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 …

Genetic algorithm optimization of a master equation cyclopentane oxidation model against time-resolved speciation experiments

M Demireva, J Oreluk, AL Dewyer, J Zádor… - Combustion and …, 2023 - Elsevier
We demonstrate a new approach to constraining rate coefficients in complex chemical
reaction mechanisms by master equation (ME) modeling with genetic algorithm optimization …

Automatic validation and analysis of predictive models by means of big data and data science

E Ramalli, T Dinelli, A Nobili, A Stagni, B Pernici… - Chemical Engineering …, 2023 - Elsevier
Validation is an essential procedure in the development of a predictive model in several
engineering fields. In addition, recent data analysis techniques and the increasing …

Explaining the interaction of mangiferin with MMP-9 and NF-ƙβ: A computational study

A Gálvez-Rodríguez, A Ferino-Pérez… - Journal of Molecular …, 2022 - Springer
Mangiferin is a glycosylated xanthone widely distributed in nature, which exhibits wide
pharmacological activities, highlighting its anti-cancer properties. Mangiferin interferes with …

Towards theoretical spectroscopy with error bars: systematic quantification of the structural sensitivity of calculated spectra

TG Bergmann, MO Welzel, CR Jacob - Chemical Science, 2020 - pubs.rsc.org
Molecular spectra calculated with quantum-chemical methods are subject to a number of
uncertainties (eg, errors introduced by the computational methodology) that hamper the …

Representing model discrepancy in bound-to-bound data collaboration

W Li, A Hegde, J Oreluk, A Packard… - SIAM/ASA Journal on …, 2021 - SIAM
We extend the existing methodology in bound-to-bound data collaboration (B2BDC), an
optimization-based deterministic uncertainty quantification (UQ) framework, to explicitly take …

Heuristics and uncertainty quantification in rational and inverse compound and catalyst design

T Weymuth, M Reiher - arXiv preprint arXiv:2203.09315, 2022 - arxiv.org
The goal of inverse (quantum) approaches is to devise methods and approaches capable of
efficiently searching chemical space in such a way that the design of novel materials and …

[图书][B] Role of experimental data in validating and quantifying uncertainties in complex physical systems

JR Oreluk - 2019 - search.proquest.com
Abstract Model validation is the process of evaluating how well a computational model
represents reality. That is to say, does the model make predictions that adequately agree …

[PDF][PDF] Fast and Accurate Electronic Structure Models for Complex Chemical Reactions

T Husch - 2018 - research-collection.ethz.ch
Electronic structure models are well suited for elucidating chemical reaction mechanisms
when free energy differences between intermediate and transition state structures are …