular dynamics systems, Advances in Engineering Software, 29, 441-450 (1998).
• Cagin, T., Jaramillo-Botero, A., Gao, G., W. A. Goddard, III, Molecular Mechanics and Molecular Dynamics Analysis of Drexler-Merkle Gears and Neon Pump, Nanotechnology 9 (3), 143-152 (1998).
• Massively Parallel Algorithms for Long-term Simulations of Large-scale Molecular Systems, Universidad Politecnica de Valencia, Doctoral Thesis, (spanish) ISBN: 958-8162-60-2, 1998.

1997

• Fijany, A., T. Cagin, A. Jaramillo-Botero, S. Gulati, and W.A. Goddard,"Novel Algorithms for Massively Parallel, Long-Term, Simulation of Molecular Dynamics Systems," 4th NASA National Symposium on Large-Scale Analysis and Design on High-Performance Computers and Workstation, Williamsburg, VA, October 1997.
• Fijany, A., T. Cagin, A. Jaramillo-Botero, and W.A. Goddard, "Massively Parallel Constraint Force Algorithm for MD Simulation of Polymers and Dendrimers," Presented at the 1997 American Physical Society (APS) Int. Conf. on Computational Physics (PC97), Santa Cruz, CA, Aug. 1997.
• Fijany, A. A. Jaramillo -Botero, T. Cagin, and W.A. Goddard, "A Fast Algorithm for Massively Parallel, Long-Term, Simulation of Complex Molecular Dynamics Systems," Proceedings Parallel Computing 97 (PARCO 97), Bonn, Germany, September 1997.
• Fijany, A., T. Cagin, A. Jaramillo -Botero, T. Coley, and W.A. Goddard, "A Massively Parallel Algorithm for Solution of Constrained Equations of Motion with Application to Large-Scale Long-Time Molecular Dynamics Simulations," Presented at the 2nd Parallel Computational Chemistry Symposium, American Chemistry Society (ACS), San Francisco, CA, April 1997.
• Fijany, A., T. Cagin, A. Jaramillo -Botero, and W.A. Goddard,"A Massively Parallel Algorithm for Solution of Constrained Equations of Motion in Molecular Dynamics," Presented at the American Physical Society Meeting, Kansas City, MO, March 1997.

1996

• Rigid Multibody Molecular Dynamics: Strictly Parallel Computations, ISBN: 958-33-4988-7, TR-RAG-1996 - Robotics and Automation Group (RAG), 1996.

1995

• Jaramillo-Botero, A., and Miyake, Y. "A Parallel Architecture for Achieving High Speed Fuzzy Control under a PC ISA Platform", Fuzzy IEEE Micro, December 1995.
• Jaramillo-Botero, A., and Miyake, Y. "Neuro-Fuzzy Perception and Control for Robots". Proceedings 11th ISPE/IEE/IFAC/ International Conference on CAD/CAM, Robotics, & Factories of the Future, November 1995.

- 1995

• Jaramillo-Botero, A. "Computational Intelligence: Introduction and Applications in Vision and Senso-Motor Control", (Spanish) Colombia, Science and Technology Magazine, Vol. 12 No. 4, October-December, 1994.
• Jaramillo-Botero, A., and Miyake, Y. "A High Speed Parallel Architecture for Fuzzy Inference and Fuzzy Control of Multiple Processes". Proceedings IEEE World Congress on Computational Intelligence. USA. June 1994.
• Jaramillo-Botero, A. "Artificial Neural Networks and Fuzzy Logic in Industrial Applications". Proceedings 1st National Symposium on Automation, Cali, Colombia, November 1993. (plenary).
• Jaramillo-Botero, A., and Kazuo, K. "A Fuzzy Artificial Neural Network for Pattern Classification". Presented at the 1st IS&T Color Imaging Conference. Phoenix, Arizona, USA. November 1993.
• RISCy Processing Element for Loosely Coupled Multiprocessor Systems. State University of New York, Master's Thesis, Binghamton, 1989.

ajaramil@caltech.edu_

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