ReviewMetabolomics : Official journal of the Metabolomic Society2020
SWATH-MS for metabolomics and lipidomics: critical aspects of qualitative and quantitative analysis.
Review in Metabolomics : Official journal of the Metabolomic Society, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
18 citing papers in PubMed.
- Fast untargeted and targeted high-resolution mass spectrometry workflows for large-scale lipidomics.Analytica chimica acta · 2026Article
- Immunoproteomics: The Evolution from Classical Methods to Emerging Techniques.Methods in molecular biology (Clifton, N.J.) · 2026Review
- Review
- Development and application of GlycanDIA workflow for glycomic analysis.Nature communications · 2025Article
- Recent Developments in Single-Cell Metabolomics by Mass Spectrometry─A Perspective.Journal of proteome research · 2025Review
- Microbiota-Gut-Brain Axis: Mass-Spectrometry-Based Metabolomics in the Study of Microbiome Mediators-Stress Relationship.Biomolecules · 2025Review
- A comprehensive IDA and SWATH-DIA Lipidomics and Metabolomics dataset: SARS-CoV-2 case control study.Scientific data · 2024Article
- MetaboAnalystR 4.0: a unified LC-MS workflow for global metabolomics.Nature communications · 2024Article
- Article
- Q-RAI data-independent acquisition for lipidomic quantitative profiling.Scientific reports · 2023Article
- A Comprehensive Insight and Mechanistic Understanding of the Lipidomic Alterations Associated With DCM.JACC. Asia · 2023Review
- Analysis of Phospholipids in Digestion Using Hybrid IDA and SWATH Acquisition: An Example for Krill Oil.Foods (Basel, Switzerland) · 2023Article
- Ensuring Fact-Based Metabolite Identification in Liquid Chromatography-Mass Spectrometry-Based Metabolomics.Analytical chemistry · 2023Review
- Towards Non-Targeted Screening of Lipid Biomarkers for Improved Equine Anti-Doping.Molecules (Basel, Switzerland) · 2022Review
- A Novel Approach of SWATH-Based Metabolomics Analysis Using the Human Metabolome Database Spectral Library.International journal of molecular sciences · 2022Article
- Achieving Absolute Molar Lipid Concentrations: A Phospholipidomics Cross-Validation Study.Analytical chemistry · 2022Article
- Strategies for structure elucidation of small molecules based on LC-MS/MS data from complex biological samples.Computational and structural biotechnology journal · 2022Review
- Metabolomics for personalized medicine: the input of analytical chemistry from biomarker discovery to point-of-care tests.Analytical and bioanalytical chemistry · 2022Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
introductionWhile liquid chromatography coupled to mass spectrometric detection in the selected reaction monitoring detection mode offers the best quantification sensitivity for omics, the number of target analytes is limited, must be predefined and specific methods developed. Data independent acquisition (DIA), including SWATH using quadrupole time of flight or orbitrap mass spectrometers and generic acquisition methods, has emerged as a powerful alternative technique for quantitative and qualitative analyses since it can cover a wide range of analytes without predefinition.
objectivesHere we review the current state of DIA, SWATH-MS and highlight novel acquisition strategies for metabolomics and lipidomics and opportunities for data analysis tools.
methodDifferent databases were searched for papers that report developments and applications of DIA and in particular SWATH-MS in metabolomics and lipidomics.
resultsDIA methods generate digital sample records that can be mined retrospectively as further knowledge is gained and, with standardized acquisition schemes, used in multiple studies. The different chemical spaces of metabolites and lipids require different specificities, hence different acquisition and data processing approaches must be considered for their analysis.
conclusionsAlthough the hardware and acquisition modes are well defined for SWATH-MS, a major challenge for routine use remains the lack of appropriate software tools capable of handling large datasets and large numbers of analytes.
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Registered trials
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.