Lectures and Talks
2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | 2000 | pre-2000
Below are lectures, talks, and other presentations given by TCB faculty and other group members in meetings and conferences locally and around the world.
Klaus Schulten Laxmikant Kale Zaida Luthey-Schulten Emad Tajkhorshid Alek Aksimentiev Other TCB Members
- February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology,
‘Hands-on’ Workshop on Computational Biophysics
Lecture: "Statistical Mechanics of Proteins" - February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology,
‘Hands-on’ Workshop on Computational Biophysics
Lecture: "Introduction to Protein Structure and Dynamics" - April 2012, Knoxville, TN, JICS German Research School, JointWorkshop on Large
Scale computer Simulation
Lecture: "Computational Biology in the Petascale Era" - April 2012, Atlanta, GA, Emerson Center (Emory) Symposium at Emory University
Lecture: "The Computational Microscope Images Biomolecular Machines and Nanodevices" - April 2012, Toronto, Ontario, Canada, University of Toronto, Chemical Biophysics
Symposium
Lecture: "A Quantum Biological Device - The Light Harvesting Apparatus of Purple Photosynthetic Bacteria" - April 2012, Durham, NC, Duke University, Pratt School of Engineering’s Annual
BioE Seminar Series
Lecture: "Computer Modeling in Biotechnology, a Partner in Development" - April 2012, Toronto, Ontario, Canada - University of Toronto, Chemical Biophysics Symposium
Lecture: "A Quantum Biological Device - The Light Harvesting Apparatus of Purple Photosynthetic Bacteria" - April 2012, Atlanta, GA, Emerson Center (Emory) Symposium at Emory University
Lecture: "The Computational Microscope Images Biomolecular Machines and Nanodevices" - April 2012, Knoxville, TN - JICS German REsearch School, Joint Workshop on Large Scale computer Simulation
Lecture: "Computational Biology in the Petascale Era" - June 2012, Berkley, California, , QuEBS meeting at the University of California Berkley
Lecture: "Quantum Biology of Animal Navigation - History of an Idea" - July 2012, Lausanne, Switzerland, CECAM - Towards the Silico Biological Cells - Bridging Experiments and Simulations
Lecture: "Towards Cell-Scale Molecular Dynamics Simulations" - July 2012, Rockville, MD, CHARMM/AMBER Developer Meeting
Lecture: "Computational Biology in the Petascale Era" - October 2012, Urbana, IL 61801, 'Hands-on' Workshop on Computational Biophysics at Urbana
Lecture: "Introduction to Molecular Dynamics with NAMD" - October 2012, Urbana, IL 61801, 'Hands-on' Workshop on Computational Biophysics at Urbana
Lecture: "Structure and Sequence Analysis with VMD" - October 2012, Urbana, IL 61801, 'Hands-on' Workshop on Computational Biophysics at Urbana
Lecture: "Introduction to GPU Accelerated NAMD Simulation" - October 2012, Urbana, IL 61801, 'Hands-on' Workshop on Computational Biophysics at Urbana
Lecture: "Applications of VMD / NAMD in Modern Research" - October 2012, Urbana, IL 61801, 'Hands-on' Workshop on Computational Biophysics at Urbana
Lecture: "Analysis of Equilibrium and Non-equilibrium Properties of Proteins with NAMD" - November 2012, Université de Lorraine, Nancy France, Présentation du LIA CNRS/Université de l'Illinois, Chris Chipot
Lecture: "Towards Cell Scale Molecular Dynamics Simulations demonstrated for the Light-Harvesting Apparatus of Purple Photosynthetic Bacteria" - November 2012, Salt Lake City, Utah, Supercomputing 2012 Conference
Lecture: "Sidney Fernbach Award Lecture"
- January 2012, Pune, India, C-DAC 2012
Lecture: "Performance Issues and Techniques in Scalable Parallel Programming" - April 2012, Albuquerque, NM, invited talk at Sandia National Laboratory
Lecture: "Composable and Modular Exascale Programming Models with Intelligent Runtime Systems" - June 2012, Boston, MA, Fault Tolerance for HPC at Extreme Scale
Lecture: “A Message-Logging Protocol for Multicore Systems” - June 2012, Boston, MA. Fault Tolerance for HPC at Extreme Scale
