Aaron R Dinner

发表

Jonathan Weare, Nicholas Guttenberg, Aaron R Dinner, 2012, The Journal of chemical physics.

Short-time evolution in the adaptive immune system.

Nicholas Guttenberg, Aaron R Dinner, S M Ali Tabei, 2011, Physical review. E, Statistical, nonlinear, and soft matter physics.

Flow-Dependent Unfolding and Refolding of an RNA by Nonequilibrium Umbrella Sampling.

Alex Dickson, Aaron R Dinner, Mark Maienschein-Cline, 2011, Journal of chemical theory and computation.

The Theory of Ultra-Coarse-Graining. 1. General Principles.

Benoît Roux, Jonathan Weare, Gregory A Voth, 2013, Journal of chemical theory and computation.

Using multiscale preconditioning to accelerate the convergence of iterative molecular calculations.

Bo Qi, Jonathan Weare, Aaron R Dinner, 2014, The Journal of chemical physics.

Bootstrapping and Empirical Bayes Methods Improve Rhythm Detection in Sparsely Sampled Data

Aaron R Dinner, Ravi Allada, Alan L Hutchison, 2018, Journal of biological rhythms.

Machine learning force fields and coarse-grained variables in molecular dynamics: application to materials and biological systems.

Fabio Pietrucci, Alexandre Tkatchenko, Andrew L. Ferguson, 2020, Journal of chemical theory and computation.

Automatic method for identifying reaction coordinates in complex systems.

Aaron R Dinner, Ao Ma, Ao Ma, 2005, The journal of physical chemistry. B.

Umbrella sampling for nonequilibrium processes.

Aaron R Dinner, Prabhakar Bhimalapuram, Aryeh Warmflash, 2007, The Journal of chemical physics.

Minimizing memory as an objective for coarse-graining.

Jonathan Weare, Gregory A Voth, Nicholas Guttenberg, 2013, The Journal of chemical physics.

Long-Time-Scale Predictions from Short-Trajectory Data: A Benchmark Analysis of the Trp-Cage Miniprotein.

Chatipat Lorpaiboon, Jonathan Weare, B. P. Vani, 2020, Journal of chemical theory and computation.

Atomistic understanding of kinetic pathways for single base-pair binding and unbinding in DNA

Arup K Chakraborty, David Chandler, Aaron R Dinner, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Dynamic coupling between coordinates in a model for biomolecular isomerization.

Aaron R Dinner, Ao Ma, Ambarish Nag, 2006, The Journal of chemical physics.

Galerkin approximation of dynamical quantities using trajectory data.

Erik H. Thiede, Jonathan Weare, Dimitrios Giannakis, 2018, The Journal of chemical physics.

CD4 enhances T cell sensitivity to antigen by coordinating Lck accumulation at the immunological synapse

Arup K Chakraborty, Mark M Davis, Mark M. Davis, 2004, Nature Immunology.

A hybrid deterministic-stochastic algorithm for modeling cell signaling dynamics in spatially inhomogeneous environments and under the influence of external fields.

Arup K Chakraborty, Aaron R Dinner, Yuko Hori, 2006, The journal of physical chemistry. B.

A two-step nucleotide-flipping mechanism enables kinetic discrimination of DNA lesions by AGT

Aaron R Dinner, Ao Ma, Ao Ma, 2008, Proceedings of the National Academy of Sciences.

The Immunological Synapse Balances T Cell Receptor Signaling and Degradation

Arup K Chakraborty, Rajat Varma, Subhadip Raychaudhuri, 2003, Science.

Single-pixel interior filling function approach for detecting and correcting errors in particle tracking

Patrick Figliozzi, Aaron R Dinner, Norbert F Scherer, 2016, Proceedings of the National Academy of Sciences.

Model for competition from self during passive immunization, with application to broadly neutralizing antibodies for HIV.

Ying Li, Aaron R Dinner, Martin Weigert, 2012, Vaccine.

Nonequilibrium phase diagrams for actomyosin networks.

Aaron R Dinner, Glen M Hocky, Glen M. Hocky, 2018, Soft matter.

1 Dynamics and Heterogeneity of a Fate Determinant During Transition Towards Cell Differentiation 1 2 3 4

Aggelos K Katsaggelos, Aaron R Dinner, Helio T. Navarro, 2015 .

Grand canonical Monte Carlo simulations of water in protein environments.

Benoît Roux, Aaron R Dinner, B. Roux, 2004, The Journal of chemical physics.

Modeling bistable cell-fate choices in the Drosophila eye: qualitative and quantitative perspectives

Aaron R Dinner, S M Ali Tabei, A. Dinner, 2010, Development.

Model for how retrograde actin flow regulates adhesion traction stresses

Ying Li, Aaron R Dinner, Prabhakar Bhimalapuram, 2010, Journal of physics. Condensed matter : an Institute of Physics journal.

Conformational sampling via a self-regulating effective energy surface.

Wei Yang, Aaron R Dinner, Martin Karplus, 2006, The Journal of chemical physics.

Enhancement of diffusion-controlled reaction rates by surface-induced orientational restriction.

Aaron R Dinner, Ambarish Nag, A. Nag, 2006, Biophysical journal.

Eigenvector method for umbrella sampling enables error analysis.

Erik H. Thiede, Jonathan Weare, Aaron R Dinner, 2016, The Journal of chemical physics.

Extracting physically intuitive reaction coordinates from transition networks of a beta-sheet miniprotein.

Bo Qi, Amedeo Caflisch, Aaron R Dinner, 2010, The journal of physical chemistry. B.

A Versatile Framework for Simulating the Dynamic Mechanical Structure of Cytoskeletal Networks.

Aaron R Dinner, Glen M Hocky, Glen M. Hocky, 2016, Biophysical journal.

Lattice model for self-assembly with application to the formation of cytoskeletal-like structures.

Aaron R Dinner, Shannon F Stewman, 2007, Physical review. E, Statistical, nonlinear, and soft matter physics.

Contractile units in disordered actomyosin bundles arise from F-actin buckling.

Martin Lenz, Aaron R Dinner, M. Gardel, 2012, Physical review letters.