text:
Also see Prof. Pande's Wikipedia or Google Scholar pages.
|BA, Physics, Princeton University, Princeton, NJ
(Thesis advisor: P. W. Anderson, Nobel Laureate)
|PhD, Physics, Massachusetts Institute of Technology, Cambridge, MA
(Thesis advisors: T. Tanaka, and A. Grosberg)
|Undergraduate research, Princeton University, (R. Austin)
|Undergraduate research, Princeton University, (R. Goldstein)
|Undergraduate research, Princeton University, (J. Taylor, Nobel Laureate)
|Undergraduate research, Princeton University, (P. W. Anderson, Nobel Laureate)
|Postdoctoral fellow, Center for Materials Science and Engineering, Massachusetts Institute of Technology, Cambridge, MA (T. Tanaka, A. Grosberg, M. Kardar)
|Miller Fellow, U. C. Berkeley, Berkeley, CA (D. Rokhsar)
|LBNL fellow in physical biosciences (D. Rokhsar)
|Assistant Professor of Chemistry, Stanford University, Stanford, CA
|Assistant Professor of SSRL (by courtesy), Stanford University, Stanford, CA
|Assistant Professor of Structural Biology (by courtesy), Stanford University, Stanford, CA
|Associate Professor of Chemistry, Stanford University, Stanford, CA
|Associate Professor of Structural Biology (by courtesy), Stanford University, Stanford, CA
|Associate Professor of Computer Science (by courtesy), Stanford University, Stanford, CA
|Director, Program in Biophysics, Stanford University, Stanford, CA
|Professor of Chemistry, and (by courtesy) of Structural Biology and of Computer Science, Stanford University
|Affiliated faculty, Institute for Computational and Mathematical Engineering (ICME), Stanford University
|Fellow, Stanford Institute for Chemical Biology (SICB), Stanford University
|"Best Mentoring Award," Stanford University Postdoctoral Association
|Closs Lecture, University of Chicago
|Henry Eyring Lecture, University of Utah
|Keynote Speaker, Texas Protein Folding and Function Meeting
|Biophysical Society, Best of 2012 Papers Collection Citation
|Michael and Kate Bárány Award for Young Investigators, Biophysical Society
|Keynote, Pacific Symposium in Biocomputing
|Executive Committee, US Protein Folding Consortium
|ACS Thomas Kuhn Paradigm Shift Award
|Fellow, American Physical Society
|Netxplorateur of the Year 2008
|Irving Sigal Young Investigator Award, Protein Society
|Keynote Speaker, HPDC-15 Meeting, Paris
|Keynote Speaker, HiCOMB 2005, Denver
|Global Indus Technovators Award
|Dreyfus Teacher-Scholar Award
|Frederick E. Terman Fellow, Stanford University
|Named to TR100 (MIT Tech Review top 100 young innovators of 2002)
|Levinthal Lecture (Keynote speaker, OpenEye CUP II)
|Keynote speaker, workshop on Evolvable Hardware JPL
|Miller Fellow, Miller Institute for Basic Research, UC Berkeley
|National Science Foundation Graduate Fellow (Physics Dept, MIT)
|Kawasaki Prize in experimental physics, Princeton University
|Office of Naval Research Science Fellowship
|Westinghouse Science Talent Search Scholarship (4th place in 1988)
|TRW Science Scholarship
|Johns Hopkins Biophysics Department
|UCSF Biophysics Program
|Associate Editor, PLoS Computational Biology
|Advisory Board, Journal of Chemical Theory and Computation
|Editorial board, Computational Science & Discovery
|Editorial board, Journal of Chemical Physics
|Organizer, Molecular Kinetics Conference 1, Berlin
|Organizer, Vertex Free Energy Meeting
|Organizer, Protein Folding Consortium
|Organizer, Molecular Kinetics Conference 2, Berlin
|Organizer, Protein Folding Consortium
|Site Host and Organizer, SAMPL3
|Organizer, Vertex Free Energy Meeting
|Site Host and Organizer, Folding@home Consortium Meeting
|Organizer, Protein Folding Consortium
|Organizer, Molecular Kinetics Conference 3, Berlin
|Site Host and Organizer, SAMPL4
|Organizer, Vertex Free Energy Meeting
|Vice Chair, Proteins Gordon Research Conference
UNIVERSITY COMMITTEE DUTIES (Active committees in bold-face)
|Computational infrastructure (Chemistry Department, chair)
|Admissions (Biophysics Program)
|Executive committee (Biophysics Program), Chair from 2008-
|Supercomputer (BioX, co-chair)
|Curriculum (Chemistry Department)
|Graduate student awards (Chemistry Department)
|2002-2004, 2007-
|Admissions (Chemistry Department)
|2002-2003, 2005-
|Admissions (Structural Biology Department)
|Interdisciplinary Initiatives Program (BioX)
|Computational infrastructure Committee (BioX)
|Executive Committee (Chemistry Department)
|Curriculum Committee (Chemistry Department, chair 2006)
|University-wide committee on postdoctoral fellows
|University-wide committee on computational infrastructure (SRCF), co-chair
|Committee on Academic Computing and Information Services (C-ACIS), Chair of C-ACIS from 2012-
|SAB, Protein Mechanics, Mountain View, CA
|SAB, Omnipod Distributed Computing Project, New York, NY
|Consultant, Hitachi Computer Corporation
|2002- 2009
|SAB, Acumen Pharmaceuticals
|Consultant, Fujitsu Computer Corporation
|SAB, Pharmix, Inc, San Francisco, CA
|SAB, Clearspeed Inc, Los Gatos, CA
|SAB, Numerate, Mountain View, CA
|SAB, Counsyl, San Francisco, CA
|SAB, Discovery Engine, San Francisco, CA
|Member, Board of Directors, ClusterCorp, San Francisco, CA
|SAB, OpenEye Scientific Software
|Non-executive Chairman, Board of Directors, Reanimed Pharmaceuticals, South San Francisco, CA
|Chairman, SAB, 1729, Palo Alto, CA
|SAB, Code For India (CodeForIndia.org)
|Reviewer for NSF proposals
|NIH BBCA study section (ad hoc)
|NIH Research Resource study section (ad hoc)
|Special NIH study section on small molecule drug design for protein aggregation related disease
|NIH ZRG1 computational study section (ad hoc)
|NIH AIDS discovery and development of therapeutics study section (ad hoc)
|NIH MSFD study section (ad hoc)
|NIH MSFB study section (ad hoc)
TEACHING (Active in bold-face)
|1999- 2008
|Chemistry 171: Chemical Thermodynamics (undergraduate)
|1999-2003, 2006-2007
|Chemistry 275: Statistical Mechanics (graduate)
|Dreyfus Teacher-Scholar Award
|Biochemistry 241: Biological Macromolecules (graduate, co-taught)
|Chemistry 135: Physical Chemistry Principles (undergraduate)
|Thinking Matters 001: The Science of Mythbusters (co-taught)
|CS184/CME184: Startup Software Engineering (http://startup.stanford.edu) (co-taught)
|Coursera MOOC: Startup Software Engineering (http://startup.stanford.edu) (co-taught)
Summary as of November 1, 2013: H-index: 61, Total Citations: 13,478
Google scholar url: http://scholar.google.com/citations?user=cWe_xpUAAAAJ
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Non-Randomness in Protein Sequences: Evidence for a Physically Driven Stage of Evolution? Proceeding of the National Academy of Science, U.S.A., 91, 12972 (1994)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Thermodynamic Procedure to Synthesize Heteropolymers that can Renature to Recognize a Given Target Molecule. Proceeding of the National Academy of Science, U.S.A., 91, 12976 (1994)
- V. S. Pande, C. Joerg, A. Yu. Grosberg, and T. Tanaka. Enumeration of the Hamiltonian Walks on a Cubic Sublattice. Journal of Physics, A27, 6231 (1994)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Phase Diagram of Imprinted Copolymers, Journal of Physics (Paris), 4, 1771 (1994)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Folding Thermodynamics and Kinetics of Imprinted Renaturable Heteropolymers, Journal of Chemical Physics, 101, 8246 (1994)
- V. S. Pande and C. Joerg, Enumeration of the Hamiltonian Walks on a Sublattice, Student Workshop on Scalable Computing, MIT/LCS/TR-622, 53 (1994)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Freezing Transition of Random Heteropolymers Consisting of an Arbitrary Set of Monomers. Physical Review, E51, 3381 (1995)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka, Phase Diagram of Heteropolymers with an Imprinted Conformation. Macromolecules, 28, 2218 (1995)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Freezing Transition of an Imprinted Copolymer in a Random External Field. Journal of Physics A28, 3657 (1995)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. How Accurate Must Potentials Be for Successful Modeling of Protein Folding? Journal of Chemical Physics 103, 9482 (1995)
- T. Tanaka, C-n Wang, A. English, S. Masamune, H. Gold, R. Levy, K. King, V. S. Pande, and A. Yu. Grosberg. Polymer Gels that can Recognize and Recover Molecules. Faraday Discussions, 101, 201-206 (1995)
- V. S. Pande, A. Yu. Grosberg, C. Joerg, and T. Tanaka. How Well is Heteropolymer Freezing Described by the Random Energy Model? Physical Review Letters, 76, 3987-3990 (1995)
- V. S. Pande, A. Yu. Grosberg, M. Kardar, C. Joerg, and T. Tanaka. Polyampholyte Freezing Transition. Physical Review Letters, 77, 3565-3568 (1996)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. On the Theory of Folding Kinetics for Short Proteins. Folding and Design 2, 109 (1997)
- V. S. Pande and J. Onuchic. Electron Transport in Disordered Polymeric Systems. Physical Review Letters 78, 146 (1997)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. How to make Heteropolymers which can Renature to Recognize a Given Target Molecule, 107 316 Physica D (1997)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Statistical Mechanics of Simple Models of Protein Folding. Biophysical Journal 73, 3192-3210 (1997)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Thermodynamics of the coil to frozen globule transition in heteropolymers. Journal of Chemical Physics 107, 5118-5124 (1997)
- M. Tanaka, A. Yu. Grosberg, V. S. Pande, and T. Tanaka. Molecular Dynamics Study of the Structural Organization of a Strongly-Coupled Chain of Charged Particles. Physical Review E 56 5798-5808 (1997)
- A. Chakraborty, E. I. Shakhnovich, and V. S. Pande. Broken Ergodicity in Compact Random Heteropolymers with Correlated Sequence Fluctuations. Journal of Chemical Physics . 108, 1683-1687 (1997)
- R. Du, V. S. Pande, A. Yu. Grosberg, T. Tanaka, and E. I. Shakhnovich. On the Transition Coordinate for Protein Folding. Journal of Chemical Physics 108, 334-350 (1998)
- V. S. Pande and D. S. Rokhsar. Is the Molten Globule a third Phase of Proteins? Proceedings of the National Academy of Science, USA 95, 1490-1494 (1998)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka, D. S. Rokhsar. Protein Folding Pathways: Is a "new view" needed? Current Opinion in Structural Biology 8, 68-79 (1998)
- V. S. Pande and D. S. Rokhsar. Folding Pathway of a Lattice Model for Protein Folding. Proceedings of the National Academy of Science, USA 96, 1273-1278 (1999)
- R. Du, V. S. Pande, A. Yu. Grosberg, T. Tanaka, and E. I. Shakhnovich. On the Role of Conformational Geometry in Protein Folding. 111, 10375-10380 Journal of Chemical Physics (1999)
- A. Golumbfskie, V. S. Pande, and A. Chakraborty. Simulation of biomimetic recognition between polymers and surfaces. Proceedings of the National Academy of Science, USA, 96, 11707-11712 (1999)
- V. S. Pande and D. S. Rokhsar. Molecular dynamics simulation of unfolding and refolding of a b-hairpin. Proceedings of the National Academy of Science, USA 96 9062-9067 (1999)
- Z. Bryant, V. S. Pande, and D. S. Rokhsar. Mechanical unfolding of a beta hairpin using molecular dynamics. Biophysical Journal, 78, 584-589 (2000)
- V. S. Pande, A. Yu. Grosberg, and T. Tanaka. Heteropolymer Freezing and Design: Towards Physical Models of Protein Folding. Reviews of Modern Physics 72, 259-286 (2000)
- R. Anderson, V. S. Pande, and C. Radke. Dynamic lattice Monte Carlo simulation of a model protein at an oil-water interface. Journal of Chemical Physics, 112, 9167-9185 (2000)
- M. R. Shirts and V. S. Pande. Screen Savers of the World, Unite! Science, 290, 1903-1904 (2000)
