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Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools
We present an automated method that maps surface reaction pathways with no experimental data and with minimal human interventions. In this method, bias potentials promoting surface reactions are applied to enable statistical samplings of the surface reaction within the timescale of ab initio molecul...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
The Royal Society of Chemistry
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9382359/ https://www.ncbi.nlm.nih.gov/pubmed/36090391 http://dx.doi.org/10.1039/d2ra04343b |
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author | Hirai, Hirotoshi Jinnouchi, Ryosuke |
author_facet | Hirai, Hirotoshi Jinnouchi, Ryosuke |
author_sort | Hirai, Hirotoshi |
collection | PubMed |
description | We present an automated method that maps surface reaction pathways with no experimental data and with minimal human interventions. In this method, bias potentials promoting surface reactions are applied to enable statistical samplings of the surface reaction within the timescale of ab initio molecular dynamics (MD) simulations, and elementary reactions are extracted automatically using an extension of the method constructed for gas- or liquid-phase reactions. By converting the extracted elementary reaction data to directed graph data, MD trajectories can be efficiently mapped onto reaction pathways using a network analysis tool. To demonstrate the power of the method, it was applied to the steam reforming of methane on the Rh(111) surface and to propane reforming on the Pt(111) and Pt(3)Sn(111) surfaces. We discover new energetically favorable pathways for both reactions and reproduce the experimentally-observed materials-dependence of the surface reaction activity and the selectivity for the propane reforming reactions. |
format | Online Article Text |
id | pubmed-9382359 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | The Royal Society of Chemistry |
record_format | MEDLINE/PubMed |
spelling | pubmed-93823592022-09-08 Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools Hirai, Hirotoshi Jinnouchi, Ryosuke RSC Adv Chemistry We present an automated method that maps surface reaction pathways with no experimental data and with minimal human interventions. In this method, bias potentials promoting surface reactions are applied to enable statistical samplings of the surface reaction within the timescale of ab initio molecular dynamics (MD) simulations, and elementary reactions are extracted automatically using an extension of the method constructed for gas- or liquid-phase reactions. By converting the extracted elementary reaction data to directed graph data, MD trajectories can be efficiently mapped onto reaction pathways using a network analysis tool. To demonstrate the power of the method, it was applied to the steam reforming of methane on the Rh(111) surface and to propane reforming on the Pt(111) and Pt(3)Sn(111) surfaces. We discover new energetically favorable pathways for both reactions and reproduce the experimentally-observed materials-dependence of the surface reaction activity and the selectivity for the propane reforming reactions. The Royal Society of Chemistry 2022-08-17 /pmc/articles/PMC9382359/ /pubmed/36090391 http://dx.doi.org/10.1039/d2ra04343b Text en This journal is © The Royal Society of Chemistry https://creativecommons.org/licenses/by/3.0/ |
spellingShingle | Chemistry Hirai, Hirotoshi Jinnouchi, Ryosuke Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title | Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title_full | Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title_fullStr | Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title_full_unstemmed | Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title_short | Discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
title_sort | discovering surface reaction pathways using accelerated molecular dynamics and network analysis tools |
topic | Chemistry |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9382359/ https://www.ncbi.nlm.nih.gov/pubmed/36090391 http://dx.doi.org/10.1039/d2ra04343b |
work_keys_str_mv | AT hiraihirotoshi discoveringsurfacereactionpathwaysusingacceleratedmoleculardynamicsandnetworkanalysistools AT jinnouchiryosuke discoveringsurfacereactionpathwaysusingacceleratedmoleculardynamicsandnetworkanalysistools |