Cargando…
Designing self-assembling kinetics with differentiable statistical physics models
The inverse problem of designing component interactions to target emergent structure is fundamental to numerous applications in biotechnology, materials science, and statistical physics. Equally important is the inverse problem of designing emergent kinetics, but this has received considerably less...
Autores principales: | , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
National Academy of Sciences
2021
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7958177/ https://www.ncbi.nlm.nih.gov/pubmed/33653960 http://dx.doi.org/10.1073/pnas.2024083118 |
_version_ | 1783664789272133632 |
---|---|
author | Goodrich, Carl P. King, Ella M. Schoenholz, Samuel S. Cubuk, Ekin D. Brenner, Michael P. |
author_facet | Goodrich, Carl P. King, Ella M. Schoenholz, Samuel S. Cubuk, Ekin D. Brenner, Michael P. |
author_sort | Goodrich, Carl P. |
collection | PubMed |
description | The inverse problem of designing component interactions to target emergent structure is fundamental to numerous applications in biotechnology, materials science, and statistical physics. Equally important is the inverse problem of designing emergent kinetics, but this has received considerably less attention. Using recent advances in automatic differentiation, we show how kinetic pathways can be precisely designed by directly differentiating through statistical physics models, namely free energy calculations and molecular dynamics simulations. We consider two systems that are crucial to our understanding of structural self-assembly: bulk crystallization and small nanoclusters. In each case, we are able to assemble precise dynamical features. Using gradient information, we manipulate interactions among constituent particles to tune the rate at which these systems yield specific structures of interest. Moreover, we use this approach to learn nontrivial features about the high-dimensional design space, allowing us to accurately predict when multiple kinetic features can be simultaneously and independently controlled. These results provide a concrete and generalizable foundation for studying nonstructural self-assembly, including kinetic properties as well as other complex emergent properties, in a vast array of systems. |
format | Online Article Text |
id | pubmed-7958177 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | National Academy of Sciences |
record_format | MEDLINE/PubMed |
spelling | pubmed-79581772021-03-19 Designing self-assembling kinetics with differentiable statistical physics models Goodrich, Carl P. King, Ella M. Schoenholz, Samuel S. Cubuk, Ekin D. Brenner, Michael P. Proc Natl Acad Sci U S A Physical Sciences The inverse problem of designing component interactions to target emergent structure is fundamental to numerous applications in biotechnology, materials science, and statistical physics. Equally important is the inverse problem of designing emergent kinetics, but this has received considerably less attention. Using recent advances in automatic differentiation, we show how kinetic pathways can be precisely designed by directly differentiating through statistical physics models, namely free energy calculations and molecular dynamics simulations. We consider two systems that are crucial to our understanding of structural self-assembly: bulk crystallization and small nanoclusters. In each case, we are able to assemble precise dynamical features. Using gradient information, we manipulate interactions among constituent particles to tune the rate at which these systems yield specific structures of interest. Moreover, we use this approach to learn nontrivial features about the high-dimensional design space, allowing us to accurately predict when multiple kinetic features can be simultaneously and independently controlled. These results provide a concrete and generalizable foundation for studying nonstructural self-assembly, including kinetic properties as well as other complex emergent properties, in a vast array of systems. National Academy of Sciences 2021-03-09 2021-03-02 /pmc/articles/PMC7958177/ /pubmed/33653960 http://dx.doi.org/10.1073/pnas.2024083118 Text en Copyright © 2021 the Author(s). Published by PNAS. https://creativecommons.org/licenses/by-nc-nd/4.0/ https://creativecommons.org/licenses/by-nc-nd/4.0/This open access article is distributed under Creative Commons Attribution-NonCommercial-NoDerivatives License 4.0 (CC BY-NC-ND) (https://creativecommons.org/licenses/by-nc-nd/4.0/) . |
spellingShingle | Physical Sciences Goodrich, Carl P. King, Ella M. Schoenholz, Samuel S. Cubuk, Ekin D. Brenner, Michael P. Designing self-assembling kinetics with differentiable statistical physics models |
title | Designing self-assembling kinetics with differentiable statistical physics models |
title_full | Designing self-assembling kinetics with differentiable statistical physics models |
title_fullStr | Designing self-assembling kinetics with differentiable statistical physics models |
title_full_unstemmed | Designing self-assembling kinetics with differentiable statistical physics models |
title_short | Designing self-assembling kinetics with differentiable statistical physics models |
title_sort | designing self-assembling kinetics with differentiable statistical physics models |
topic | Physical Sciences |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7958177/ https://www.ncbi.nlm.nih.gov/pubmed/33653960 http://dx.doi.org/10.1073/pnas.2024083118 |
work_keys_str_mv | AT goodrichcarlp designingselfassemblingkineticswithdifferentiablestatisticalphysicsmodels AT kingellam designingselfassemblingkineticswithdifferentiablestatisticalphysicsmodels AT schoenholzsamuels designingselfassemblingkineticswithdifferentiablestatisticalphysicsmodels AT cubukekind designingselfassemblingkineticswithdifferentiablestatisticalphysicsmodels AT brennermichaelp designingselfassemblingkineticswithdifferentiablestatisticalphysicsmodels |