- S. Elmer and V. S. Pande. A new twist on the helix-coil transition: a non-biological polymer with protein-like intermediates. Journal of Physical Chemistry B, 105, 482-485 (2001)
- M. R. Shirts and V. S. Pande. Mathematical Foundations of Ensemble Dynamics. Physical Review Letters, 86, 4983-4987 (2001)
- B. Zagrovic, E. Sorin, and V. S. Pande. Atomistic folding simulations of a beta hairpin. Journal of Molecular Biology 313, 151-169 (2001)
- E. Sorin, M. Engelhardt, D. Herschlag, and V. S. Pande. Unfolding simulations of a GNRA tetraloop. Journal of Molecular Biology, 317, 493-506 (2002)
- R. Russell, I. S. Millet, M. W. Tate, L. W. Kwok, B. Nakatani, S. M. Gruner, S. G. J. Mochrie, V. S. Pande, S. Doniach, D. Herschlag, and L. Pollack. Rapid Compaction During RNA Folding. Proceedings of the National Academy of Science, USA, 99, 4266-4271 (2002)
- B. Zagrovic, C. Snow, S. Khaliq, M. Shirts, and V. S. Pande. Native-like mean structure in the unfolded ensemble of small proteins. Journal of Molecular Biology 323, 153-164 (2002)
- C. Snow, H. Nguyen, V. S. Pande, and M. Gruebele. Folding of a bba protein: simulation and theory. Nature, 420, 102-106 (2002)
- B. Zagrovic, C. D. Snow, M. R. Shirts and V. S. Pande. Simulation of Folding of a small alpha-helical protein in atomistic detail using worldwide-distributed computing. Journal of Molecular Biology, 323, 927-937 (2002)
- S. M. Larson, J. England, J. DesJarlais, and V. S. Pande. Thoroughly sampling sequence space: large-scale protein design of structural ensembles. Protein Science 11 2804-2813 (2002)
- C. Snow, B. Zagrovic, and V. S. Pande. The Trp Cage: Folding Kinetics and Unfolded State Topology via Molecular Dynamics Simulations. Journal American Chemical Society, 124, 14548-14549 (2002)
- V. S. Pande, I. Baker, J. Chapman, S. P. Elmer, S. Khaliq, S. M. Larson, Y. M. Rhee, M. R. Shirts, C. Snow, E. Sorin, B. Zagrovic. Atomistic protein folding simulations on the submillisecond time scale using worldwide distributed computing. Kollman Memorial Issue, Biopolymers, 68(1), 91-109 (2003)
- Y. M. Rhee and V. S. Pande. Multiplexed Replica Exchange Molecular Dynamics Method for Protein Folding Simulation. Biophysical Journal, 84, 775–786 (2003)
- A. I. Jewett, V. S. Pande, and K. W. Plaxco. Cooperativity, smooth energy landscapes and the origins of topology-dependent protein folding rates. Journal of Molecular Biology, 326 247-253 (2003)
- S. M. Larson, A. Garg, J. DesJarlais, and V. S. Pande. Increased detection of structural templates using alignments of designed sequences. Proteins: Structure, Function, and Genetics 51 390-396 (2003)
- B. Zagrovic and V. S. Pande. Solvent Viscosity Dependence of the Folding Rate of a Small Protein: a Distributed Computing Study. Journal of Computational Chemistry, 24 1432–1436 (2003)
- E. Sorin, Y. M. Rhee, B. Nakatani, and V. S. Pande. Insights into nucleic acid hairpin conformational dynamics from massively parallel stochastic simulations. Biophysical Journal, 85 790-803 (2003)
- M. R. Shirts, J. W. Pitera, W. C. Swope, and V. S. Pande. Extremely Precise Free Energy Calculations of Amino Acid Side Chain Analogs: Comparison of Common Molecular Mechanics Force Fields for Proteins. Journal of Chemical Physics, 119 5740-5761 (2003)
- S. M. Larson and V. S. Pande. Sequence optimization for native state stability determines the evolution and folding kinetics of a small protein. Journal of Molecular Biology, 332 275-286 (2003)
- S. M. Larson, C. Snow, V. S. Pande. Folding@Home and Genome@Home: Using distributed computing to tackle previously intractable problems in computational biology. Modern Methods in Computational Biology, R. Grant, ed, Horizon Press (2003)
- M. R. Shirts, E. Bair, G. Hooker, and V. S. Pande. Equilibrium free energies from nonequilibrium measurements using maximum likelihood methods. Physical Review Letters, 91 (2003)
- B. Zagrovic and V. S. Pande. How Can Proteins be Unfolded and yet Have Native-like Properties: Structural Correspondence between the Alpha Helix and the Random-Flight Chain. Nature Structural Biology, 10 955-961 (2003)
- V. S. Pande. Meeting half way on the bridge between protein folding theory and experiment. Proceedings of the National Academy of Sciences, USA, 100 3555-3556 (2003)
- P. Lenz, B. Zagrovic, J. Shapiro, and V. S. Pande. Folding probabilities: a novel approach to folding transitions. Journal of Chemical Physics, 120 6769-6778 (2003)
- E. Sorin, B. Nakatani, Y. M. Rhee, G. Jayachandran, V. Vishal, and V. S. Pande. Does Native State Topology Determine the RNA Folding Mechanism? Journal of Molecular Biology 337 789-797 (2003)
- Y. M. Rhee, E. J. Sorin, G. Jayachandran, E. Lindahl, V. S. Pande. Simulations of the role of water in the protein folding mechanism. Proceedings of the National Academy of Science, USA 101 6456-6461 (2004)
- C. D. Snow, L. Qiu, D. Du, F. Gai, S. J. Hagen, and V. S. Pande. Tryptophan Zipper Folding Kinetics via Molecular Dynamics and Temperature Jump Spectroscopy. Proceedings of the National Academy of Sciences, USA, 101 4077-4082 (2004)
- P. Kasson and V. S. Pande. Molecular Dynamics Simulation of Lipid Reorientation at Bilayer Edges. Biophysical Journal, 86 3744-3749 (2004)
- N. Singhal, C. Snow, and V. S. Pande. Path sampling to build better roadmaps: predicting the folding rate and mechanism of a Trp Zipper beta hairpin. Journal of Chemical Physics 121 415-425 (2004)
- B. Zagrovic and V. S. Pande. How Does Averaging Affect Protein Structure Comparison on the Ensemble Level? Biophysical Journal 87 2240-6 (2004)
- J. E. Kohn, I. S. Millett, J. Jacob, B. Zagrovic, T. M. Dillon, N. Cingel, R. S. Dothager, S. Seifert, P. Thiyagarajan, T. R. Sosnick, M. Z. Hasan, V. S. Pande, I. Ruczinski, S. Doniach and K. W. Plaxco. Do the dimensions of chemically unfolded proteins differ significantly from the expectations of a random-coil model? Proceedings of the National Academy of Sciences, USA, 101 12491-6 (2004)
- S. Elmer and V. S. Pande. Foldamer simulations: Novel computational methods and applications to poly-phenylacetylene oligomers. Journal of Chemical Physics 121 12760-12771 (2004)
- V. S. Pande. Protein Aggregation and Disease: A universal TANGO? Nature Biotechnology 22, 1240-1241 (2004)
- L. T. Chong, C. D. Snow, Y. M. Rhee, and V. S. Pande. Dimerization of the p53 oligomerization domain: Identification of a folding nucleus by molecular dynamics simulations. Journal of Molecular Biology 345 869-78 (2004)
- C. D. Snow, E. J. Sorin, Y. M. Rhee, and V. S. Pande. How well can simulation predict protein folding kinetics and thermodynamics? Annual Reviews of Biophysics 34 43-69 (2005)
- S. Elmer and V. S. Pande. Length Dependent Folding Kinetics of poly-Phenylacetylene Oligomers: Structural Characterization of a Kinetic Trap, Journal of Chemical Physics 122 124908 (2005)
- V. S. Pande. Atomistic models of protein folding. Encyclopedia of Materials Research (2005)
- E. Sorin and V. S. Pande. Exploring the helix-coil transition via all-atom equilibrium ensemble simulations. Biophysical Journal 88 2472-93 (2005)
- E. Sorin, Y. M. Rhee, and V. S. Pande. Does water play a structural role in the folding of small nucleic acids? Biophysical Journal 88 2516-24 (2005)
- Y. M. Rhee and V. S. Pande. One-Dimensional Reaction Coordinate and the Corresponding Potential of Mean Force from Commitment Probability Distribution. Journal of Physical Chemistry B 109 6780-6786 (2005)
- E. Sorin and V. S. Pande. Empirical force Field Assessment: the Interplay between van der Waals Scaling and Backbone Torsions. Journal of Computational Chemistry 26 682-690 (2005)
- M. R. Shirts and V. S. Pande. Comparison of efficiency and bias of free energies computed by exponential averaging, the Bennett acceptance ratio, and thermodynamic integration. Journal of Chemical Physics 122 144107 (2005)
- M. R. Shirts and V. S. Pande. Solvation free energies of amino acid side chains for common molecular mechanics water models. Journal of Chemical Physics 122 134508 (2005)
- S. Park, R. Radmer, T. Klein, V. S. Pande. New parameters for collagen simulation. Journal of Computational Chemistry, 26 1612-6 (2005)
- S. Elmer, S. Park, and V. S. Pande. PPA simulations in explicit solvent: 1. studying the role of solvaphobicity on foldamers assembly. Journal of Chemical Physics 123 114902 (2005)
- S. Elmer, S. Park, and V. S. Pande. Foldamer dynamics expressed via Markov State Models: 2. Explicit solvent molecular dynamics simulations in acetonitrile, chloroform, methanol, and water. Journal of Chemical Physics 122 124908 (2005)
- B. Zagrovic, J. Lipfert, E. J. Sorin, I. S. Millett, W. F. van Gunsteren, S. Doniach and V. S. Pande. Unusual compactness of a polyproline type II structure. Proceedings of the National Academy of Science, USA, 102 11698-703 (2005)
- H. Fujitani, Y. Tanida, M. Ito, G. Jayachandran, C. Snow, M. R. Shirts, E. Sorin, and V. S. Pande. Direct calculation of the binding free energies of FKBP ligands using the Fujitsu BioServer massively parallel computer. Journal of Computational Physics, 123 084108 (2005)
- N. Singhal and V. S. Pande. Error Analysis in Markovian State Models for protein folding. Journal of Chemical Physics, 123 204909 (2005)
- B. Zagrovic, G. Jayachandran, I. S. Millett, S. Doniach and V. S. Pande. How large is alpha-helix in solution? Studies of the radii of gyration of helical peptides by SAXS and MD. Journal of Molecular Biology, 353 232-41 (2005)
- Y. M. Rhee and V. S. Pande. On the role of chemical detail in simulating protein folding kinetics. Chemical Physics, 323 66–77 (2006)
- E. Elsen, M. Houston, V. Vishal, E. Darve, P. Hanrahan, and V. S. Pande. N-Body simulation on GPUs. Proceedings of the 2006 ACM/IEEE conference on Supercomputing, 188 (2006)
- P. Petrone and V. S. Pande. Can conformational change be described by only a few normal modes? Biophysical Journal, 90 1583-93 (2006)
- E. J. Sorin, Y. M. Rhee, M. R. Shirts, and V. S. Pande. The solvation interface is a determining factor in protein conformational preferences. Journal of Molecular Biology, 356 248-56 (2006)
- S. Park and V. S. Pande. How to validate Markovian Models. Journal of Chemical Physics 124 54118 (2006)
- L.T. Chong, W. C. Swope, J. W. Pitera, and V. S. Pande. Kinetic Computational Alanine Scanning: Application to p53 Oligomerization. Journal of Molecular Biology, 357 1039-1049 (2006)
- G. Jayachandran, V. Vishal, and V. S. Pande. Folding Simulations of the Villin Headpiece in All-Atom Detail. Journal of Chemical Physics, 124 164902 (2006)
- C. Snow and V. S. Pande. Kinetic Definition of Protein Folding Transition State Ensembles and Reaction Coordinates. Biophysical Journal, 91 14-24 (2006)
- E. Sorin and V. S. Pande. Nanotube confinement denatures proteins in confined spaces. JACS, 128 6316-7 (2006)
- I. Suydam, C. D. Snow, V. S. Pande and S. G. Boxer. Electric Fields at the Active Site of an Enzyme: Direct Comparison of Experiment with Theory. Science, 313 200-4 (2006)
- G. Jayachandran, M. R. Shirts, S. Park, and V. S. Pande. Parallelized Over Parts Computation of Absolute Binding Free Energy with Docking and FEP. Journal of Chemical Physics, 125 084901 (2006)
- P. Kasson, N. Kelley, N. Singhal, M. Vrjlic, A. Brunger, and V. S. Pande. Sub-millisecond kinetics and intermediates of membrane fusion from molecular dynamics. Proceedings of the National Academy of Sciences, USA, 103 11916-21 (2006)
- Christophe Chipot, Vijay S. Pande, Alan E. Mark, and Thomas Simonson. "Significant applications of free energy calculations tochemistry and biology." Ed., C. Chipot (2006)
- Vijay S. Pande, Eric J. Sorin, Christopher D. Snow, & Young Min Rhee. Protein "Folding Simulation." Chapter to be published by the Royal Society, Ed. Victor Munoz (2006).
