ArticleFrontiers in molecular biosciences2022
Comparison of extraction methods for intracellular metabolomics of human tissues.
Article in Frontiers in molecular biosciences, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
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- Untargeted mass spectrometry to investigate ocean acidification inThe Analyst · 2026Article
- Association Between Human Milk-Targeted Metabolites and Maternal Characteristics: Targeted Metabolomic Profiling of Human Milk in Low-Income Settings.Metabolites · 2026Article
- Targeted metabolomics of postmortem human cardiac tissue using the Biocrates MxP Quant 500 kit.PloS one · 2026Article
- Integrating metabolomics and microbiomics reveals the microbial and metabolic profiles of fermented Lentinus polychrous Lév sausages.Metabolomics : Official journal of the Metabolomic Society · 2025Article
- Streamlined extraction of nucleic acids and metabolites from low- and high-biomass samples using isopropanol and matrix tubes.Microbiology spectrum · 2025Article
- Biological and Metabolomic Characterization of Human Dermal Fibroblasts and Mesenchymal Stem Cells Derived from Human Dental Pulp and Adipose Tissue: a Pilot Comparative Study.Stem cell reviews and reports · 2025Article
- Metabolomic profiles of the silage digested in ruminal fermentation differentiated by various solvent extraction.Journal of advanced veterinary and animal research · 2025Article
- Development of plant extracts as substrates for untargeted transporter substrate identification inFrontiers in plant science · 2025Article
- Extraction Methods for Brain Biopsy NMR Metabolomics: Balancing Metabolite Stability and Protein Precipitation.Metabolites · 2024Article
- Comparing the Extraction Performance in Mouse Plasma of Different Biphasic Methods for Polar and Nonpolar Compounds.Journal of proteome research · 2024Article
- Sphinganine recruits TLR4 adaptors in macrophages and promotes inflammation in murine models of sepsis and melanoma.Nature communications · 2024Article
- A single-sample workflow for joint metabolomic and proteomic analysis of clinical specimens.Clinical proteomics · 2024Article
- Challenges and recent advances in quantitative mass spectrometry-based metabolomics.Analytical science advances · 2024Review
- Applications of chromatographic methods in metabolomics: A review.Journal of chromatography. B, Analytical technologies in the biomedical and life sciences · 2024Review
- Article
- Metabolomics in Preclinical Drug Safety Assessment: Current Status and Future Trends.Metabolites · 2024Review
- Soft-sensor model development for CHO growth/production, intracellular metabolite, and glycan predictions.Frontiers in molecular biosciences · 2024Article
- Article
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11 authors.
Funding
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Abstract
Analyses of metabolic compounds inside cells or tissues provide high information content since they represent the endpoint of biological information flow and are a snapshot of the integration of many regulatory processes. However, quantification of the abundance of metabolites requires their careful extraction. We present a comprehensive study comparing ten extraction protocols in four human sample types (liver tissue, bone marrow, HL60, and HEK cells) aiming to detect and quantify up to 630 metabolites of different chemical classes. We show that the extraction efficiency and repeatability are highly variable across protocols, tissues, and chemical classes of metabolites. We used different quality metrics including the limit of detection and variability between replicates as well as the sum of concentrations as a global estimate of analytical repeatability of the extraction. The coverage of extracted metabolites depends on the used solvents, which has implications for the design of measurements of different sample types and metabolic compounds of interest. The benchmark dataset can be explored in an easy-to-use, interactive, and flexible online resource (R/shiny app MetaboExtract: http://www.metaboextract.shiny.dkfz.de) for context-specific selection of the optimal extraction method. Furthermore, data processing and conversion functionality underlying the shiny app are accessible as an R package: https://cran.r-project.org/package=MetAlyzer.
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