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Aaron R. Dinner
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2020 – today
- 2023
- [j11]John Strahan, Justin Finkel, Aaron R. Dinner, Jonathan Weare:
Predicting rare events using neural networks and short-trajectory data. J. Comput. Phys. 488: 112152 (2023) - [j10]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) - [i2]Zihan Pengmei, Zimu Li, Chih-chan Tien, Risi Kondor, Aaron R. Dinner:
Transformers are efficient hierarchical chemical graph learners. CoRR abs/2310.01704 (2023) - 2021
- [j9]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): 225-252 (2021) - 2020
- [j8]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): 1139-1188 (2020) - [i1]Robert J. Webber, Erik H. Thiede, Douglas Dow, Aaron R. Dinner, Jonathan Weare:
Error bounds for dynamical spectral estimation. CoRR abs/2005.02248 (2020)
2010 – 2019
- 2018
- [j7]Aaron R. Dinner, Jonathan C. Mattingly
, Jeremy O. B. Tempkin
, Brian Van Koten
, Jonathan Weare:
Trajectory Stratification of Stochastic Dynamics. SIAM Rev. 60(4): 909-938 (2018) - 2015
- [j6]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) - 2012
- [j5]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): 206-213 (2012) - [j4]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)
2000 – 2009
- 2009
- [j3]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, Victor 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): 1545-1614 (2009) - 2006
- [j2]Jie Hu, Ao Ma, Aaron R. Dinner:
Monte Carlo simulations of biomolecules: The MC module in CHARMM. J. Comput. Chem. 27(2): 203-216 (2006) - 2000
- [j1]Aaron R. Dinner:
Local deformations of polymers with nonplanar rigid main-chain internal coordinates. J. Comput. Chem. 21(13): 1132-1144 (2000)
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