- B. Zagrovic, and V. S. Pande. Simulated unfolded-state ensemble and the experimental NMR structures of villin headpiece yield similar wide angle solution X-ray scattering profiles. J. Am. Chem. Soc., 128 (36), 11742 -11743 (2006)
- G. Jayachandran, V. Vishal, A. E. García, and V. S. Pande. Local Structure Formation in Simulations of Two Small Proteins. Special "Advances in Molecular Dynamics Simulations" issue of the Journal of Structural Biology, (2006).
- S. Park, D. Ensign, and V. S. Pande. A Bayesian Update Method for Adaptive Weighted Sampling. Physical Review E, 74 066703 (2006)
- P. Kasson and V. S. Pande. Predicting structure and dynamics of loosely-ordered protein complexes: influenza hemagglutinin fusion peptide. Pacific Symposium on Biocomputing 12:40-50 (2007)
- A. Beberg and V. S. Pande, Storage@home: Petascale Distributed Storage. IEEE International Parallel and Distributed Processing Symposium 1-6 (2007)
- J. Chodera, N. Singhal, V. S. Pande, K. Dill, and W. Swope. Automatic discovery of metastable states for the construction of Markov models of macromolecular conformational dynamics. Journal of Chemical Physics, 126 155101 (2007)
- P. Kasson, A. Zomorodian, S. Park, N. Singhal, L. Guibas, and V. S. Pande. Persistent voids: a new structural metric for membrane fusion. Bioinformatics 23 1753-9 (2007)
- D. Lucent, V. Vishal, and V. S. Pande. Protein folding under confinement: A new role for solvent. Proceedings of the National Academy of Sciences, USA 104 10430-10434 (2007)
- N. Singhal-Heinrichs and V. S. Pande. Calculation of the distribution of eigenvalues and eigenvectors in Markovian state models for molecular dynamics. Journal of Chemical Physics, 126 244101 (2007)
- S. Park, T. Klein, and V. S. Pande. Simulations of collagen protein folding. Biophysical Journal, 93(12) 4108-15 (2007)
- S. Park and V. S. Pande. How to Choose Weights for Simulated Tempering. Physical Review E, 76 016703 (2007)
- P. Kasson and V. S. Pande. Ensemble molecular dynamics simulation predicts membrane fusion mechanism controlled by lipid composition. PLoS Computational Biology, 3 e220 (2007)
- D. Ensign, P. Kasson, and V. S. Pande. Heterogeneity Even at the Speed Limit of Folding: Large-Scale Molecular Dynamics Study of a Fast-Folding Variant of the Villin Headpiece. Journal of Molecular Biology, 374 806-16 (2007)
- M. R. Shirts, D. Mobley, J. Chodera, and V. S. Pande. Accurately and efficiently correcting for missing dispersion due to cutoffs in molecular simulations. J. Phys. Chem. B., 111 13052-63 (2007)
- A. Robertson, E. Luttmann, and V. S. Pande. Effects of Long-Range Electrostatic Forces on Simulated Protein Folding Kinetics, J. Comp. Chem., 15 694-700 (2008)
- D. Rother, G. Sapiro, and V. S. Pande. Statistical Characterization of Protein Ensembles. IEEE/ACM Transactions on Computational Biology and Bioinformatics 5 42-55 (2008)
- J. England, S. Park, and V. S. Pande. Theory for an order-driven disruption of the liquid state in water. Journal of Chemical Physics, 28 044503 (2008)
- Y. M. Rhee and V. S. Pande. Solvent Viscosity Dependence of the Protein Folding Dynamics. Journal of Physical Chemistry B, 112 6221-7 (2008)
- C. Sweet, P. Petrone, V. S. Pande, and J. Izaguirre. Normal mode partitioning of Langevin dynamics for biomolecules. Journal of Chemical Physics, 128 145101 (2008)
- A. Nicholls*, D. L. Mobley*, J. P. Guthrie, J. D. Chodera, C. I. Bayly, M. D. Cooper and V. S. Pande. Predicting small-molecule solvation free energies: a blind challenge test for computational chemistry, J. Med. Chem., 51 769-779 (2008)
- X. Huang, G. R. Bowman, and V. S. Pande. Convergence of folding free energy landscapes via application of enhanced sampling methods in a distributed computing environment. J. Chem. Phys., 128 205106 (2008)
- J. England, D. Lucent, and V. S. Pande. Rattling the cage: computational models of chaperonin-mediated protein folding. Current Opinion in Structural Biology, 18 163-9 (2008)
- J. P. Schmidt, S. L. Delp, M. A. Sherman, C. A. Taylor, V. S. Pande, and Russ B. Altman. The Simbios National Center: Systems Biology in Motion. Proceedings of the IEEE, 96 1266-1280 (2008)
- E. Luttmann, D. L. Ensign, V. Vishal, M. Houston, N. Rimon, J. Øland, G. Jayachandran, M. Friedrichs, and Vijay S. Pande. Accelerating Molecular Dynamic Simulation on the Cell processor and PlayStation 3. Journal of Computational Chemistry, 30 268-74 (2008)
- L. Monticelli, E. J. Sorin, D. P. Tieleman, V. S. Pande, and Giorgio Colombo. Molecular Simulation of Multistate Peptide Dynamics: A Comparison Between Microsecond Timescale Sampling and Multiple Shorter Trajectories. Journal of Computational Chemistry. 29 1740-52 (2008).
- G. R. Bowman, X. Huang, Y. Yao, J. Sun, G. Carlsson, L. J. Guibas and V. S. Pande. Structural Insight into RNA Hairpin Folding Intermediates, JACS 130 9676-8 (2008)
- G. Bowman and V. S. Pande. Simulated Tempering yields insight into the low-resolution Rosetta scoring functions. Proteins, 74 777-88 (2008)
- J. England and V. S. Pande. Potential for modulation of the hydrophobic effect inside chaperonins. Biophysical Journal, 95 3391-9 (2008)
- P. M. Kasson and V. S. Pande. Structural basis for influence of viral glycans on ligand binding by influenza hemagglutinin, Biophysical Journal, 95 L48-50 (2008)
- J. L. England, D. Lucent, and V. S. Pande. A Role for Confined Water in Chaperonin Function. JACS, 130 11838-9 (2008)
- Y. Bai, V. B. Chu, J. Lipfert, V. S. Pande, D. Herschlag, and S. Doniach. Critical assessment of nucleic acid electrostatics via experimental and computational investigation of an unfolded state ensemble. Journal of the American Chemical Society, 130 12334-41 (2008)
- J. England, V. S. Pande, and G. Haran. Chemical Denaturants Inhibit the Onset of Dewetting. Journal of the American Chemical Society, 130 11854-5 (2008)
- P. Petrone, C. D. Snow, D. Lucent, and V. S. Pande. Side-chain recognition and gating in the ribosome exit tunnel, PNAS, 105 16549-54 (2008)
- N. W. Kelley, V. Vishal, R. Jaykumar, C. Liu, T. Pray, G. Krafft, and V. S. Pande. Simulation of the rate of formation and structure of Ab oligomers. Journal of Chemical Physics, 129 214707 (2008)
- L. T. Chong, J. W. Pitera, W. C. Swope, and V. S. Pande. Comparison of computational approaches for predicting the effects of missense mutations on p53 function. Journal of Molecular Graphics & Modeling . 27: 978-982 (2009)
- P. M. Kasson and V. S. Pande. Combining mutual information with structural analysis to screen for functionally important residues in influenza hemagglutinin. Pacific Symposium in Biocomputing 492-503 (2009)
- V. Voelz, P. Petrone, and V. S. Pande. Multiscale methods for the ribosome. Pacific Symposium in Biocomputing 340-52 (2009)
- M. Friedrichs, P. Eastman, V. Vaidyanathan, M. Houston, S. LeGrand, A. Beberg, D. Ensign, C. Bruns, and V. S. Pande. Accelerating Molecular Dynamic Simulation on Graphics Processing Units. Journal of Computational Chemistry, 30 864-72 (2009)
- D. Lucent, J. England, V. S. Pande. Inside the Chaperonin toolbox: Theoretical and computational models for chaperonin mechanism, Physical Biology 6 015003 (2009)
- D. L. Ensign and V. S. Pande. The Fip35 WW Domain Folds with Structural and Mechanistic Heterogeneity in Molecular Dynamics Simulations. Biophysical Journal 96 L53-55 (2009)
- V. A. Voelz, E. Luttmann, G. R. Bowman, and V.S. Pande. Probing the nanosecond dynamics of a designed three-stranded beta-sheet with massively parallel molecular dynamics simulation. International Journal of Molecular Sciences, 10 1013-30 (2009)
- Y. Yao, J. Sun, X. Huang, G. Bowman, G. Singh, M. Lesnick, L. J. Guibas, V. S. Pande, and G. Carlsson. Topological Methods for Exploring Low-density States in Biomolecular Folding Pathways. Journal of Chemical Physics,130 144115 (2009)
- A. Beberg and V. S. Pande. Thalweg: A framework for programming 1,000 Machines With 1,000 Cores. IEEE International Symposium on Parallel & Distributed Processing, 1-7 (2009) http://doi.ieeecomputersociety.org/10.1109/IPDPS.2009.5161139
- A. Beberg and V. S. Pande. Folding@home: lessons from eight years of distributed computing, IEEE International Symposium on Parallel & Distributed Processing, 1-8 (2009) http://doi.ieeecomputersociety.org/10.1109/IPDPS.2009.5160922
- N. W. Kelley, X. Huang, S. Tamm, C. Spies, J. Frydman, and V. S. Pande. The predicted structure of the headpiece of the Huntingtin protein and its implications on Huntingtin aggregation, Journal of Molecular Biology, 388 919-927. (2009)
- G. R. Bowman, X. Huang, and V. S. Pande. Using generalized ensemble simulations and Markov state models to identify conformational states. Methods 49 197-201 (2009)
- I. Haque and V. S. Pande. PAPER — Accelerating Parallel Evaluations of ROCS. Journal of Computational Chemistry, 31 117-32 (2010)
- A.L. Beberg and V.S. Pande. Constructing a Flexible Internet-Scale Time-Sharing System using Deterministic Checkpointing. From Proceeding (724) Informatics (2010) DOI: 10.2316/P.2010.724-030
- G. R. Bowman and V. S. Pande. The Roles of Entropy and Kinetics in Structure Prediction. PLoS One, 4 e5840 (2009)
- M. J. Schnieders, T. D. Fenn, V. S. Pande, and A. T. Brunger. Polarizable Atomic Multipole X-Ray Refinement: Application to Peptide Crystals. Acta Crysollographica, D65 952-965 (2009)
- J. MacCallum, L. Hua, M. J. Schnieders, V. S. Pande, M. P. Jacobson, and K. A. Dill. Assessment of the protein-structure refinement category in CASP8. Proteins 77 66-80 (2009)
- S. Bacallado, J. D. Chodera, and V. S. Pande. Bayesian comparison of Markov models of molecular dynamics with detailed balance constraint. Journal of Chemical Physics, 131 045106 (2009)
- D. Ensign and V. S. Pande. Bayesian single-exponential kinetics in single-molecule experiments and simulations. Journal of Physical Chemistry B 114 280-292 (2010)
- P. M. Kasson, D. L. Ensign, and V. S. Pande. Combining molecular dynamics with Bayesian analysis to predict and evaluate ligand-binding mutations in influenza hemagglutinin. JACS 31 11338-40 (2009)
- V. B. Chu, J. Lipfert, Y. Bai, V. S. Pande, S. Doniach, and D. Herschlag. Do Conformational Biases Arising From the Simple Junctions That Join Helices Influence Folding Specficity in RNA? RNA 15, 2195-2205 (2009)
- X. Huang, G. R. Bowman, S. Bacallado, and V. S. Pande. Adaptive Seeding Method: Rapid Equilibrium Sampling Initiated from Non-equilibrium Data. Proceedings of the National Academy of Sciences, USA, 106, 19765-19769 (2009)
- P. Eastman and V. S. Pande. Efficient Nonbonded Interactions for Molecular Dynamics on a Graphics Processing Unit. Journal of Computational Chemistry, 33 1268 – 1272 (2009)
- I. Haque and V. S. Pande. Hard Data on Soft Errors: A Large-Scale Assessment of Real-World Error Rates in GPGPU. Supercomputing 2009 poster (2009)
- G. Bowman, K. A. Beauchamp, G. Boxer, and V. S. Pande. Progress and Challenges in the Automated Construction of Markov State Models for Full Protein Systems. Journal of Chemical Physics, 131 124101 (2009)
