ReviewMass spectrometry reviews2023
Eight key rules for successful data-dependent acquisition in mass spectrometry-based metabolomics.
Review in Mass spectrometry reviews, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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Who cites it
57 citing papers in PubMed.
- eCOMET: an R package for evaluating metabolic diversity and enrichment from LC-MS/MS data to test ecological hypotheses from individuals to ecosystems.The New phytologist · 2026Article
- Article
- Mass spectrometry-based metabolomics approaches to interrogate host-microbiome interactions in mammalian systems.Natural product reports · 2026Review
- The Language of Elution: Autoregressive Prediction of the Next Feature in Untargeted LC-HRMS Lipidomics.ArXiv · 2026Article
- Conservation and divergence of UVR8 photoreceptor-mediated UV-B signaling in Marchantia polymorpha.Plant physiology · 2026Article
- Analysis of Appressorium Formation inInsects · 2026Article
- Decoding the Oxylipin Chemical Space Using Ion Identity Molecular Networking.Analytical chemistry · 2026Article
- Chromatography-Free Analysis of Mixtures Using a Two-Dimensional Mass Spectrometry (2DMS)-Enabled Quadrupole Time-of-Flight (QToF) Analyzer.Analytical chemistry · 2026Article
- Identifying Food Packaging Migrants: Current Analytical Capabilities, Challenges, and Future Prospects.Comprehensive reviews in food science and food safety · 2026Review
- Listening to Cellular Whispers through Glycosphingolipids: A Comprehensive Review of Recent Advancements in Glycosphingolipid Analysis and Annotation.Analytical chemistry · 2026Review
- GNPS Feature-Based Molecular Networking as a Tool to Visualize Metabolic Toxicity from Drug-Drug Interactions: A Case Study with Methamphetamine and Ethanol.Analytical chemistry · 2026Article
- Comprehensive LC-MS Metabolomics Data Processing with notame R/Bioconductor Package.Methods in molecular biology (Clifton, N.J.) · 2026Article
- A recent ash dieback infection neither affects emerald ash borer performance nor triggers a substantial systemic phytochemical defense response in European ash.Journal of pest science · 2026Article
- A plasma metabolite-based test to detect minimal residual disease in post-surgery patients with colorectal cancer.iScience · 2025Article
- Proteomics and bioinformatics guided discovery of microalgal multifunctional peptides for novel nutraceutical applications.Bioprocess and biosystems engineering · 2025Article
- Metabolome informs about the chemical exposome and links to brain health.Environment international · 2025Review
- Revisiting In-Gas Transformations of Quinate Conjugates Through the LC-qTOF-MS and Molecular Networking Topology.Rapid communications in mass spectrometry : RCM · 2025Article
- Machine Learning-Driven Insights in Cancer Metabolomics: From Subtyping to Biomarker Discovery and Prognostic Modeling.Metabolites · 2025Review
- Improving Spectral Similarity and Molecular Network Reliability through Noise Signal Filtering in MS/MS Spectra.Analytical chemistry · 2025Article
- Integrating metabolite-based molecular networking with database matching and LC-MS-guided targeted isolation for the discovery of novel chemical constituents: application to Euphorbia helioscopia L.Analytical and bioanalytical chemistry · 2025Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In recent years, metabolomics has emerged as a pivotal approach for the holistic analysis of metabolites in biological systems. The rapid progress in analytical equipment, coupled to the rise of powerful data processing tools, now provides unprecedented opportunities to deepen our understanding of the relationships between biochemical processes and physiological or phenotypic conditions in living organisms. However, to obtain unbiased data coverage of hundreds or thousands of metabolites remains a challenging task. Among the panel of available analytical methods, targeted and untargeted mass spectrometry approaches are among the most commonly used. While targeted metabolomics usually relies on multiple-reaction monitoring acquisition, untargeted metabolomics use either data-independent acquisition (DIA) or data-dependent acquisition (DDA) methods. Unlike DIA, DDA offers the possibility to get real, selective MS/MS spectra and thus to improve metabolite assignment when performing untargeted metabolomics. Yet, DDA settings are more complex to establish than DIA settings, and as a result, DDA is more prone to errors in method development and application. Here, we present a tutorial which provides guidelines on how to optimize the technical parameters essential for proper DDA experiments in metabolomics applications. This tutorial is organized as a series of rules describing the impact of the different parameters on data acquisition and data quality. It is primarily intended to metabolomics users and mass spectrometrists that wish to acquire both theoretical background and practical tips for developing effective DDA methods.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.