A global optimization perspective on molecular clusters

JMC Marques, FB Pereira… - … of the Royal …, 2017 - royalsocietypublishing.org
Although there is a long history behind the idea of chemical structure, this is a key concept
that continues to challenge chemists. Chemical structure is fundamental to understanding …

ArbAlign: a tool for optimal alignment of arbitrarily ordered isomers using the Kuhn–Munkres algorithm

B Temelso, JM Mabey, T Kubota… - Journal of chemical …, 2017 - ACS Publications
When assessing the similarity between two isomers whose atoms are ordered identically,
one typically translates and rotates their Cartesian coordinates for best alignment and …

Theoretical investigation of the stability of A55-nBn nanoalloys (A, B= Al, Cu, Zn, Ag)

LR da Silva, FO Morais, JPA de Mendonça… - Computational Materials …, 2022 - Elsevier
Nanoalloys have been investigated for a wide range of applications, however, our atomistic
understanding of the physical-chemistry properties is still far from complete as quantum-size …

An evolutionary algorithm for the global optimization of molecular clusters: application to water, benzene, and benzene cation

JL Llanio-Trujillo, JMC Marques… - The Journal of Physical …, 2011 - ACS Publications
We have developed an evolutionary algorithm (EA) for the global minimum search of
molecular clusters. The EA is able to discover all the putative global minima of water clusters …

Simplified protocol for the calculation of multiconformer transition state theory rate constants applied to tropospheric OH-initiated oxidation reactions

LP Viegas - The Journal of Physical Chemistry A, 2021 - ACS Publications
Chemical kinetics plays a fundamental role in the understanding and modeling of
tropospheric chemical processes, one of the most important being the atmospheric …

[HTML][HTML] Gas-phase OH-oxidation of 2-butanethiol: Multiconformer transition state theory rate constant with constrained transition state randomization

LP Viegas - Chemical Physics Letters, 2022 - Elsevier
The prediction of transition state (TS) geometries is crucial for the discovery of reaction
mechanisms and calculation of accurate rate constants via TS theory (TST). The existence of …

Reliability of semiempirical and DFTB methods for the global optimization of the structures of nanoclusters

BRL Galvao, LP Viegas, DR Salahub… - Journal of Molecular …, 2020 - Springer
In this work, we explore the possibility of using computationally inexpensive electronic
structure methods, such as semiempirical and DFTB calculations, for the search of the global …

A new active learning approach for global optimization of atomic clusters

MP Lourenco, BRL Galvao, L Barrios Herrera… - Theoretical Chemistry …, 2021 - Springer
In catalysis, an accurate structural elucidation of molecules, atomic clusters, nanoparticles
and solid surfaces is required to understand chemical processes. Therefore, an efficient and …

A Multiconformational Transition State Theory Approach to OH Tropospheric Degradation of Fluorotelomer Aldehydes

LP Viegas - ChemPhysChem, 2023 - Wiley Online Library
Experimental work on the OH‐initiated oxidation reactions of fluorotelomer aldehydes
(FTALs) strongly suggests that the respective rate coefficients do not depend on the size of …

The complex build algorithm to set up starting structures of lanthanoid complexes with stereochemical control for molecular modeling

GHL Munguba, GA Urquiza-Carvalho, FT Silva… - Scientific Reports, 2021 - nature.com
When handling metallic centers of higher coordination numbers, one is commonly deluded
with the presumption that any assembled metal complex geometry (including a …