- J. Izaguirre, C. Sweet, and V. S. Pande. Multiscale dynamics of macromolecules using Normal Mode Langevin. PSB 240-251 (2010)
- P. Kasson and V. S. Pande. "Cross-Graining: efficient multiscale simulation via Markov state models. PSB 492-503 (2010)
- X. Huang, Y. Yao, G. R. Bowman, J. Sun, L. Guibas, G. Carlsson, and V. S. Pande. Constructing Multi-resolution Markov State Models (MSMs) to elucidate RNA hairpin folding mechanisms. Pacific Symposium on Biocomputing 15 228-239 (2010)
- D. Ensign and V. S. Pande. Bayesian Detection of Intensity Changes in Single Molecule and Molecular Dynamics Trajectories. Journal of Physical Chemistry B 114 280-92 (2010)
- V. A. Voelz, G. R. Bowman, K. Beauchamp, V. S. Pande. Molecular simulation of ab initio protein folding for a millisecond folder NTL9(1-39), Journal of the ACS, 132 1526-1528 (2010)
- P. Eastman and V. S. Pande. CCMA: A Robust, Parallelizable Constraint Method for Molecular Simulations. Journal of Chemical Theory and Computation 6 434-437 (2010)
- G. Bowman, X. Huang, and V. S. Pande. Network models for molecular kinetics and their initial applications to human health. Cell Research 20 622-630 (2010)
- V. Voelz, V. Singh, W. J. Wedemeyer, L. Lapidus, and V. S. Pande. Unfolded state dynamics and structure of protein L characterized by simulation and experiment, Journal of the ACS, 132 4702–4709 (2010)
- J. Ponder, C. Wu, V. S. Pande, I. Haque, R. A. Distasio Jr., D. Lambrecht, M. Head-Gordon, G. Clark, M. Johnson, and T. Head-Gordon. Current Status of the AMOEBA Polarizable Force Field, J. Phys. Chem. B., 114 2549-2564 (2010)
- I. S. Haque, V. S. Pande, and W. P. Walters. SIML: A Fast SIMD Algorithm for Calculating LINGO Chemical Similarities on CPUs and GPUs. Journal of Chemical Information and Modeling 50 560-564 (2010)
- P. Eastman and V. S. Pande. OpenMM: A Hardware Abstraction Layer for Molecular Simulations. Computing in Science and Engineering 12 34-39 (2010)
- J. England and V. S. Pande. Charge, hydrophobicity, and confined water: Putting past simulations into a simple theoretical framework. Biochemistry and Cellular Biology 88 359-69 (2010)
- G. Bowman and V. S. Pande. Enhanced Modeling via Network Theory: Adaptive Sampling of Markov State Models. Journal of Computational and Theoretical Chemistry 6 787–794 (2010)
- T. D. Fenn, M. J. Schnieders, A. T. Brunger, and V. S. Pande. Polarizable Atomic Multipole X-Ray Refinement: Hydration Geometry and Application to Macromolecules. Biophysical Journal 98 12 (2010)
- D. Lucent, M. Stumpe, V. Pande. Chaperonins: The machines which fold proteins. Contributed Chapter to Nanomachines, ed B. Roux (2010)
- P. M. Kasson, E. Lindahl, and V. S. Pande. Atomic-resolution simulations predict a transition state for vesicle fusion defined by contact of a few lipid tails. PLoS Computational Biology 6 e1000829 (2010)
- I. S. Haque and V. S. Pande. SCISSORS – A Linear-Algebraical Technique to Rapidly Approximate Chemical Similarities. Journal of Chemical Information and Modeling 50 1075–1088 (2010)
- G. Bowman and V. S. Pande. Protein folded states are kinetic hubs. Proceeedings of the National Academy of Sciences, USA 107 10890-10895 (2010)
- V. S. Pande, K. Beauchamp, and G. R. Bowman. Everything you wanted to know about Markov State Models but were afraid to ask. Methods 52 99-105 (2010)
- I. Haque and V. S. Pande. Hard Data on Soft Errors: A Large-Scale Assessment of Real-World Error Rates in GPGPU. Resilience (2010)
- D. Ensign and V. S. Pande. Bayesian inference for Brownian dynamics. Physical Review E 82 (2010)
- I. Haque and V. S. Pande. Large-scale Chemical Informatics on the GPU. GPU Gems (2010)
- P. Eastman and V. S. Pande. Speeding development and execution speed with Just In Time GPU code development approaches. GPU Gems (2010)
- V. S. Pande. A Simple Theory of Protein Folding. Physical Review Letters 105 198101 (2010)
- D. Lucent, C. Snow, and V. S. Pande. Water structure in the ribosome tunnel. PLoS Computational Biology 6 e1000963 (2010)
- G. Bowman, V. Voelz, and V. S. Pande. Atomistic folding simulations of the five helix bundle protein λ6-85. Journal of the American Chemical Society 133 664-667 (2011)
- S. Doniach, V. S. Pande, J. Spence, D. Herschlag, S. Boutet and J. Hastings. Use of correlated x-ray scattering (CXS) to track protein motions during enzyme catalysis by means of an x-ray free-electron laser. Workshop on Evolution and Control of Complexity, Argonne National Lab (2011)
- T. D. Fenn, M. J. Schnieders, M. Mustyakimov , C. Wu, P. Langan, V. S. Pande, and A. T. Brunger. Reintroducing Electrostatics into Macromolecular Crystallographic Refinement: Application to Neutron Crystallography and DNA Hydration. Structure 19 522-533 (2011)
- M. C. Stumpe, N. Blinov, D. Wishart, A. Kovalenko, and V. S. Pande. Calculation of Local Water Densities in Biological Systems: A Comparison of Molecular Dynamics Simulations and the 3D-RISM-KH Molecular Theory of Solvation. J. Physical Chemistry B 115 319-328 (2011)
- G. Bowman, V. Volez, and V. S. Pande. Taming the complexity of protein folding. Current Opinion in Structural Biology 21 4-11 (2011)
- M. J. Schnieders, T. D. Fenn, and V. S. Pande. Polarizable Atomic Multipole X-ray Refinement: Particle-Mesh Ewald Electrostatics for Macromolecular Crystals. Journal of Computational and Theoretical Chemistry 7 1141-1156 (2011)
- P. Kasson and V. S. Pande. Bundling a set of fusion mechanisms. Proceedings of the National Academy of Sciences, USA 108 3827-3828 (2011)
- J. Wagoner and V. S. Pande. A smoothly decoupled particle interface (SDPI): new methods for coupling explicit and implicit solvent. Journal of Chemical Physics 134 214103 (2011)
- J. D. Chodera, W. C. Swope, F. Noé, J-H Prinz, M. R. Shirts, and V. S. Pande. Dynamical Reweighting: Improved estimates of dynamical properties from simulations at multiple temperatures. Journal of Physical Chemistry 134 244107 (2011)
- J.-H. Prinz, J. D. Chodera, V. S. Pande, W. C. Swope, J. C. Smith, and Frank Noé. Optimal use of data in parallel tempering simulations for the construction of discrete-state Markov models of biomolecular dynamics. Journal of Chemical Physics 134 244108 (2011)
- J. Chodera and V. S. Pande. The social network (of protein conformations). Proceedings of the National Academy of Sciences, USA 108 12969-70 (2011)
- K. Beauchamp, D. Ensign, R. Das, and V. S. Pande. Quantitative comparison of villin headpiece subdomain simulations and triplet-triplet energy transfer experiments. Proceedings of the National Academy of Sciences, USA, 108 12734-9 (2011)
- S. Pronk, P. Larson, I. Pouya, G. Bowman, I. Haque, K. Beaucamp, B. Hess, V. S. Pande, P. M. Kasson, E. Lindahl. Copernicus: A new paradigm for parallel adaptive molecular dynamics. Supercomputing 2011 (2011)
- P. Novick, J. Rajadas, C.W. Liu, N. W. Kelley, M. Inayathullah, and V. S. Pande. Rationally designed turn promoting mutation in the amyloid β-peptide sequence to stabilize oligomers in solution. PLoS ONE 6(7): e21776 (2011)
- J. Chodera and V. S. Pande. Splitting probabilities as a test of reaction coordinate choice in single-molecule experiments. Physical Review Letters 107 098102 (2011)
- S. L. Delp, J. P. Ku, V. S. Pande, M. A. Sherman, R. B. Altman. Simbios: An NIH National Center for Physics-Based Simulation of Biological Structures. Journal of the American Medical Informatics Association 19 186-9 (2011).
- V. Voelz and V. S. Pande. Rate Spectra. Proteins 80 342-351 (2011)
- V. S. Pande. (Compressed) Sensing and Sensibility. PNAS 108 14713-4 (2011)
- I. S. Haque and V. S. Pande. Error Bounds on the SCISSORS Approximation Method. Journal of Chemical Information and Modeling, 51 2248-53 (2011).
- I. Haque, V. S. Pande, and W. P. Walters. The Anatomy of High-Performance 2D Similarity Calculations. Journal of Chemical Information and Modeling 51 2345-51 (2011)
- K. J. Kohlhoff, M. H. Sosnick, W. T. Hsu, V. S. Pande, and R. B. Altman. CAMPAIGN: An open-source Library of GPU-accelerated Data Clustering Algorithms. Bioinformatics 27 2322-3 (2011)
- K. Beauchamp, G. R. Bowman, T. J. Lane, L. Maibaum, I. S. Haque, and V. S. Pande. MSMBuilder2: Modeling Conformational Dynamics at the Picosecond to Millisecond Scale. Journal of Computational and Theoretical Chemistry, 7 3412-3419 (2011).
- J. Weber and V. S. Pande. Characterization and rapid sampling of protein folding Markov state model topologies. Journal of Computational and Theoretical Chemistry, 7 3405-3411 (2011).
- T. J. Lane, G. Bowman, K. Beauchamp, V. Voelz, and V. S. Pande. WW Domains Take a New Turn: Markov State Model Reveals Folding and Functional Dynamics in Ultra-Long MD Trajectories. JACS 133 18413-9 (2011)
- R. Brandman, Y. Brandman, and V. S. Pande. A-site residues move independently from P-site residues in all-atom molecular dynamics simulations of the 70S bacterial ribosome. PLoS ONE 7 e29377 (2012)
- R. Brandman, Y. Brandman, and V. S. Pande. Sequence coevolution between RNA and protein characterized by mutual information between residue triplets. PLoS ONE, 7 e30022 (2012)
- P. A. Novick, D. H. Lopes, K. M. Branson, A. Esteras-Chopo, I. A. Graef, G. Bitan, and V. S. Pande. Design of β-Amyloid Aggregation Inhibitors from a Predicted Structural Motif. J. Med. Chem. 55 3002-3010 (2012)
- A. M. Levin, D. L. Bates, A. M. Ring, J. T. Lin, L. Su, C. Krieg, G. R. Bowman, P. Novick, V. S. Pande, H. E. Kohrt, O. Boyman, C. G. Fathman, K. C. Garcia. An Interleukin-2 super-kine engineered by toggling a conformational switch. Nature 484 529-33 (2012)
- A. M. Ring, J-X Lin, D. Feng, S. Mitra, M. Rickert, G. R. Bowman, V. S. Pande, P. Li, I. Moraga, R. Spolski, E. Özkan, W. J. Leonard, K. C. Garcia. Mechanistic and structural insight into the functional dichotomy between IL-2 and IL-15. Nature Immunology 13 1187-1195 (2012)
- J. K. Weber and V. S. Pande. Protein folding is mechanically robust. Biophysical Journal 102 859-67 (2012)
- Y-S Lin, G. R. Bowman, K. Beauchamp, and V. S. Pande. Investigating how peptide length and a pathogenic mutation modify the structural ensemble of amyloid beta monomer. Biophysical Journal 102 315-324 (2012).
- K. Beauchamp, R. Das, and V. S. Pande. Are Protein Force Fields Getting Better? A Systematic Benchmark on 524 Diverse NMR Measurements. Journal of Theoretical and Computational Chemistry 8 1409-1414 (2012)
- V. S. Pande. Protein folding studied with molecular simulation. Encyclopedia of Biophysics (2012)
- T. J. Lane and V. S. Pande. A Simple Model Predicts Experimental Folding Rates and a Hub-Like Topology. JPC B 116 6764-6774 (2012)
- C.J.B. Harvey, J. D. Puglisi, V. S. Pande, D. E. Cane, and C. Khosla. Precursor Directed Biosynthesis of an Orthogonally Functional Erythromycin Analogue: Selectivity in the Ribosome Macrolide Binding Pocket. Journal of the ACS 134 12259–12265 (2012).
