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Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
[Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we int...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
American Chemical Society
2023
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10336973/ https://www.ncbi.nlm.nih.gov/pubmed/37339425 http://dx.doi.org/10.1021/acs.jcim.3c00597 |
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author | Gallegos, Miguel Martín Pendás, Ángel |
author_facet | Gallegos, Miguel Martín Pendás, Ángel |
author_sort | Gallegos, Miguel |
collection | PubMed |
description | [Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we introduced a machine learning (ML) model for the computation of QTAIM charges of C, H, O, and N atoms at a fraction of the conventional computational cost. Unfortunately, the independent nature of the atomistic predictions implies that the raw atomic charges may not necessarily reconstruct the exact molecular charge, limiting the applicability of the latter in the chemistry realm. Trying to solve such an inconvenience, we introduce NNAIMGUI, a user-friendly code which combines the inferring abilities of ML with an equilibration strategy to afford adequately behaved partial charges. The performance of this approach is put to the test in a variety of scenarios including interpolation and extrapolation regimes (e.g chemical reactions) as well as large systems. The results of this work prove that the equilibrated charges retain the chemically accurate behavior reproduced by the ML models. Furthermore, NNAIMGUI is a fully flexible architecture allowing users to train and use tailor-made models targeted at any atomic property of choice. In this way, the GUI-interfaced code, equipped with visualization utilities, makes the computation of real-space atomic properties much more appealing and intuitive, paving the way toward the extension of QTAIM related descriptors beyond the theoretical chemistry community. |
format | Online Article Text |
id | pubmed-10336973 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | American Chemical Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-103369732023-07-13 Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges Gallegos, Miguel Martín Pendás, Ángel J Chem Inf Model [Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we introduced a machine learning (ML) model for the computation of QTAIM charges of C, H, O, and N atoms at a fraction of the conventional computational cost. Unfortunately, the independent nature of the atomistic predictions implies that the raw atomic charges may not necessarily reconstruct the exact molecular charge, limiting the applicability of the latter in the chemistry realm. Trying to solve such an inconvenience, we introduce NNAIMGUI, a user-friendly code which combines the inferring abilities of ML with an equilibration strategy to afford adequately behaved partial charges. The performance of this approach is put to the test in a variety of scenarios including interpolation and extrapolation regimes (e.g chemical reactions) as well as large systems. The results of this work prove that the equilibrated charges retain the chemically accurate behavior reproduced by the ML models. Furthermore, NNAIMGUI is a fully flexible architecture allowing users to train and use tailor-made models targeted at any atomic property of choice. In this way, the GUI-interfaced code, equipped with visualization utilities, makes the computation of real-space atomic properties much more appealing and intuitive, paving the way toward the extension of QTAIM related descriptors beyond the theoretical chemistry community. American Chemical Society 2023-06-20 /pmc/articles/PMC10336973/ /pubmed/37339425 http://dx.doi.org/10.1021/acs.jcim.3c00597 Text en © 2023 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by/4.0/Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Gallegos, Miguel Martín Pendás, Ángel Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges |
title | Developing a User-Friendly
Code for the Fast Estimation
of Well-Behaved Real-Space Partial Charges |
title_full | Developing a User-Friendly
Code for the Fast Estimation
of Well-Behaved Real-Space Partial Charges |
title_fullStr | Developing a User-Friendly
Code for the Fast Estimation
of Well-Behaved Real-Space Partial Charges |
title_full_unstemmed | Developing a User-Friendly
Code for the Fast Estimation
of Well-Behaved Real-Space Partial Charges |
title_short | Developing a User-Friendly
Code for the Fast Estimation
of Well-Behaved Real-Space Partial Charges |
title_sort | developing a user-friendly
code for the fast estimation
of well-behaved real-space partial charges |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10336973/ https://www.ncbi.nlm.nih.gov/pubmed/37339425 http://dx.doi.org/10.1021/acs.jcim.3c00597 |
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