Aaron R. Dinner

Publication Activity (10 Years)

Years Active: 2000-2023
Publications (10 Years): 8

Top Topics

Spectral Estimation

Secondary Structure

Markov Chain Monte Carlo

Wavelet Synopses

Top Venues

PLoS Comput. Biol.

SIAM/ASA J. Uncertain. Quantification

J. Comput. Phys.

Publications

John Strahan, Justin Finkel, Aaron R. Dinner, Jonathan Weare
Predicting rare events using neural networks and short-trajectory data. J. Comput. Phys. 488 (2023)
Catherine G. Triandafillou, Rosalind Wenshan Pan, Aaron R. Dinner, D. Allan Drummond
Pervasive, conserved secondary structure in highly charged protein regions. PLoS Comput. Biol. 19 (10) (2023)
Zihan Pengmei, Zimu Li, Chih-chan Tien, Risi Kondor, Aaron R. Dinner
Transformers are efficient hierarchical chemical graph learners. CoRR (2023)
Robert J. Webber, Erik H. Thiede, Douglas Dow, Aaron R. Dinner, Jonathan Weare
Error Bounds for Dynamical Spectral Estimation. SIAM J. Math. Data Sci. 3 (1) (2021)
Robert J. Webber, Erik H. Thiede, Douglas Dow, Aaron R. Dinner, Jonathan Weare
Error bounds for dynamical spectral estimation. CoRR (2020)
Aaron R. Dinner, Erik H. Thiede, Brian Van Koten, Jonathan Weare
Stratification as a General Variance Reduction Method for Markov Chain Monte Carlo. SIAM/ASA J. Uncertain. Quantification 8 (3) (2020)
Aaron R. Dinner, Jonathan C. Mattingly, Jeremy O. B. Tempkin, Brian Van Koten, Jonathan Weare
Trajectory Stratification of Stochastic Dynamics. SIAM Rev. 60 (4) (2018)
Alan L. Hutchison, Mark Maienschein-Cline, Andrew H. Chiang, S. M. Ali Tabei, Herman Gudjonson, Neil Bahroos, Ravi Allada, Aaron R. Dinner
Improved Statistical Methods Enable Greater Sensitivity in Rhythm Detection for Genome-Wide Data. PLoS Comput. Biol. 11 (3) (2015)
Mark Maienschein-Cline, Jie Zhou, Kevin P. White, Roger Sciammas, Aaron R. Dinner
Discovering transcription factor regulatory targets using gene expression and binding data. Bioinform. 28 (2) (2012)
Yihan Lin, Ying Li, Sean Crosson, Aaron R. Dinner, Norbert F. Scherer
Phase Resetting Reveals Network Dynamics Underlying a Bacterial Cell Cycle. PLoS Comput. Biol. 8 (11) (2012)
Bernard R. Brooks, Charles L. Brooks III, Alexander D. MacKerell Jr., Lennart Nilsson, Robert J. Petrella, Benoît Roux, Y. Won, G. Archontis, Christian Bartels, Stefan Boresch, Amedeo Caflisch, Leo S. D. Caves, Qiang Cui, Aaron R. Dinner, Michael Feig, S. Fischer, Jiali Gao, Milan Hodoscek, Wonpil Im, Krzysztof Kuczera, Themis Lazaridis, J. Ma, V. Ovchinnikov, Emanuele Paci, Richard W. Pastor, C. B. Post, J. Z. Pu, Michael Schaefer, Bruce Tidor, Richard M. Venable, H. Lee Woodcock III, X. Wu, W. Yang, Darrin M. York, Martin Karplus
CHARMM: The biomolecular simulation program. J. Comput. Chem. 30 (10) (2009)
Jie Hu, Ao Ma, Aaron R. Dinner
Monte Carlo simulations of biomolecules: The MC module in CHARMM. J. Comput. Chem. 27 (2) (2006)
Aaron R. Dinner
Local deformations of polymers with nonplanar rigid main-chain internal coordinates. J. Comput. Chem. 21 (13) (2000)