- V. A. Voelz, M. Jäger, S. Yao, Y. Chen, L. Zhu, G. R. Bowman, M. Friedrichs, O. Bakajin, L. J. Lapidus, S. Weiss, and V. S. Pande. Slow Unfolded-State Structuring in Acyl-CoA Binding Protein Folding Revealed by Simulation and Experiment. Journal of the ACS 134 (30) 12565–12577 (2012)
- K. Beauchamp, R.T. McGibbon, Y-S. Lin, R. Das, and V. S. Pande. Simple multi-state models reveal hidden complexity in protein folding. PNAS 109 17807–17813 (2012)
- K. J. Kohlhoff, V. S. Pande, and R. B. Altman. K-means for parallel architectures using all-prefix-sum sorting and updating steps. IEEE Transactions on Parallel and Distributed Systems doi: 10.1109/TPDS.2012.234 (2012)
- Y-S Lin and V. S. Pande. Effects of familial mutations on the monomer structure of Aß42. Biophysical Journal 103 L47-L49 (2012)
- T. J. Lane, D. Shukla, K. Beauchamp, and V. S. Pande. To Milliseconds and Beyond: Challenges in the Simulation of Protein Folding. Current Opinion in Structural Biology 23 58-65 (2012)
- P. Eastman, M. S. Friedrichs, J. D. Chodera, R. J. Radmer, C. M. Bruns, J. P. Ku, K. A. Beauchamp, T. J. Lane, L.-P. Wang, D. Shukla, T. Tye, M. Houston, T. Stich, C. Klein, M. R. Shirts, and V. S. Pande. OpenMM 4.0: A Reusable, Extensible, Hardware Independent Library for High Performance Molecular Simulation. Journal of Computational and Theoretical Chemistry 9 461–469 (2013).
- G. Kiss, V. S. Pande, and K. N. Houk. Molecular Dynamics Simulations for the Ranking, Evaluation, and Refinement of Computationally Designed Proteins. Methods in Enzymology 523 (2012)
- J. Sun, Y. Yao, X. Huang, V. S. Pande, G. Carlsson, L. J. Guibas. A Fast Geometric Clustering Method on Conformation Space of Biomolecules. Learning 2 (2012)
- T. J. Lane and V. S. Pande. Eigenvalues of the Homogeneous Finite Linear One Step Master Equation: Applications to Downhill Folding. Journal of Chemical Physics 137 215106 (2012).
- J. Wagoner and V. S. Pande. Reducing the effect of Metropolization on mixing times in molecular dynamics simulations. Journal of Chemical Physics, in press (2013)
- B. Cronkite-Ratcliff and V. S. Pande. MSMExplorer: Visualizing Markov State Models for Biomolecule Folding Simulations. Bioinformatics, in press (2013) doi: 10.1093/bioinformatics/btt051
- H-W Chang, S. Bacallado, V. S. Pande, G. E. Carlsson. Persistent Topology and Metastable State in Conformational Dynamics. PLoS ONE, in press (2013)
- J. K. Weber and V. S. Pande. Functional understanding of solvent structure in GroEL cavity through dipole field analysis. Journal of Chemical Physics, in press (2013)
- J. K. Weber, R. Jack, and V. S. Pande. Emergence of Glass-like Behavior in Markov State Models of Protein Folding Dynamics. JACS, in press (2013)
- C. Schwantes and V. S. Pande. Improvements in Markov State Model Construction Reveal Many Non-Native Interactions in the Folding of NTL9. Journal of Computational and Theoretical Chemistry, in press (2013)
- C. Gu, H-W Chang, L. Maibaum, V. S. Pande, G. E. Carlsson, and L. J. Guibas. Building Markov State Models with Solvent Dynamics. BMC Bioinformatics, in press (2013)
- J. C. Sweet, R. J. Nowling, T. Cickovski, C. R. Sweet, V. S. Pande, and J. A. Izaguirre. Long Timestep Molecular Dynamics on the Graphical Processing Unit. JCTC, in press (2013)
- R. T. McGibbon and V. S. Pande. Learning Kinetic Distance Metrics for Markov State Models of Protein Conformational Dynamics. J. Chem. Theory Comput., DOI: 10.1021/ct400132h (2013)
- T. J. Lane and V. S. Pande. Inferring the Rate-Length Law of Protein Folding. PLoS ONE (2013)
- T. J. Lane, C. R. Schwantes, K. A. Beauchamp, and V. S. Pande. Probing the origins of two-state folding. Journal of Chemical Physics 139 145104 (2013)
- J. Izaguirre, C. Sweet, P. Petrone, and V. S. Pande. Accelerated Dynamics of Proteins and Other Macromolecules. University of Notre Dame and Stanford University (2009)
- I. Haque and V. S. Pande. Fast methods for construction of vector embeddings of molecules for similarity search. Stanford University, provisional patent (2010)
- Boston University, Polymer Physics Seminar, October 1995
- University of California, Berkeley, Condensed Matter Physics Seminar, November 1995
- University of California, San Diego, Condensed Matter Theory Seminar, November 1995
- Harvard University, Polymer Chemistry Seminar, December 1995
- Lawrence Berkeley National Laboratory, LBNL Biophysics Meeting, September 1996
- Rutgers University, Statistical Mechanics Meeting, December 1996
- University of California, Berkeley, Condensed Matter Physics Seminar, October 1997
- Stanford University, Physical Chemistry Seminar, January 25, 1998
- University of California, Berkeley, Chemical Engineering Seminar, February 12, 1998
- Lawrence Berkeley National Laboratory, NERSC Seminar, February 20, 1998
- Massachusetts Institute of Technology, Chemical Engineering Seminar, March 9, 1998
- University of California, Berkeley, Molecular and Cell Biology Seminar, March 30, 1998
- Los Alamos National Laboratory, Third International Symposium on Biological Physics, September 20, 1998
- National Institutes of Health, Laboratory of Chemical Physics, March 17, 1999
- National Centre for Biological Sciences (NCBS), Banglore, India; Frontiers in Structural Biology, August 25-27, 1999
- UC Berkeley, Statistical Mechanics Meeting, January 2000
- La Jolla Interfaces in Science (LJIS), Quantitative Challenges in the Post Genomic Sequence Era, January 11-12, 2000
- International School of Physics, Enrico Fermi, Varenna, Lake Como Italy, July 11, 2000
- Columbia University, Chemistry Dept Seminar, December 2000
- IBM Watson Research center, Blue Gene seminar, December 2000
- Jet Propulsion Lab, Pasadena, CA, Seminar, February 2001
- UCSD, Blue Gene Conference, March 2001
- ACS meeting, symposium on folding and energy landscapes, March 2001
- National Museum of Natural History, Supercomputing Symposium, 2001
- Rockefeller University, Chemistry Dept Seminar, 2001
- Kyoto University, Fourth International Symposium on Biological Physics, July 2001
- Chicago ACS meeting, September 2001
- IBM Almaden research center, San Jose, October 2001
- Polarizable Forcefields Workshop, University of Utah, December 2001
- ICAM/LANL conference on self organizing systems, Santa Fe, January 2002
- Protein Folding Gordon Conference, January 2002
- UCSF, Kollman Memorial Symposium, February 2002
- UCSD, Chemistry Dept Student Invited Seminar, February 2002
- OpenEye conference, keynote speaker, February 2002
- Stanford University, Materials Science Departmental Seminar, February 2002
- Stanford University, Mechanical Engineering Departmental Seminar, April 2002
- UIUC, Theoretical Biophysics Seminar, April 15, 2002
- Stanford University, CPIMA Forum, August 9, 2002
- Caltech, Biophysics Seminar, October 24, 2002
- Aspen Meeting on Single Molecule Experiments, January 2003
- UC Davis, Physics Colloquium, January 27, 2003
- University of Pennsylvania, Chemistry Department Seminar, February 20, 2003
- Princeton University, Chemical Engineering Department Seminar, February 21, 2003
- Association for Lab Automation (ALA), Session on bioinformatic applications to proteomics, Palm Springs, February 2003
- International Symposium on Simulation Science, March 6, 2003
- American Physical Society Meeting, March 3, 2003
- Chemistry Symposium, Seoul National University, March 13, 2003
- Cambridge Health Tech Conference, Strategic Biocomputing: Implementations, Applications and Results. March 18, 2003
- Johns Hopkins, "Coolfont" Protein Folding Meeting, March 22-25, 2003
- University of Maryland, Statistical Physics/Biophysics Seminar, March 26, 2003
- Biomedical Engineering Society (BMES). Understanding the Role of Protein Unfolded States in Folding, Function, Evolution and Disease, April 11, 2003
- SD Forum, Sun Microcomputers, "Build A Bioinformatics Supercomputer Using Grid Technology," June 17, 2003
- Telluride 2003 workshop on "Energy Landscapes and Dynamics," July 2003
- ACS Meeting, Session on Protein Folding Kinetics, September 2003
- ACS Meeting, Session on Protein Design, September 2003
- Keynote address, 16th annual workshop on Languages and Compilers for Parallel Computing (LCPC). (declined), October 2-4, 2003
- CECAM Meeting, October 2003, declined
- Biophysics seminary, Cornell University, October 29, 2003
- NIH BISTI conference, declined, November 2003
- Science at the Interface Seminar, Michigan State University, November 14, 2003
- DGRIDS 2003, Phoenix, November 17, 2003
- ALA meeting, February 2004
- U. Minnesota, February 10, 2004
- Biophysical society, February 2004
- Xerox PARC, February 19, 2004
- Isaac Newton Workshop, March 15-19 2004, declined
- Keystone Meeting on Structural Biology. April, 2004
- NSF Workshop on Cyber infrastructure. April 20, 2004
- CECAM Meeting on Free Energy Methods. May, 2004
- Protein Society. August, 2004
- "Algorithms for Macromolecular Modeling" Leicester, UK, August 19-21, 2004
- ACS Meeting. Session on High Performance Supercomputing in Drug Design. August, 2004
- Washington University, St Louis. December, 2004
- Chemistry Department, New York University, January, 2005
- Chemistry Department, Northwestern University, February, 2005
- Chemistry Department, University of Wisconsin, February, 2005
- Chemistry Department, MIT, February, 2005
- American Physical Society, March 2005
- HiComb Meeting, Keynote Address, April 2005
- GA Tech, Frontiers in Molecular Simulation, May 2005
- US-Japan Meeting on Protein Folding (Saven and Gai, organizers), May 2005
- Biomolecular Simulation: From physical principles to biological function, May 2005
- CECAM, June 2005
- NAS, German-American Frontiers of Science (GAFOS) Symposium, May 2005
- Proteins Gordon Conference, June 2005
- ACT, July 2005
- Merck, West Point Office, July 2005
- IPAM, UCLA, Multiscale Modeling in Soft Matter and Bio-Physics, September 2005
- UCSF, Dept of Pharmaceutical Chemistry, October 2005
- National Parkinson's Foundation meeting, November 2005
- Biomolecular Modeling Symposium, Rice, December 2005
- Interfacial Phenomena at Different Length and Timescales, PacficChem, December 2005
- Protein Folding Gordon Conference, January 2006
- Chemistry Department, University of Pittsburgh, January 2006
- Chemistry Department, UCLA, January 2006
- University of Michigan, February 2006
- Sanibel Quantum Meeting, February 2006
- Computational/Experimental Approaches to Protein Defects in Human Disease, Rutgers, April 2006
- EMBO Workshop, May 2006
- HPDC-15, Keynote address, June 2006
- FOMMS 2006, July 2006
- Protein Society meeting, Irving Sigal Young Investigator Award Presentation, August 2006
- ACS Conference, San Francisco, August 2006
- Chemistry Department, MIT, September 2006
- CECAM meeting on protein folding, September 2006
- UCSF conference on free energy calculation, October 2006
- Berkeley Statistical Mechanics Conference, January 2007
- Sanibel Conference, February 2007
- Open Eye CUP, February 2007
- APS March Meeting, Denver, March 2007
- ACS Meeting, Chicago, March 2007
- PCGRID2007, Long Beach, March 2007
- European Protein Society Meeting, May 2007
- Biophysics seminar, Yale University, September 2007
- Protein Folding Gordon Conference, January 2008
- Metastability and Rare Events in Complex Systems, Vienna, 2008
- Monterey ASC PI Meeting, February 2008
- Open Eye CUP, March 2008
- New Orleans ACS, April 2008
- Mathematical and Numerical Methods for Free Energy Calculations in Molecular Systems (at BIRS), June 2008
- Algorithmic Development on Enhanced Sampling, Telluride, July 2008
- Philadelphia ACS, August, 2008
- QB3 Structural Biology Seminar, UC Berkeley, February 2009
- Joint Chemistry Biology Seminar, UC Davis, February 2009
- IPAM Workshop, UC Los Angeles, February 2009
- ACS Meeting, Salt Lake City, March 2009
- Molecular Kinetics 2009, Berlin, May 2009
- Canadian Society of Biochemistry, Molecular and Cellular Biology (CSBMCB), Ontario, June 2009
- ACS Meeting, Protein Misfolding and Disease. Washington D.C., August 2009
- ACS Meeting, Protein Dynamics and Function. Washington D.C., August 2009
- Beckman conference in honor of Klaus Schulten. UIUC, September 2009
- AM^3 meeting. Austin, November 2009
- NIH IMAG, December 2009
- Protein Folding GRS, Keynote Talk, January 2010
- Protein Folding GRC, January 2010
- NIH Structural Biology Special Interest Group, February 2010
- Biophysical Society, February 2010
- NNIN Meeting, February 2010
- SIAM, Seattle, February 2010
- ACS Meeting, San Francisco, CA, March 2010
- Nanomedicine Meeting, April 2010
- Cold Spring Harbor, May 2010
- Protein Folding Meeting, ASU, May 2010
- Vertex Free Energy Conference, May 2010
- Telluride Free Energy Conference, June 2010
- Telluride Protein Folding Conference, June 2010
- Single Molecule Approaches to Biology GRC, June 2010
- Multiscale Simulation, Edinburgh, Scotland, July 2010
- Protein Folding In the Cell, FASEB, Saxtons River, Vermont, July 2010
- ACS Meeting, Symposium Honoring Bruce Berne, Boston, August 2010
- ACS Meeting GPU session, Boston, August 2010
- ACS Meeting, CINF, Boston, August 2010
- Joint Stanford-Institute Pasteur Conference, Paris, 2010
- CECAM Meeting on Protein Folding, Switzerland, October 2010
- PacificChem 2010, December 2010
- PSB 2011, Keynote, January 2011
- Chemical Engineering Department, UCSB, January 2011
- Chemistry Department, UCLA, January 2011
- Joint Chemistry & Physics Seminar, Boston University, February 2011
- Chemistry Department, Harvard University, February 2011
- MIT, February 2011
- Biophysics Seminar, Brandeis University, February 2011
- Physics Department, Princeton University, February 2011
- US-Mexico Folding Meeting, March 2011
- Texas Folding Meeting, Keynote, March 2011
- CUP, Santa Fe, March 2011
- UCLA IPAM, April 2011
- Johns Hopkins Biophysics Department, April 2011
- Chemistry Department, U. Pittsburgh, April 2011
- Proteins Gordon Conference, June 2011
- ACS Meeting, Denver, 2012
- Biophysical Society, San Diego 2012. Baranay Young Investigator Award Lecture.
