Quantum chemistry calculations for metabolomics: Focus review

RM Borges, SM Colby, S Das, AS Edison… - Chemical …, 2021 - ACS Publications
A primary goal of metabolomics studies is to fully characterize the small-molecule
composition of complex biological and environmental samples. However, despite advances …

Universal QM/MM approaches for general nanoscale applications

KS Csizi, M Reiher - Wiley Interdisciplinary Reviews …, 2023 - Wiley Online Library
Quantum mechanics/molecular mechanics (QM/MM) hybrid models allow one to address
chemical phenomena in complex molecular environments. Whereas this modeling approach …

Chemoton 2.0: autonomous exploration of chemical reaction networks

JP Unsleber, SA Grimmel, M Reiher - Journal of Chemical Theory …, 2022 - ACS Publications
Fueled by advances in hardware and algorithm design, large-scale automated explorations
of chemical reaction space have become possible. Here, we present our approach to an …

AutoMeKin2021: An open‐source program for automated reaction discovery

E Martínez‐Núñez, GL Barnes… - Journal of …, 2021 - Wiley Online Library
AutoMeKin2021 is an updated version of tsscds2018, a program for the automated
discovery of reaction mechanisms (J. Comput. Chem. 2018, 39, 1922). This release features …

Autonomous reaction network exploration in homogeneous and heterogeneous catalysis

M Steiner, M Reiher - Topics in Catalysis, 2022 - Springer
Autonomous computations that rely on automated reaction network elucidation algorithms
may pave the way to make computational catalysis on a par with experimental research in …

Expansive quantum mechanical exploration of chemical reaction paths

A Baiardi, SA Grimmel, M Steiner… - Accounts of chemical …, 2021 - ACS Publications
Conspectus Quantum mechanical methods have been well-established for the elucidation of
reaction paths of chemical processes and for the explicit dynamics of molecular systems …

A map of mass spectrometry-based in silico fragmentation prediction and compound identification in metabolomics

CA Krettler, GG Thallinger - Briefings in Bioinformatics, 2021 - academic.oup.com
Metabolomics, the comprehensive study of the metabolome, and lipidomics—the large-scale
study of pathways and networks of cellular lipids—are major driving forces in enabling …

Molecule‐Specific Uncertainty Quantification in Quantum Chemical Studies

M Reiher - Israel Journal of Chemistry, 2022 - Wiley Online Library
Solving the electronic Schrödinger equation for changing nuclear coordinates provides
access to the Born‐Oppenheimer potential energy surface. This surface is the key starting …

[HTML][HTML] SCINE—Software for chemical interaction networks

T Weymuth, JP Unsleber, PL Türtscher… - The Journal of …, 2024 - pubs.aip.org
The software for chemical interaction networks (SCINE) project aims at pushing the frontier
of quantum chemical calculations on molecular structures to a new level. While calculations …

New tools for taming complex reaction networks: the unimolecular decomposition of indole revisited

D Garay-Ruiz, M Álvarez-Moreno, C Bo… - ACS Physical …, 2022 - ACS Publications
The level of detail attained in the computational description of reaction mechanisms can be
vastly improved through tools for automated chemical space exploration, particularly for …