Jonathan Weare Associate Professor of Mathematics Courant Institute of Mathematical Sciences New York University 251 Mercer Street New York, NY 100121185 weare [AT] cims [DOT] nyu [DOT] edu 
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2018 Trajectory stratification of stochastic dynamics with A.R. Dinner, J.C. Mattingly, J. Tempkin, and B. Van Koten, SIAM Reviews: Research Spotlight, 60(4), 909–938 Umbrella sampling: a powerful method to sample tails of distributions with C. Matthews, A. Kravstov, and E. Jennings, Monthly Notices of the Royal Astronomical Society, 480(3), 40694079 2017 Simulating the stochastic dynamics and cascade failure of power networks with C. Matthews, B. Stadie, M. Anitescu, and C. Demarco Ensemble preconditioning for Markov chain Monte Carlo simulation with B. Leimkuhler and C. Matthews, Statistics and Computing, 28(2) 277290 Fast randomized iteration: diffusion Monte Carlo through the lens of numerical linear algebra with L.H. Lim, SIAM Reviews: Research Spotlight, 59(3) 547587 2016 Eigenvector method for umbrella sampling enables error analysis with E. Thiede, B. Van Koten, and A. Dinner, Journal of Chemical Physics, 145(8) 084115 Multiple timestep dualHamiltonian hybrid molecular dynamics Monte Carlo canonical propagation algorithm with Y. Chen, S. Kale, A. Dinner, and B. Roux, Journal of Chemical Theory and Computation, 12(4) 14491458 2015 Sharp entrywise perturbation bounds for Markov chains with E. Thiede and B. Van Koten, SIAM Journal on Matrix Analysis and Applications, 36(3), 917941 The Brownian fan with M. Hairer, Communications in Pure and Applied Mathematics, 68(1) 160 2014 Finding chemical reaction paths with a multilevel preconditioning protocol with S. Kale, S. Olaseni, and A. Dinner, Journal of Chemical Theory and Simulation, 10(12), 54675475 Distinguishing meanders of the Kuroshio using machine learning with D. Plotkin and D. Abbot, Journal of Geophysical Research  Oceans, 119(10) 65936604 Using multiscale preconditioning to accelerate the convergence of iterative molecular calculations with J. Tempkin, B. Qui, M. Saunders, B. Roux, and A. Dinner, Journal of Chemical Physics, 140(18) 184114 Improved diffusion Monte Carlo with M. Hairer, Communications in Pure and Applied Mathematics, 67(12) 19952021 Nucleotide regulation of the structure and dynamics of Gactin with M. Saunders, J. Tempkin, A. Dinner, B. Roux, and G. Voth, Biophysical Journal, 106(8) 17101720 2013 The relaxation of a family of broken bond crystal surface models with J. Marzuola, Physical Review E, 88 032403 The theory of ultra coarse graining I, general principles with J. Dama, A. Sinitskiy, M. McCullagh, B. Roux, A. Dinner, and G. Voth, Journal of Chemical Theory and Computation, 9(5) 24662480 On the statistical equivalence of restrainedensemble simulations with the maximum entropy method with B. Roux, Journal of Chemical Physics, 138(8) 084107 Minimizing memory as an objective for coarsegraining with N. Guttenberg, J. Dama, M. Saunders, A. Dinner, and G. Voth, Journal of Chemical Physics, 138(9) 094111 Extending molecular simulation time scales: Parallelintime integrations for highlelel quantum chemistry and complex force representations with E. Bylaska and J.H. Weare, Journal of Chemical Physics, 139 074114 Data assimilation in the low noise regime with applications to the Kuroshio with E. VandenEijnden, Monthly Weather Review, 141 18221841 2012 Steered transition path sampling with N. Guttenberg and A. Dinner, Journal of Chemical Physics, 136 234103 Rare event simulation for small noise diffusions with E. VandenEijnden, Communications in Pure and Applied Mathematics, 65(12) 17701803 An affineinvariant sampler for exoplanet fitting and discovery in radial velocity data with F. Hou, J. Goodman, D. Hogg, and C. Schwab, The Astrophysical Journal, 75 198 2011 The evolution of a crystal surface: analysis of a 1D step train connecting two facets in the ADL regime with H. Al Hajj Shehadeh and R.V. Kohn, Physica D, 240 17711784 2010 Ensemble samplers with affine invariance with J. Goodman, Communications in Applied Mathematics and Computational Science, 5 6580 2009 Particle filtering with path sampling and an application to a bimodal ocean current model Journal of Computational Physics, 228 43124331 Variance reduction for particle filters of systems with timescale separation with D. Givon and P. Stinis, IEEE Transactions on Signal Processing, 57(2) 424435 2007 Efficient Monte Carlo sampling by parallel marginalization Proceedings of the National Academy of Science, 104(31) 1265712662 