- CUP, Santa Fe, March 2012
- ACS Meeting, San Diego, 2012
- CHARMM+AMBER joint meeting, Bethesda, 2012
- Vertex Pharmaceuticals, Boston, 2012
- ACS, Philadelpha, 2012 (four talks)
- CECAM on protein folding, Zurich, 2012
- BioIT World, San Francisco, 2012
- CCG Meeting, Montreal, 2012
- NCBC Meeting, NIH, Bethesda, November 10, 2012
- Berkeley Mini Stat Mech Meeting, January 2013
- Physical Chemistry Seminar, UC Berkeley, February 2013
- NVIDIA GTC, Santa Clara, CA, March 2013
- Texas Folders Meeting, Keynote, Houston, TX, March 2013
- Genetech, South San Francisco, April 2013
- Henry Eyring Lecture, University of Utah, April 2013
- ACS Meeting, New Orleans, LA, April 2013
- WMEN Meeting, San Jose de Cabo San Lucas, Mexico, May 2013
- Special Physical Chemistry Seminar, MIT, Cambridge, MA, May 2013
- Computational Drug Discovery Seminar, Novartis, Cambridge, MA, May 2013
- Proteins GRC, June 2013
- CCG Meeting, Montreal, Canada, June 2013
- Computer Aided Drug Design GRC, July 2013
- Molecular Kinetics Meeting, Berlin, September 2013
- ACS Meeting, Indianapolis, IN, September 2013
- Seminar, Vertex Pharmaceuticals, San Diego, September 2013
- Computer Aided Drug Design CECAM Workshop, Lausanne, October 2013
- Theoretical Chemistry Seminar, University of California, Berkeley, October 2013
- Keynote, PICS opening seminar, University of Pennsylvania, October 2013
- Biophysics seminar, University of Chicago, October 2013
- Chemistry Seminar, University of Pennsylvania, October 2013
- AiChE Meeting, San Francisco, November 2013
- Biochemistry Seminar, University of Notre Dame, November 2013
- Protein Folding GRC, January, 2014
- Biophysical Society, February, 2014
- ACS Meeting, Dallas, March 2014
- Student hosted seminar, Chemistry Dept, University of Chicago, April 2014
- Royal Society of Chemistry Faraday Discussions, May 2014
- Japanese Protein Society, July 2014
Graduate Students (current and former)
Sergio Bacallado 2008- present, Structural Biology. Currently, a lecturer in Statistics, Stanford University.
Kyle Beauchamp 2009-2013, Biophysics. Currently a postdoc at MSKCC.
Adam Beberg 2005- 2011, Computer Science. Currently at Google.
Greg Bowman 2007- 2010, Biophysics. Currently, a Miller Fellow, UC Berkeley.
Relly Brandman 2002-2009, PhD in Molecular Pharmacology. Currently at Coursera.
Kevin Dalton 2011-present. Biophysics, joint with Judith Frydman.
Sidney Elmer 1999-2004, PhD in Chemistry. Currently at LANL.
Mark Engelhardt 2004-2006 (co-advisor); PhD in Biochemistry, 2006; currently postdoc at University of Toronto
Jeremy England 2005-2009, Hertz Fellow, PhD in Physics. Currently an Assistant Professor of Physics, MIT
Dan Ensign 2005-2010, SGF Fellow, PhD in Chemistry
Imran Haque 2007-2012, NSF & SGF Fellow. Currently at Counsyl.
Matthew Harrigan 2013-present, Chemistry.
Guha Jayachandran 2002-2008, DOD Fellow; PhD in Computer Science
Nick Kelley 2001-2009, PhD in Biophysics.
Stefan Larson 2000-2004, PhD in Biophysics. SGF Fellow. Currently at McKinsey.
Steven Kearnes 2011-present, Structural Biology
Thomas J ("TJ") Lane 2010-present, Chemistry. NSF Fellow.
Del Lucent 2004-2010, PhD in Biophysics. Currently an Assistant Professor at Wilkes University
Robert McGibbon 2011-present, Chemistry.
Paul Novick 2009-present, Chemistry. CMAD Fellow.
Angelica Parente 2011-present. Biophysics. Joint with Zev Bryant.
Paula Petrone 2003-2008, PhD in Biophysics, BISTI Fellow. Currently at Novartis.
Young Min Rhee 2001-2005, PhD in Chemistry. Currently an assistant professor at POSTECH, Korea, Department of Chemistry
Steven Ryckbosch 2012-present. Chemistry. Joint with Paul Wender.
Christian Schwantes 2010-present. Chemistry.
Jade Shi 2012-present. Chemistry.
Michael Shirts 2000-2004, PhD in Chemistry. Hertz Fellow, SGF Fellow. Currently an assistant professor at the University of Virginia, Department of Chemical Engineering
Nina Singhal 2001-2007, PhD in Computer Science, SGF Fellow. Currently an assistant professor at University of Chicago
Chris Snow 2000-2006. PhD in Biophysics. Currently an Assitant Professor at University of Colorado.
Eric Sorin 2001-2007, Chemistry, PhD., DOE CGSF Fellow. Currently an assistant professor at Cal State Long Beach
Mohammad Sultan 2012-present. Chemistry.
Vishal Vaidyananthan 2001-2007, PhD in Chemistry. Currently at Goldman Sachs.
Dan Vannetta 2009-present, Chemistry
Jason Wagoner 2006-2013, NSF Fellow Chemistry. Currently at Fellow at the Lauffer Center, Stony Brook.
Jeffery Weber 2010-present, Chemistry. Hertz Fellow.
Bojan Zagrovic 2000-2004, PhD in Biophysics, HHMI Fellow. Currently a postdoctoral fellow at ETH, with Prof. Wilfred van Gunsteren. Currently a professor at Univ. Vienna.
Postdoctoral Associates (current and former)
Kim Branson 2006-2009. Currently at Vertex Pharmaceuticals.
John Chodera 2006-2009. Currently an Assitant Professor at Sloan Kettering
Lillian Chong 2002-2006. Currently Assistant Professor at Chemistry Department, University of Pittsburgh
Xuhui Huang 2006-2009 (joint w/Prof. Michael Levitt). Currently an Assistant Professor in Hong Kong
Peter Kasson 2006-2010. Currently an Assistant Professor at the University of Virginia
Gert Kiss 2011-present. Simbios Distinguished Fellow.
Kai Kohlhoff 2009-2011 (joint w/Prof. Russ Altman). Currently at Google.
Morgan Lawrenz 2011-present.
Sung Joo Lee 2003-2006. Group leader at LG Pharmaceuticals, Korea
Yu-Shan Lin 2009-2012. Currently an Assistant Professor at Tufts University
Edgar Luttmann 2005-2008. Currently a lecturer in Germany.
Lutz Maibaum 2009-2011. Currently an Assistant Professor and U. Washington, Seattle
Sanghuyn Park 2004-2007. Currently a fellow at Argonne National Labs.
Lili Peng 2013-present (joint w/Prof. Russ Altman)
Mike Schnieders 2007-2010 (joint w/Prof. Axel Brunger). Currently an Assistant Professor at University of Iowa
Diwakar Shukla 2011-present. Simbios Distinguished Fellow
Martin Stumpe 2009-2010. Currently at NASA.
Veena Thomas 2010-present
Vincent Voelz 2007-2011. Currently an Assistant Professor at Temple University.
Lee-Ping Wang 2011-present (joint w/Prof. Todd Martinez). Simbios Distinguished Fellow
Masters Students
Siraj Khaliq Masters in Computer Science, 2002. Currently at Google
Bradley Nakatani Masters in Chemistry, 2003.
Abhay Sukumaran Masters in Computer Science, 2006
Undergraduate Students
Ian Baker B.A. Chemistry, 2001.
Bryce Cronkite-Ratcliff 2010. Currently at Stanford
Amit Garg B.A. Computer Science, 2002. Currently at Google.
Jeremy Lai 2010. Currently at Stanford
Alex Robertson B.A. Chemistry, 2008
1. NSF MRSEC CPIMA (Curt Frank, PI) 2000-2002
Simulations of branched molecules
This is a seed grant from the NSF MRSEC CPIMA center.
Role: PI
2. ARO (Michael Levitt, PI) 2000-2003
Large-Scale Structure Prediction and Folding of Proteins from Sequence
This is an instrumentation grant for computer hardware to study protein dynamics and structure prediction.
Role: Co-PI
Nucleation or a topological search: relative contributions to the folding barrier
Here, we proposed tests of the hypothesis that topology defines the folding pathway.
Role: PI
4. Intel, Inc 2000-2001
This gift from Intel helped pay for the initial computational infrastructure for Folding@Home.
Role: PI
5. Stanford Bio-X Core Facilities (Michael Levitt, PI) 2002-2003
High performance computer cluster
This grant paid for the Dell cluster now serving the biological community at Stanford.
Role: Co-PI
Topology, Nucleation, and the Protein Folding Barrier
We examine the mechanisms for how proteins fold by examining protein folding using distributed computing and implicit solvent coupled to experiments (done by Kevin Plaxco, co-PI)
Role: PI
7. NIH BISTI Planning grant (Russ Altman, PI) 2002-2005
This proposal gave a small amount of funds for the planning of the BISTI roadmap center. These funds helped to fund some early infrastructure aspects of Folding@Home.
Role: co-Investigator
Role: PI
8. Stanford Internet 2 2002-2003
Folding@home 2.0: Harnessing the Internet2 for worldwide distributed computing"
This grant funded a second generation Folding@Home software infrastructure, with an emphasis on taking advantage of the Internet2 backbone.
Role: PI
9. Stanford OTL 2002-2003
Folding@Home 3: calculating ligand binding affinity with distributed computing
This small grant funded initial work to use Folding@Home to calculate protein-ligand binding free energies.
Role: PI
Comparing the accuracy of atomistic potentials in the prediction of the rate and mechanism of protein folding
Here, we tested different force fields for their ability to quantitatively predict protein folding kinetics. This test could not be done without Folding@Home and lends insight into the relative predictive quality of force fields commonly used in computational biology.
Role: PI
11. Google, Inc 2002-2003
This gift from Google helped pay for the initial computational infrastructure for Folding@Home.
Role: PI
12. Stanford Terman Fellowship 2002-2005
This work helped fund second generation Folding@Home infrastructure and the related scientific calculations.
Role: PI
13. NSF MRSEC CPIMA III (Curt Frank, PI) 2002-2006
As part of CPIMA, our work has centered on new methods for long timescale simulation, especially to simulate lipid vesicle fusion.
Role: Co-PI
14. Stanford Bio-X (Scott Delp, PI) 2003-2006
How Myosin V Walks: 3D Simulation Brings Life to Atomic Structures of Motor Proteins
Here, we proposed to combine methods from computational biology and mechanical engineering to study the motion of myosin.
Role: Co-PI
15. Stanford Bio-X (Seb Doniach, PI) 2003-2006
Counterion-Induced Forces in the Folding of RNA
We propose to combine novel experimental and computational methods to study the nature of the counterion atmosphere around nucleic acids.
