GPCRDB: an information system for G protein-coupled receptors. - Florence Horn; Jonathan Weare; Margot W. Beukers; S. Hörsch; Amos Bairoch; W. Chen; Øyvind Edvardsen; Fabien Campagne; Gert Vriend (Nucleic Acids Res., 1998)

Particle filtering with path sampling and an application to a bimodal ocean current model. - Jonathan Weare (J. Comput. Phys., 2009)

Variance Reduction for Particle Filters of Systems With Time Scale Separation. - Dror Givon; Panagiotis Stinis; Jonathan Weare (IEEE Trans. Signal Process., 2009)

Sharp Entrywise Perturbation Bounds for Markov Chains. - Erik H. Thiede; Brian Van Koten; Jonathan Weare (SIAM J. Matrix Anal. Appl., 2015)

Fast Randomized Iteration: Diffusion Monte Carlo through the Lens of Numerical Linear Algebra. - Lek-Heng Lim; Jonathan Weare (SIAM Rev., 2017)

Ensemble preconditioning for Markov chain Monte Carlo simulation. - Benedict J. Leimkuhler; Charles Matthews; Jonathan Weare (Stat. Comput., 2018)

Trajectory Stratification of Stochastic Dynamics. - Aaron R. Dinner; Jonathan C. Mattingly; Jeremy O. B. Tempkin; Brian Van Koten; Jonathan Weare (SIAM Rev., 2018)

Stratification as a General Variance Reduction Method for Markov Chain Monte Carlo. - Aaron R. Dinner; Erik H. Thiede; Brian Van Koten; Jonathan Weare (SIAM/ASA J. Uncertain. Quantification, 2020)

Approximating matrix eigenvalues by randomized subspace iteration. - Samuel M. Greene; Robert J. Webber; Timothy C. Berkelbach; Jonathan Weare (CoRR, 2021)

A Kinetic Monte Carlo Approach for Simulating Cascading Transmission Line Failure. - Jacob Roth; David A. Barajas-Solano; Panos Stinis; Jonathan Weare; Mihai Anitescu (Multiscale Model. Simul., 2021)

A Metric on Directed Graphs and Markov Chains Based on Hitting Probabilities. - Zachary M. Boyd; Nicolas Fraiman; Jeremy Louis Marzuola; Peter J. Mucha; Braxton Osting; Jonathan Weare (SIAM J. Math. Data Sci., 2021)

Error Bounds for Dynamical Spectral Estimation. - Robert J. Webber; Erik H. Thiede; Douglas Dow; Aaron R. Dinner; Jonathan Weare (SIAM J. Math. Data Sci., 2021)

Understanding and eliminating spurious modes in variational Monte Carlo using collective variables. - Huan Zhang; Robert J. Webber; Michael Lindsey; Timothy C. Berkelbach; Jonathan Weare (CoRR, 2022)

Symmetry Breaking and the Generation of Spin Ordered Magnetic States in Density Functional Theory Due to Dirac Exchange for a Hydrogen Molecule. - Michael J. Holst; Houdong Hu; Jianfeng Lu 001; Jeremy Louis Marzuola; Duo Song; Jonathan Weare (J. Nonlinear Sci., 2022)

Ensemble Markov Chain Monte Carlo with Teleporting Walkers. - Michael Lindsey; Jonathan Weare; Anna Zhang (SIAM/ASA J. Uncertain. Quantification, 2022)

Approximating Matrix Eigenvalues by Subspace Iteration with Repeated Random Sparsification. - Samuel M. Greene; Robert J. Webber; Timothy C. Berkelbach; Jonathan Weare (SIAM J. Sci. Comput., 2022)

Randomly sparsified Richardson iteration is really fast. - Jonathan Weare; Robert J. Webber (CoRR, 2023)

Predicting rare events using neural networks and short-trajectory data. - John Strahan; Justin Finkel; Aaron R. Dinner; Jonathan Weare (J. Comput. Phys., 2023)

Improved Active Learning via Dependent Leverage Score Sampling. - Atsushi Shimizu; Xiaoou Cheng 001; Christopher Musco; Jonathan Weare (ICLR, 2024)

The surprising efficiency of temporal difference learning for rare event prediction. - Xiaoou Cheng 001; Jonathan Weare (NeurIPS, 2024)

Convergence of Unadjusted Langevin in High Dimensions: Delocalization of Bias. - Yifan Chen; Xiaoou Cheng 001; Jonathan Niles-Weed; Jonathan Weare (CoRR, 2024)

geom2vec: pretrained GNNs as geometric featurizers for conformational dynamics. - Zihan Pengmei; Chatipat Lorpaiboon; Spencer C. Guo; Jonathan Weare; Aaron R. Dinner (CoRR, 2024)

Can AI weather models predict out-of-distribution gray swan tropical cyclones? - Y. Qiang Sun; Pedram Hassanzadeh; Mohsen Zand; Ashesh Chattopadhyay; Jonathan Weare; Dorian S. Abbot (CoRR, 2024)