Lecture: “A Scalable Double In-memory Checkpoint and Restart Scheme towards Exascale” - June 2012, Delft, The Netherlands, 21st International ACM Symposium on High-Performance Parallel and Distributed Computing
Lecture: “Work Stealing and Persistence-based Load Balancers for Iterative Overdecomposed Applications” - September 2012, Vienna, Austria, European MPI Users Group Meeting
Lecture: “Scalable Algorithms for Constructing Balanced Spanning Trees on System-ranked Process Groups” - October 2012, New York City, NY, Symposium on Computer Architecture and High Performance Computing
Lecture: “Accessing Energy Efficiency of Fault Tolerance Protocols for HPC Systems” - October 2012, New York City, NY, Symposium on Computer Architecture and High Performance Computing
Lecture: “Scalable Algorithms for Distributed-Memory Adaptive Mesh Refinement” - November 2012, Salt Lake City, UT, Super Computing, 5th Workshop on Many-Task Computing on Grids and Supercomputers (MTAGS) 2012 Lecture (keynote): “Adaptive Runtime Systems meet needs of many task computing”
- December 2012, Urbana, IL, I2PC Event, CnC2012
Lecture (keynote): “Expressing concurrency within and across objects in Charm++” - December 2012, Puna, India, Centre for Development of Advanced Computing: C-DAC
Lecture: “Performance Issues and Techniques in Scalable Parallel Programming Centre for Development of Advanced Computing” - December 2012, Singapore, International Conference on Parallel and Distributed Systems
Lecture: “Performance Optimization of a Parallel, Two Stage Stochastic Linear Program: The Military Aircraft Allocation Problem”
- February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology
Lecture: ‘Hands-on’ Workshop on Computational Biophysics, "Introduction to Bioinformatics" - April 2012, Montpellier, France, International Physics of Living Systems (IPOLS) Symposium
Lecture: “Research Highlights: NSF Center for Physics of Living Cells” - June 2012, Newport, RI, Gordon Research Conference, Biopolymers
Lecture: “Molecular Crowding in Biological Cells: An Overview” - October 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology, ‘Hands-on’ Workshop on Computational Biophysics at Urbana
Lecture: “Introduction to Bioinformatics”
- February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology,
‘Hands-on’ Workshop on Computational Biophysics
Lecture: "Simulating Membrane Channels" - February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology,
‘Hands-on’ Workshop on Computational Biophysics
Lecture: "Parameters for Classical Force Fields" - February 2012, Indiana, IN, Indiana University Purdue University Indianapolis,
Department of Physics, Physics Colloquium
Lecture: "Dynamical View of Energy Coupling Mechanisms in Active Membrane Transporters" - February 2012, Ventura, CA, Invited lecture at Gordon Research Conference on
Protons and Membrane Reactions
Lecture: "Characterizing Functional Motions and Chemomechanical Coupling Mechanisms in Membrane Transporters" - February 2012, San Diego, CA, Invited Symposium at 56th Annual Meeting of the
Biophysical Society
Lecture: "Accelerating Membrane Insertion of Peripheral Proteins with a Novel Membrane Mimetic Model" - March 2012, New York, NY, Mount Sinai School of Medicine, Department of Structural
and Chemical Biology
Lecture: "Visualizing the Dynamics of the Alternating Access Mechanism in Membrane Transporters at Atomic Resolution" - April 2012, Chicago, IL, Rosalind Franklin University of Medicine and Science, Department
of Physiology and Biophysics
Lecture: "Capturing Functional Motions of Membrane Transporters at an Atomic Resolution" - May 2012, Chicago, IL, University of Chicago, Gordon Center for Integrative Science, Frontiers in Membrane Protein Structural Dynamics Computational Mini-Symposium
Lecture: “Developing an Atomistic, Highly Mobile Membrane Model (HMMM) and Its Wide Applications” - May 2012, Chicago, IL, University of Chicago Gleacher Center, Frontiers in Membrane Protein Structural Dynamics
