ChemDyME: Kinetically Steered, Automated Mechanism Generation through Combined Molecular Dynamics and Master Equation Calculations

In many scientific fields, there is an interest in understanding the way in which chemical networks evolve. The chemical networks which researchers focus upon have become increasingly complex, and this has motivated the development of automated methods for exploring chemical reactivity or conformati...

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Bibliographic Details
Published in:Journal of chemical theory and computation 2021-08, Vol.17 (8), p.4901-4912
Main Authors: Shannon, Robin J, Martínez-Núñez, Emilio, Shalashilin, Dmitrii V, Glowacki, David R
Format: Article
Language:English
Subjects:
Atmospheric aerosols
Automation
Molecular dynamics
Rate theory
Reaction Mechanisms
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Summary:In many scientific fields, there is an interest in understanding the way in which chemical networks evolve. The chemical networks which researchers focus upon have become increasingly complex, and this has motivated the development of automated methods for exploring chemical reactivity or conformational change in a “black-box” manner, harnessing modern computing resources to automate mechanism discovery. In this work, we present a new approach to automated mechanism generation which couples molecular dynamics and statistical rate theory to automatically find kinetically important reactions and then solve the time evolution of the species in the evolving network. The key to this chemical network mapping through combined dynamics and ME simulation approach is the concept of “kinetic convergence”, whereby the search for new reactions is constrained to those species which are kinetically favorable at the conditions of interest. We demonstrate the capability of the new approach for two systems, a well-studied combustion system and a multiple oxygen addition system relevant to atmospheric aerosol formation.
ISSN:1549-9618
1549-9626
DOI:10.1021/acs.jctc.1c00335