Role: Co-PI
Studying the Role of Water Dynamics on the Protein Folding Mechanism Using Worldwide Distributed Computing
The goal of this project is to use massively explicit solvation simulation to study the role of water in protein folding. In particular, does water play a structural role in the transition state for protein folding?
Role: PI
17. The Camille and Henry Dreyfus Foundation, Inc. 06/01/03 – 05/31/08
New Methods for the Simulation of the Kinetics and Thermodynamics of Biological Molecules
The goal of this project is centered on new applications of distributed computing, including novel ways to use distributed molecular dynamics for long timescale simulation.
Role: PI
18. NIH 5 PO1 GM066275 (Daniel Herschlag, PI) 06/06/03 – 05/31/08
Folding of the Tetrahymena Group 1 Ribozyme
The goal of this project is to address the mechanism by which the RNA folds to active and inactive structures using a battery of physical approaches. Dr. Pande is one of many investigators in this Program Project Grant (PPG).
Role: Other Investigator
19. NIH 5 RO1 AR051582 (Teri Klein, PI) 08/05/04 – 06/30/08
Linking Collagen Genotypes to Molecular Phenotypes
The goal of this project is to link genotypes for patients with collagen-related diseases to molecular phenotypes, such as the nature of how collagen self-assembles or its final structure.
Role: Co-PI
20. Acumen Pharmaceuticals 02/01/05 – 03/30/07
The Molecular Dynamics of Formation and the Structure of Soluble Amyloid Beta 1-42 Oligomers
The goal of this project is to simulate the formation kinetics and structure of Abeta oligomers, to predict interesting small molecules to slow or break the formation of oligomers, and compare these results to experiment.
Role: PI
21. Loveless Fund (Stanford) 2006-2007
Combining Xray crystallography and novel computational methods for the discovery small molecule inhibitors of cytokine signaling
We propose novel methods to design inhibitors of protein-protein interactions relevant for asthma and then to assay these molecules experimentally to test our methods.
Role: PI
22. BioX IIP (Stanford) 2006-2008
Mapping the functional surface of the ribosome exit tunnel with novel antibiotics: a combined approach using computational design, chemo-biosynthesis, and experimental characterization
This proposal combines novel synthesis, computational, and experimental characterization methods to discover new small molecule antibiotics.
Role: PI
23. NSF MURI Instrumentation (Michael Levitt, PI) 2006-2009
MURI: Hybrid Shared-Memory/Massively-Parallel Commodity Cluster for Cost-Effective Super-Computing (Co-PI)
This is an instrumentation proposal to bring a next generation supercomputer to Stanford.
Role: Co-PI
Oligomerization, confinement and the folding barrier
This grant continues previous work on studying protein folding with implicit solvent models and distributed computing by including simple models for confinement and studies of oligomerization concurrent with folding.
Role: PI
Collaborative Research: Cyberinfrastructure for Next Generation Biomolecular Modeling
The goal of this project is to devise better force fields for free energy calculation, centered around the AMOEBA polarizable force field.
Role: Co-PI
26. CPIMA IV (Stanford) 2002-2006
This is an NSF MRSEC to study polymers at interfaces. This grant supports our work on lipid membranes
Role: Co-PI
27. NIH Nanomedicine Center (Judith Frydman, PI) 09/30/05 – 09/29/11
Center for Protein Folding Machinery
The goal of this project is to support our work on studying chaperones in all-atom detail.
Role: Other Investigator
How do proteins fold into their native and functional structures in-vitro and in the physiological milieu of the living cell?
This is a large, multi-group proposal combining single molecule fluorescence, biological expertise in ribosomes and mitochondrial channels, and computational methods to study protein folding in vivo.
Role: Co-PI (Primary Stanford PI)
29. NIH U54 GM072970 (Russ Altman, PI) 06/06/03 – 10/31/14
Physics-Based Simulation of Biological Structures
The goal of this project is to establish and lead the National Center for Physics-Based Simulation of Biological Structures (SimBioS). This grant will fund work on normal mode langevin dynamics with applications to Myosin dynamics and RNA folding.
Role: Other Investigator
Qualitative Analysis of Molecular Dynamical Systems
This proposal centers on mathematical methods for the analysis of protein folding trajectories.
Role: PI
Oligomerization, confinement and the folding barrier
This grant continues previous work on studying protein folding with implicit solvent models and distributed computing by including simple models for confinement and studies of oligomerization concurrent with folding.
Role: PI
Development and application of a multi-scale markov model for simulating protein folding
Role: PI, Stanford
This project seeks to develop a novel scheme for Markov State Models (MSMs), applying ideas from multiscale simulation. Specifically, we will develop MSMs which can combine results from multiple models in order to gain significantly in computational efficiency without any loss in accuracy; also, when applied to a given application area, these methods can also give us direct insight into which chemical details are important as well as which simulation methods are most applicable. The aims of this proposal are to develop multi-scale MSM creation methodology, test the methodology, and then apply it to the thermodynamics and kinetics of folding in vitro in order to understand which chemical details are important for this process in vitro.
33. NIH 1R01GM097463-01A1 (Sebastian Doniach, PI) 2012-2016
Tracking conformational states in enzyme catalysts using correlated x-ray scatter
34. NIH 1R01GM101935-01 (Jesus Izaguirre, PI) 2012-2016
Enabling long timestep molecular dynamics on parallel CPU and GPU environments
Last updated on Sunday, November 17, 2013


text:
GRTU has today published it's annual Business Performance Survey.
Overall, results have been positive with 36% of respondents claiming that their sales in 2016 increased by between 1 and 30% over sales in 2015 and 29% claiming that they did worse that 2015. The remaining 36% claimed that their turnover was identical to that of 2015.
This survey is conducted by the GRTU research unit which is headed by Marcel Mizzi (GRTU Vice President - Finance & Admin). The number of respondents was 175 and the survey was conducted online and via telephone. The online system employed utilises tokens which means that only persons that possess a token can participate and tokens are sent by email to members. This ensures that respondents cannot vote twice and that only persons who are legitimate business owners can actually participate.
The above pie chart shows the business activities that the respondents of this survey are active in. It is clearly evident from this chart that the respondents where from a cross section of the business community and not simply retailers. This particular question allowed respondents to select more than one selection as we are aware that many businesses are not simply involved in one activity within their enterprise.
The above line chart shows that the businesses interviewed are involved in am myriad of sectors. Sectors for the GRTU is well known are represented as well as other sectors that are such as the sectors which are traditionally considered as service sectors.
Respondents were also provided with an opportunity to air their concerns and the most prevalent concerns where the following :
- There is an acute shortage of employable people. Considered on a country wide level this is undoubtedly a good thing but on a micro business level this is causing acute problems. Business people are claiming that they are spending a lot of their time finding employees rather than focusing on being productive in their respective businesses.
- Traffic congestion is causing serious concerns. Persons employed to handle on-site calls have become much less productive and companies are finding it very hard to keep up with their client support commitments because of inefficiencies that are clearly attributed to logistic challenges caused by traffic congestion.
- The new SISA on cosmetics and related products was mentioned repeatedly. GRTU members and businessman in general simply cannot understand how the government would choose to inconvenience the business community with these unnecessary burdens to collect a paltry few millions. GRTU has always claimed that it sees this as going back in time to a time when Excise and Customs played an important part in tax collection. GRTU applauded the Government on the removal of ECO taxes, only to be disappointed with the new SISA.
- Respondents also mentioned repeatedly the unfair competition which is rampant through the Internet as well as through other channels such as undeclared imports from Sicily. Goods purchased online are exempt from taxes such as VAT, Duty and packaging and WEEE fees. This causes an aberration in the market and GRTU has been insisting that these abuses need to be curbed.
- Respondents also mentioned the new "Shop opening hours" regulations and showed surprise that the €700 fee to open on Sundays was still in force. A survey conducted by GRTU about this matter two years ago clearly showed that shop owners are widely in favour of a free for all system. While GRTU understants that the new ammedments were a first step, the €700 fee is excessive and should be removed.
The full survey can be found here

subset: commoncrawl


text:
IISE's societies and divisions offer awards to recognize accomplishments by their members.
Policies and Procedures for Existing Society/Division Awards and Competitions
Policies and Procedures for New Society/Division Awards and Competition
Sponsorship Letter of Commitment
This student competition is for papers and projects demonstrating or describing the use of industrial engineering tools in a construction environment.
This student competition is for papers and projects demonstrating or describing the use of industrial engineering tools in a data analytics and information systems (DAIS) environment.
IISE-DAIS Mobile App competition is designed to provide students with opportunities of developing practical mobile apps and taking business initiatives for the mobile apps in the field of industrial and systems engineering.
This award recognizes student members whose paper and presentation both represent the highest level of excellence.
This award recognizes members for their technical contribution to manufacturing and design.
This student competition is for papers and projects demonstrating or describing the use of industrial engineering tools in a engineering economy environment.
This award recognizes excellence in industry practice of engineering economy concepts.
This award recognizes and promotes the outstanding teaching of engineering economy.
The Wellington Award recognizes outstanding contributions in the field of engineering economy.
Teams of three IE undergraduate students solve a real-world situational case study using the Rockwell Automation simulation package, Arena.
This competition should showcase your creativity in ISE design to develop the conceptual design for a new product to meet an unmet need in the global marketplace.
This award recognizes organizations for innovative and effective implementation of lean principles and practices that deliver exemplary business performance improvement.
This award, open to graduate and undergraduate ISE students, honors outstanding papers in the field of lean research and practices.
This award recognizes excellence in teaching lean concepts.
This competition, open to graduate and undergraduate ISE students, honors outstanding papers in the field of logistics and supply chain.
This competition recognizes excellence in industry practice of logistics and supply chain courses.
This competition recognizes a team who demonstrate innovative use of logistics and supply chain concepts in the analysis of the case.
This award recognizes excellence in teaching logistics and supply chain.
The best student paper competition recognizes excellence in a paper.
This award recognizes contributions to leadership in public and community matters, the M&D division, the manufacturing engineering profession or the manufacturing industry.
This award recognizes M&D members for their technical contribution to manufacturing and design.
The track student paper award is intended to recognize the achievements of student researchers (undergraduate and graduates) in the area of M&S.
This award recognizes M&S members in teaching M&S courses.
The Operations Research Division of IISE invites nominations for its annual national award recognizing excellence in teaching operations research.
This award recognizes scholarly work as well as the ability to communicate results effectively from an undergraduate student or student teams.
The purpose of this competition is to honor outstanding papers in the field of quality and/or reliability engineering research and practice.
The William A.J. Golomski Award honors the outstanding paper in the proceedings of the Annual Reliability and Maintainability Symposium (RAMS) authored or co-authored by a member of IISE.
This is open to graduate and undergraduate ISE students and should demonstrate or describe the use of techniques which improve productivity and quality through effective and economical managerial techniques and philosophies.
This student competition is for research projects, theoretical research, case studies, class projects, or any type of methodology in which ISE skills were used or could be used to improve a health care-related service, product, or process.
Teams of a maximum of four ISE graduate students solve a "real-world" healthcare situational case study.
To promote the industrial engineering profession to high school students, teachers and college counselors.
To encourage students to continue developing the field of sustainability and contributing with high quality research contribution.
This award recognizes successful improvement projects conducted with a not-for-profit that supports at least one of the 17 UN sustainable development goals.
The Sustainable Development Division recognizes the contribution of an individual advancing the knowledge and practice of sustainability in the field of industrial engineering.
The purpose of the competition is to encourage undergraduate students to write and present outstanding technical papers.


text:
Emotive Landscapes LTD was set up in 2009 by Guy Jones. You can meet the team here.
About Guy:
After trying his hand at office work in London, Guy decided the outdoor life was for him and set about turning the knowledge and experience of his university summer job, landscaping, into a career as he realised he rather enjoyed it…however, if he was going to do this he was going to do it right and as well as anyone could. After investing some time learning the trade at a number of notable botanic gardens, large landscaping companies, studying in Japan and working in Holland with the dutch master Piet Oudolf he set up Emotive Landscapes Ltd.
In the pursuit of the best possible knowledge Guy applied to and was accepted onto the Royal Horticulture Societies two year practical diploma at their flagship garden, RHS Wisley. Here, Guy was able to combine his love of the natural world with working outdoors and developed a deep knowledge and passion for plants with the sole intention of being able to offer more a considered planting and garden design than he had seen being offered by the majority of those in the industry he had worked with before.
Following graduation and before setting up Emotive Landscapes, Guy went to work with Piet Oudolf as a graduate job and here learnt from the best in the business – http://www.emotivelandscapes.co.uk/projects/planting-design-video-with-piet-oudolf/
Emotive Landscapes moved to work on Cheltenham gardens in mid 2010 and now operates across Gloucester and East to South West London.
What motivated Guy when this journey began still motivates him today. DO THE BEST JOB YOU CAN and try to pass on some of this enthusiasm to your clients.
