[HTML][HTML] Software tools and approaches for compound identification of LC-MS/MS data in metabolomics

I Blaženović, T Kind, J Ji, O Fiehn - Metabolites, 2018 - mdpi.com
The annotation of small molecules remains a major challenge in untargeted mass
spectrometry-based metabolomics. We here critically discuss structured elucidation …

Comprehensive investigation of pathway enrichment methods for functional interpretation of LC–MS global metabolomics data

Y Lu, Z Pang, J Xia - Briefings in Bioinformatics, 2023 - academic.oup.com
Background: Global or untargeted metabolomics is widely used to comprehensively
investigate metabolic profiles under various pathophysiological conditions such as …

[HTML][HTML] The METLIN small molecule dataset for machine learning-based retention time prediction

X Domingo-Almenara, C Guijas, E Billings… - Nature …, 2019 - nature.com
Abstract Machine learning has been extensively applied in small molecule analysis to
predict a wide range of molecular properties and processes including mass spectrometry …

Prediction of analyte retention time in liquid chromatography

PR Haddad, M Taraji, R Szücs - Analytical Chemistry, 2020 - ACS Publications
Scope and Layout of This Review. This review addresses the approaches used to predict
chromatographic retention time in a range of liquid chromatographic techniques, with a …

[HTML][HTML] Annotation: a computational solution for streamlining metabolomics analysis

X Domingo-Almenara, JR Montenegro-Burke… - Analytical …, 2018 - ncbi.nlm.nih.gov
Metabolite identification is still considered an imposing bottleneck in liquid chromatography
mass spectrometry (LC/MS) untargeted metabolomics. The identification workflow usually …

[HTML][HTML] Characterization of advanced wastewater treatment with ozone and activated carbon using LC-HRMS based non-target screening with automated trend …

JE Schollée, J Hollender, CS McArdell - Water Research, 2021 - Elsevier
Advanced treatment is increasingly being applied to improve abatement of micropollutants
in wastewater effluent and reduce their load to surface waters. In this study, non-target …

Variation in root exudate composition influences soil microbiome membership and function

VA Seitz, BB McGivern, RA Daly… - Applied and …, 2022 - Am Soc Microbiol
Root exudation is one of the primary processes that mediate interactions between plant
roots, microorganisms, and the soil matrix, yet the mechanisms by which exudation alters …

Autonomous METLIN-guided in-source fragment annotation for untargeted metabolomics

X Domingo-Almenara, JR Montenegro-Burke… - Analytical …, 2019 - ACS Publications
Computational metabolite annotation in untargeted profiling aims at uncovering neutral
molecular masses of underlying metabolites and assign those with putative identities …

Absolute quantitative lipidomics reveals lipidome-wide alterations in aging brain

J Tu, Y Yin, M Xu, R Wang, ZJ Zhu - Metabolomics, 2018 - Springer
Introduction The absolute quantitation of lipids at the lipidome-wide scale is a challenge but
plays an important role in the comprehensive study of lipid metabolism. Objectives We aim …

Improving Quantitative Accuracy in Nontargeted Lipidomics by Evaluating Adduct Formation

LM Bishop, T Shen, O Fiehn - Analytical Chemistry, 2023 - ACS Publications
For large-scale lipidomic analyses, accurate and reproducible quantification of endogenous
lipids is crucial for comparing results within and across studies. Many lipids present in liquid …