Lecture: “Characterizing Optimal Pathways for Large-Scale Conformational Changes of Membrane Transporters” - September 2012, Cleveland, OH, Case Western Reserve University, Department of Physiology and Biophysics, Gas Channel Workshop
Lecture: “Visualizing gas permeation pathways through proteins at sub-Angstrom resolution” - September 2012, Urbana, IL, University of Illinois at Urbana-Champaign, Department of Biochemistry
Lecture: “Visualizing the Highly Dynamical Role of the Cellular Membrane in Recognition, Signaling, and Transport Phenomena at sub-A Resolution" - September 2012, Ames, IA, Iowa State University, Laurence H. Baker Center for Bioinformatics and Biological Statistics
Lecture: “Membrane Transporters - Molecular Machines Coupling Cellular Energy to Vectorial Transport Across the Membrane” - October 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology, ‘Hands-on’ Workshop on Computational Biophysics at Urbana
Lecture: “Simulating Membrane Channels” - October 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology, ‘Hands-on’ Workshop on Computational Biophysics at Urbana
Lecture: “Parameters for Classical Force Fields”
- February 2012, Lanzarote, Spain, ZiNG Nanopore Conference
Lecture: "Microscopic Origin of Ionic Current Blockades in Nanopores" - March 2012, Boston, MA, American Physical Society Meeting
Lecture: "Sequence-dependent Ion Current Modulations in Biological and Synthetic Nanopore" - March 2012, Boston, MA, Northeastern University, Department of Physics, Colloquium
Lecture: "Molecular Biology meets Nanotechnology: Insights from Computer Simulations" - April 2012, San Diego, CA, NHGRI DNA Sequencing Technology Development
Grantee Meeting
Lecture: "Molecular Origin of Ionic Current Blockades in Nanopores" - May 2012, Strasbourg, France, Spring E-MRS Meeting
Lecture: “Molecular dynamics of DNA: effective charge, self-assembly and nanopore sequencing” - May 2012, Calgary, Canada, Canadian Chemical Society Meeting and Conference
Lecture: “Modeling transport through nanopores and nanochannels using atomic resolution Brownian dynamics” - June 2012, Paris, France, CECAM workshop on Free energy calculations: From theory to applications
Lecture: “Modeling small solute transport using atomically precise 3D PMF maps” - June 2012, Pisa, Italy, CECAM workshop on DNA sequencing and detection using nanoprobes
Lecture: “Calling bases from ionic current measurements: conformation, convolution and excluded volume” - July 2012, Oxford, United Kingdom, Oxford Nanopore Technologies
Lecture: “Toward sequencing DNA using a nanopore” - July 2012, Cambridge University, Cambridge, United Kingdom, Cavendish Laboratory of Physics
Lecture: “Molecular mechanics of DNA: effective charge, self-assembly and nanopore sequencing” - July 2012, Groningen, The Netherlands, University of Groningen, Zernike Institute for Advanced Materials
Lecture: “Molecular mechanics of nucleic acids: DNA condensation, replication and nanopore sequencing” - September 2012, Mainz, Germany, CECAM workshop on Polymer Translocation through Nanopores
Lecture: “The microscopic origin of ionic current blockades in nanopores” - October 2012, Singapore, 6th International Conference on Multiscale Materials Modeling
Lectures: “Multi-scale Models of DNA Systems for Applications in Biology and Nanotechnology” - November 2012, Indiana University Purdue-University Indianapolis, Department of Physics, Colloquium
Lecture: “Physical approaches to sequencing DNA”
- February 2012, San Diego, CA, Biophysical Society 56th Annual Meeting
Poster: "Computational Investigation of DNA Detection Using Graphene Nanopores" (Chaitanya Sathe, Xueqing Zou, Jean-Pierre Leburton, Klaus Schulten) - February 2012, San Diego, CA, Biophysical Society 56th Annual Meeting
Poster: "Folding Thermodynamics and Kinetics of Lambda-Repressor from All-Atom Molecular Dynamics Simulations" (Yanxin Liu, Johan Strumpfer, Peter L. Freddolino, Martin Gruebele, Klaus Schulten) - February 2012, San Diego, CA, Biophysical Society 56th Annual Meeting