Guy's aim is to develop garden and planting design while trying to move the industry forward. At the moment he is on a careful plan of gaining experience and solidifying this knowledge and experience before he begins to seek sponsorship to build show gardens.
- Becoming West Midlands and South Wales Young Horticulturalist 2015 and in the same year 4th nationally.
- Graduating in the top two of my Year at RHS Wisley and being invited to The Worshipful Company of Gardeners annual prize giving dinner in recognition of his achievements at RHS Wisley
- Discovering a new Acer selection and having the subsequent evidence published in the RHS Plantsman. More articles on their way.
- Being fortunate enough to study and work in Kyoto, Japan. See right.


text:
Bairski, Georgevich get aces at Scenic Golf & Country Club
Del Bairski of Bad Axe aced the 82-yard No. 7 hole this past weekend.
Also, Casevilles Kathy Georgevich aced the 117-yard No. 17 hole this past weekend.
BCAS grabs
share of GTW
baseball title
PIGEON - Bay City All Saints grabbed a share of the Greater Thumb West baseball crown with a victory over Elkton-Pigeon-Bay Port on Wednesday.
The game was tied 10-10 when it resumed on Wednesday.
The Cougars and Cass City will share the GTW championship.
Basketball Camp
PIGEON - The SuperSkills Basketball Camp is back for 2004.
The camp, directed by former Elkton-Pigeon-Bay Port standout Matt LePage, along with numerous other former Thumb players, is slated for June 21-25 at EPBP.
This years camp is going to be different from the previous two. Instead of an all-day camp, it will be broken down into two sessions. Another major change is that the camp has dropped Grades 11-12.
Instead, the camp will reach out to the younger kids in Grades 1-2.
"Ive experienced working with younger kids and Ive realized thats the age that needs attention," LePage said.
"Too many kids get used to being 'couch potatoes' at a young age instead of trying a sport like basketball. Like playing a musical instrument, the younger a kid starts, the better he/she will be as they grow up."
The goal of SuperSkills Basketball Camp is to provide a great basketball environment for kids of all ages and all skill levels. It gives them a chance to work on their strengths and weaknesses as a basketball player.
The camp is open to the entire Thumb area, for youngsters in Grades 1-10.
Last year, the camp had 130 kids from nine different local schools.
Heres a breakdown of the camp:
For: 1st - 3rd Graders (Boys and Girls)
Time: 9-11 a.m.
Camp Highlights: Campers will learn the fundamentals of basketball such as dribbling, passing, catching, and proper shooting technique. Each camper will receive a camp t-shirt and certificate of participation along with the chance to learn basketball in a fun-filled environment from some of the finest basketball players/coaches in the entire area. Each camper also will have chances to win prizes.
Cost: $35
For: 4th - 10th Graders (Boys and Girls)
Time: Noon to 4 p.m.
Camp Highlights: Campers will learn fundamentals and advance their skills as an individual player, as well as in a team game situation. Campers will go through drills, compete in various contests, and play in daily games (each camper will be on a team). Each athlete will receive a camp t-shirt along with a player evaluation sheet. Each camper also will vie for several camp awards.
Cost: $55
Registration forms can be picked up at area Little Caesars, or at the Huron Daily Tribune office. Deadline is June 14.
For more information, call Matt or Mike at 989-453-2742.
Basketball Camp
UBLY - The 2004 Bearcat Basketball Camp is slated for June 14-18 at Ubly High School.
The camp is open to players - boys and girls - ranging in age from 8-14. It will run from 10 a.m. to 2 p.m.
Cost is $50, which includes a camp t-shirt.
For more information, contact Joel Leipprandt (989) 658-2928.
Camp of Champions
BAD AXE - The fourth annual Hatchet Camp of Champions is slated for June 28 to July 2 at Bad Axe Junior High and Bad Axe High School.
The basketball camp is open to all players - boys and girls - in Grades K-8.
Session 1: Grades K-1 ÐÊ9:30 a.m. to 10:30 a.m. at the junior high.
Session 2: Grades 2-3 ÐÊ10:45 a.m. to noon at the junior high.
Session 3: Grades 4-5 ÐÊ1-2:30 p.m. at the junior high.
Session 4: Grades 6-8 Ð 5:30-8 p.m. at the high school.
Cost is $50 per participant in Grades 2-8; $35 for Grades K-1. There is a family maximum of $130. Fee includes t-shirt, camp basketball, participation certificate, awards and giveaways. Registration forms are available at the Huron Daily Tribune offices.
For more information, contact Kurt Dennis (989) 269-9593.
Harbor Beach
Parks & Recreation
Youth Basketball Camp
HARBOR BEACH - The Harbor Beach Parks & Recreation Department is hosting a youth basketball camp from June 21-25 at Davison Park.
The camp is open to all boys and girls, ages 8-14. The camp will run from 9-11:30 a.m. each day. Cost is $25, which includes instruction, drills, games, basketball and t-shirt.
For more information, contact Ron Wruble (989) 479-6529 or Marilee Schock (989) 479-9602.


text:
You can run from the past, but you can't hide . . .
Tough as nails, no nonsense San Francisco reporter Grace Hanover will do anything to cover the story of the decade—and her career. Having survived a painful past, she's learned never to let anything stand in her way. Even if it means following a key witness into the Alaskan wilderness, and partnering with Travis Barnett, a former Navy SEAL turned PI who's working for the Feds, and who would love to bring in Grace's witness before she can get her story. But together in the wilderness, they'll each have to put aside their differences and trust one another if they want to survive.
Because someone from Grace's past is watching, waiting for just the right moment. Every step Grace takes draws her deeper into the line of fire, and into the hands of a killer…
(All information obtained from authors website)
Write what you know. I've taken this advice to heart, creating characters from small towns and plots that unfold in the great outdoors. I grew up in a tiny Northern California town and currently live in beautiful Lake Tahoe with my husband and two daughters. When I'm not busy writing, I hike or snowshoe in the woods around my home. Whether I'm writing contemporary, historical or romantic suspense, I bring the beauty of nature to my stories.
Thanks go first to Kensington Publishing and Netgalley for providing us with a copy of this book so that we could bring you this review.
Now this review is super late and my apologies to both the author and Kensington books for taking so long with it. I also wish I hadn't waited so long to dive into it. Though this is the second book a series it really does read completely independently, so much so that I totally forgot that it was linked at all to the other book Every Move She Makes, and was curious on those characters story (until I got to the end of this book and realized I'd already read it). Travis is super hot and sexy from second one. His no-nonsense take charge attitude was fantastic and kept them all safe. Grace's tenacity and strong will makes it so that she doesn't even realize what she is doing and how well she is handling with the outdoors (a self proclaimed 5 star resort only kind of woman). This book keeps you on the edge of your seat with the action and adventure that it offers. This isn't one of those lets give you a romance with some action, to me it was more of an action with some romance. Well it does have plenty of the fun and sexy action as well.
I give this book 4 stalking kisses…
Happy Reading… Adri


text:
Credo is the Latin (and Italian) word for "I believe." At Credo, we believe in simple, rustic Italian dishes highlighting fresh, house-made ingredients and generous portions of creativity, served in a uniquely modern environment.
Diners seated in the main dining room are surrounded by 15 gigantic, soaring art panels displaying a dizzying array of quotations beginning with the words "I believe." Each panel is an assemblage of comment and commentary built on found ideas, from the inspired to the absurd, the sacred and profane, on topics ranging from race to sex to war. Nothing is off limits.
In all, they contain more than 42,000 letters, 10,000 words, over 600 quotations, by some 575 people of varying degrees of fame or infamy.
"It celebrates the juxtaposition of disparate viewpoints," said Frank Holland, who assembled the quotations and directed the design and production of the one-of-a-kind displays. "Through the deliberate use of proximity, dimension, color and irony, we've achieved a third layer of meaning found in the space between the ideas."
In an indirect way, Credo celebrates the time-honored tradition of the dinner table argument – that venerated off-the-cuff verbal slugfest punctuated by interjections of gastronomic delight. Nothing enhances a great meal like an exciting conversation, and our walls will get the discussion rolling.


text:
Owl Gifts
Owl Gifts, are ma HOOT sive sellers at Design me My Gift Shop. So much so we have had to make an Owl Cushion range of our own, especially for you to browse! Green owl cushions, red owl cushions, vintage floral owl cushions, owl mugs, personalised owl cushions, owl cake pops, owl key rings, owl chalk boards. Everything owl! We hope you love our Owl Gifts
Red Personalised Football Cushion£18.00–£24.00
Mr & Mrs Owl – Cushion | Polka£20.00
Blue Personalised Football Cushion£18.00–£24.00
Owl Edible Stand Up cake / cupcake Toppers£2.29
Claret | Gold Type Personalised Football Cushion£18.00–£24.00
Shabby Chic Owl Cushion | Duck Egg Blue£18.00
Yankee Doodle Stars & Stripes Owl£18.00
Shabby Chic Owl Cushion | Navy£18.00
Gift Shop - of the DM Personalised Football Snood- Photo Gifts
Christmas Gift Ideas - Personalised Christmas Gifts- Personalised Wedding Gifts- Football Cushion


text:
The Summer/Fall 2017 play! Monterey Actions Information lists applications supplied from June-November 2017. You possibly can view the complete guide online , or view individual sections by applications. Click on on the tabs to view Monterey Recreation and Monterey Sports Middle applications. Packages should be paid for in full at the time of registration. Payment could be made by cheque, credit card, debit card or cash. Cheques are made payable to the Metropolis of Ottawa. Prepaid or reloadable bank cards, present certificates, Visa Debit and Interac On-line are not accepted at this time. Thank-you for creating an account using the Metropolis of Ottawa's online registration system. Atlantic Metropolis, the place gambling is authorized saw an exceptional 320% rise in the crime fee, and also a 100% rise in circumstances of rape, muggings and housebreaking.
If you're not satisfied with your class after your first visit, we'll refund the complete amount in case you call before the category meets a second time. We hope to get you hooked! There shall be no prorating before the 4th week of classes, thereafter 20% will be prorated from the original class fee. Performing arts are additionally a very popular hobby. Singing, dancing, playing musical instruments and acting are apply of performing arts for the hobbyist. With out a main interest, it's not doable to do higher in this sort of performances. This passion does give a lot of psychological satisfaction as well as fame.
THE COURSES, PROGRAMS, AND OCCASIONS LISTED ON THIS WEBSITE ARE SUBJECT TO CANCELLATION. Specialized recreational applications and activities are supplied at identified centres and for varied populations and ages all through the City of Ottawa. Please check with the Special Needs Guide. So as to add more than one individual to the class or activity, select the Add Consumer button and use the drop-down menu to select the consumer. Sign up for B within the Loop and get your brochure and other exciting news delivered to your inbox!
Day Camp Info: Palms Recreation Middle presents day camp applications for children ages 4-13 (Preschool-eighth Grade). Camps are offered in the summer, winter, and spring primarily based on the LAUSD faculty holiday breaks. Observe: Preschool camp is only supplied throughout the summer season. Winter & Spring Camp are both Ok-eighth grade solely. Credits will be left on your account for two years. After which, refunds will likely be issued robotically and subject to a $15 processing charge. Shared Care Integration provides a higher degree of assist to allow children with a particular must participate in a recreational exercise or program.
The City of Olympia does not discriminate against people with disabilities in Metropolis companies, applications, or actions. The City gives cheap accommodations to the general public with disabilities. We invite you to contact the Parks, Arts and Recreation Department two (2) weeks upfront of the date a program begins or forty-eight (forty eight) hours earlier than Parks, Arts and Recreation conferences to debate any particular accommodations which can be necessary. If you want to remove a category or activity out of your cart, select the X Take away button.


text:
... the magazine, that is.
Results of a tasting of 2009 Barolo features in this month's issue. I have a lot more time for these panel tastings now that they just employ three judges for each one (although the quality of the results is determined by who is tasting, of course) but still much depends on the actual submission of wines. As the catchphrase goes, you have to be in it to win it.
It was good to see Serradenari getting an outstanding rating with 95 points for its 2009 although, as I don't have any in stock yet, the listing is with another wine merchant. My only concern is that it is listed as costing £34.90 - we have the 2006 and 2007 both for well under £20 so something is stacking up! Having said that, the company's website doesn't even list the wine or the producer. Oh well, I'll just have to import it myself.
The real delight for me was to find, just below Serradenari, an estate I have just started working with, principally for their Freisa, a quirky wine I have been wanting to add to the list for a while. Of course, I have also bought some of the Barolo which gets the following write up:
Filippo Broccardo et Flli. Monforter d'Alba 17.75 (92/100)
"Spicy oak aromas of vanilla and liquorice. Fresh and rich on the palate at first, then smooth and balanced. Very pure red fruit and polished (though still chewy) tannins."
Well done! I can hardly wait for the new wines to arrive.