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Equation-free multiscale computation: algorithms and applications

Annual review of physical chemistry, 2009-01, Vol.60 (1), p.321-344

2009

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Machine learning-assisted crystal engineering of a zeolite

Nature communications, 2023-05, Vol.14 (1), p.3152-3152, Article 3152

2023

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Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps

Proceedings of the National Academy of Sciences - PNAS, 2009-09, Vol.106 (38), p.16090-16095

2009

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Bistability and oscillations in the Huang-Ferrell model of MAPK signaling

PLoS computational biology, 2007-09, Vol.3 (9), p.1819-1826

2007

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Emergent Spaces for Coupled Oscillators

Frontiers in computational neuroscience, 2020-05, Vol.14, p.36-36

2020

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Extended dynamic mode decomposition with dictionary learning: A data-driven adaptive spectral decomposition of the Koopman operator

Chaos (Woodbury, N.Y.), 2017-10, Vol.27 (10)

2017

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Transformations establishing equivalence across neural networks: When have two networks learned the same task?

Chaos (Woodbury, N.Y.), 2024-07, Vol.34 (7)

2024

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Coarse-scale PDEs from fine-scale observations via machine learning

Chaos (Woodbury, N.Y.), 2020-01, Vol.30 (1)

2020

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Deciding the Nature of the Coarse Equation through Microscopic Simulations: The Baby-Bathwater Scheme

SIAM review, 2007-09, Vol.49 (3), p.469-487

2007

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Local conformal autoencoder for standardized data coordinates

Proceedings of the National Academy of Sciences - PNAS, 2020-12, Vol.117 (49), p.30918-30927

2020

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Coarse nonlinear dynamics and metastability of filling-emptying transitions : Water in carbon nanotubes

Physical review letters, 2005-09, Vol.95 (13), p.130603.1-130603.4, Article 130603

2005

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A resilient and efficient CFD framework: Statistical learning tools for multi-fidelity and heterogeneous information fusion

Journal of computational physics, 2017-09, Vol.344, p.516-533

2017

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Staying the course: iteratively locating equilibria of dynamical systems on Riemannian manifolds defined by point-clouds

Journal of mathematical chemistry, 2023-03, Vol.61 (3), p.600-629

2023

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Optimal deterministic algorithm generation

Journal of global optimization, 2018-08, Vol.71 (4), p.891-913

2018

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Correction to: Optimal deterministic algorithm generation

Journal of global optimization, 2019-02, Vol.73 (2), p.465-465

2019

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Modeling epidemics on adaptively evolving networks: A data-mining perspective

Virulence, 2016-02, Vol.7 (2), p.153-162

2016

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A constrained approach to multiscale stochastic simulation of chemically reacting systems

The Journal of chemical physics, 2011-09, Vol.135 (9), p.094102-094102-12

2011

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Dynamical Modeling of Optogenetic Circuits in Yeast for Metabolic Engineering Applications

ACS synthetic biology, 2021-02, Vol.10 (2), p.219-227

2021

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Gene regulatory networks: a coarse-grained, equation-free approach to multiscale computation

The Journal of chemical physics, 2006-02, Vol.124 (8), p.084106-084106

2006

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Variable-free exploration of stochastic models: a gene regulatory network example

The Journal of chemical physics, 2007-04, Vol.126 (15), p.155103-155103

2007

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Resilient algorithms for reconstructing and simulating gappy flow fields in CFD

Fluid dynamics research, 2015-10, Vol.47 (5), p.1-24

2015

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Exploration of effective potential landscapes using coarse reverse integration

The Journal of chemical physics, 2009-10, Vol.131 (13), p.134104-134104

2009

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A compartmental model for the bicoid gradient

Developmental biology, 2010-09, Vol.345 (1), p.12-17

2010

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Coarse analysis of collective motion with different communication mechanisms

Mathematical biosciences, 2008-07, Vol.214 (1), p.49-57

2008

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Spatially distributed stochastic systems: Equation-free and equation-assisted preconditioned computations

The Journal of chemical physics, 2006-11, Vol.125 (20), p.204108-204108

2006

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Equation-free multiscale computation: algorithms and applications

Machine learning-assisted crystal engineering of a zeolite

Detecting intrinsic slow variables in stochastic dynamical systems by anisotropic diffusion maps

Bistability and oscillations in the Huang-Ferrell model of MAPK signaling

Emergent Spaces for Coupled Oscillators

Extended dynamic mode decomposition with dictionary learning: A data-driven adaptive spectral decomposition of the Koopman operator

Transformations establishing equivalence across neural networks: When have two networks learned the same task?

Coarse-scale PDEs from fine-scale observations via machine learning

Deciding the Nature of the Coarse Equation through Microscopic Simulations: The Baby-Bathwater Scheme

Local conformal autoencoder for standardized data coordinates

Coarse nonlinear dynamics and metastability of filling-emptying transitions : Water in carbon nanotubes

A resilient and efficient CFD framework: Statistical learning tools for multi-fidelity and heterogeneous information fusion

Staying the course: iteratively locating equilibria of dynamical systems on Riemannian manifolds defined by point-clouds

Optimal deterministic algorithm generation

Correction to: Optimal deterministic algorithm generation

Modeling epidemics on adaptively evolving networks: A data-mining perspective

A constrained approach to multiscale stochastic simulation of chemically reacting systems

Dynamical Modeling of Optogenetic Circuits in Yeast for Metabolic Engineering Applications

Gene regulatory networks: a coarse-grained, equation-free approach to multiscale computation

Variable-free exploration of stochastic models: a gene regulatory network example

Resilient algorithms for reconstructing and simulating gappy flow fields in CFD

Exploration of effective potential landscapes using coarse reverse integration

A compartmental model for the bicoid gradient

Coarse analysis of collective motion with different communication mechanisms

Spatially distributed stochastic systems: Equation-free and equation-assisted preconditioned computations

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