Poster: "Conformational Dynamics of Membrane-Bound alpha-Synuclein in a Highly Mobile Membrane Mimetic" (Joshua V. Vermaas, Emad Tajkhorshid) - February 2012, San Diego, CA, Biophysical Society 56th Annual Meeting
Poster: "Modeling Structural Transition between the c-state and m-state of Mitochondrial ATPADP Carrier" (Giray Enkavi, Emad Tajkhorshid) - February 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology,
‘Hands-on’ Workshop on Computational Biophysics
Poster: "A Brief Overview of the Force Field Toolkit" (Christopher Mayne) - May 2012, Urbana, IL, University of Illinois at Urbana-Champaign, Department of Computer Science, 10th Annual Workshop on Charm++ and its Applications
Lecture: “What do computational scientists need from computer scientists?” (Panel: Jim Phillips) - May 2012, San Jose, CA, GPU Technology Conference
Lecture: “Petascale Molecular Dynamics Simulations on GPU-Accelerated Supercomputers” (James Phillips) - May 2012, San Jose, CA, GPU Technology Conference
Lecture: “High Performance Molecular Visualization and Analysis on GPUs” (John Stone) - May 2012, San Jose, CA, Accelerated HPC Symposium
Lecture: “In-Situ Visualization and Analysis of Petascale Molecular Dynamics Simulations with VMD” (John Stone) - May 2012, San Jose, CA, Accelerating HPC Symposium
Lecture: “Accelerating NAMD” (James Phillips) - May 2012, Edinburgh, Scotland, University of Edinburgh, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Analysis and Visualization Algorithms in VMD” (David Hardy) - May 2012, Edinburgh, Scotland, University of Edinburgh, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “NAMD Algorithms and HPC Functionality” (David Hardy) - May 2012, Edinburgh, Scotland, University of Edinburgh, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Short-Range (Non-Bonded) Interactions in NAMD” (David Hardy) - May 2012, Edinburgh, Scotland, University of Edinburgh, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Generalized Born Implicit Solvent Algorithm in NAMD” (David Hardy) - May 2012, Edinburgh, Scotland, University of Edinburgh, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Multilevel Summation Method in NAMD and VMD” (David Hardy) - May 2012, Edinburgh, Scotland, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Demonstration: Using NAMD, NAIS: State-of-the-Art Algorithms for Molecular Dynamics” (David Hardy) - May 2012, Edinburgh, Scotland, NAIS: State-of-the-Art Algorithms for Molecular Dynamics
Lecture: “Future Direction with NAMD” (David Hardy) - June 2012, Urbana, IL, University of Illinois, Beckman Institute, Imaging at Illinois, The Next Generation: Computational Imaging and Visualization
Lecture: “Visualization of petascale molecular dynamics simulations” (John Stone) - June 2012, Notre Dame, IN, University of Notre Dame, Scalable Software for Scientific Computing Workshop
Lecture: “GPU-Accelerated Analysis of Petascale Molecular Dynamics Simulations with VMD” (John Stone) - July 2012, Des Plaines, IL, XSEDE Extreme Scaling Workshop
Lecture: “Petascale Molecular Dynamics with NAMD” (James Phillips) - August 2012, Urbana, IL, University of Illinois, National Center for Supercomputing Applications, VSCSE Many-core Processors
Lecture: “Keynote: Broadening the Use of Scalable Kernels in NAMD/VMD” (John Stone) - October 2012, Urbana, IL, Beckman Institute for Advanced Science and Technology, Graduate Student Seminar Series
Lecture: “Membrane Sculpting by F-BAR Domains Studied by Molecular Dynamics Simulations” (Hang Yu) - November 2012, Salt Lake City, UT, ACM/IEEE, SC12 BOF
Lecture: “Charm++: Adaptive Runtime-Assisted Parallel Programming” (James Phillips) - November 2012, Salt Lake City, UT, ACM/IEEE, SC12 BOF
Lecture: “Application Grand Challenges in the Heterogeneous Accelerator Era” (James Phillips) - December 2012, Chicago, IL, University of Chicago Flash Center SIMAC Workshop
Lecture: “NAMD on Future Architectures” (James Phillips)
