Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Metabolomics across scales: from single cells to population studies.

Nature·2026
Same author

An ancient monoaminergic signaling system coordinates contractility in a nerveless sponge.

bioRxiv : the preprint server for biology·2026
Same author

Systematic analyses of lipid mobilization by human lipid transfer proteins.

Nature·2026
Same author

PRDM16 Regulates Prostate Cancer Cell Dormancy and Prevents Bone Metastatic Outgrowth.

Cancer research·2025
Same author

Spatial metabolomics and multiomics integration for breakthroughs in precision medicine for kidney disease.

Nature reviews. Nephrology·2025
Same author

mzPeak: Designing a Scalable, Interoperable, and Future-Ready Mass Spectrometry Data Format.

Journal of proteome research·2025

Related Experiment Video

Updated: Sep 8, 2025

A Strategy for Sensitive, Large Scale Quantitative Metabolomics
14:18

A Strategy for Sensitive, Large Scale Quantitative Metabolomics

Published on: May 27, 2014

21.1K

HT SpaceM: A high-throughput and reproducible method for small-molecule single-cell metabolomics.

Jeany Delafiori1, Mohammed Shahraz1, Andreas Eisenbarth2

  • 1Molecular Systems Biology Unit, European Molecular Biology Laboratory, Heidelberg, Baden-Württemberg 69117, Germany; Department of Pharmacology, University of California, San Diego, La Jolla, CA 92093, USA.

Cell
|September 6, 2025
PubMed
Summary

High-throughput single-cell metabolomics (HT SpaceM) enables robust analysis of over 140,000 cells, revealing metabolic heterogeneity and cell-type specific markers for cancer research.

Keywords:
LC-MS/MSMALDI-imaging mass spectrometryNCI-60SpaceMco-abundanceheterogeneityhigh-throughputreproducibilitysingle-cell metabolomicssmall-molecule metabolites

More Related Videos

Microprobe Capillary Electrophoresis Mass Spectrometry for Single-cell Metabolomics in Live Frog Xenopus laevis Embryos
12:16

Microprobe Capillary Electrophoresis Mass Spectrometry for Single-cell Metabolomics in Live Frog Xenopus laevis Embryos

Published on: December 22, 2017

20.3K
Integrated Cell Manipulation Platform Coupled with the Single-probe for Mass Spectrometry Analysis of Drugs and Metabolites in Single Suspension Cells
07:55

Integrated Cell Manipulation Platform Coupled with the Single-probe for Mass Spectrometry Analysis of Drugs and Metabolites in Single Suspension Cells

Published on: June 21, 2019

5.8K

Related Experiment Videos

Last Updated: Sep 8, 2025

A Strategy for Sensitive, Large Scale Quantitative Metabolomics
14:18

A Strategy for Sensitive, Large Scale Quantitative Metabolomics

Published on: May 27, 2014

21.1K
Microprobe Capillary Electrophoresis Mass Spectrometry for Single-cell Metabolomics in Live Frog Xenopus laevis Embryos
12:16

Microprobe Capillary Electrophoresis Mass Spectrometry for Single-cell Metabolomics in Live Frog Xenopus laevis Embryos

Published on: December 22, 2017

20.3K
Integrated Cell Manipulation Platform Coupled with the Single-probe for Mass Spectrometry Analysis of Drugs and Metabolites in Single Suspension Cells
07:55

Integrated Cell Manipulation Platform Coupled with the Single-probe for Mass Spectrometry Analysis of Drugs and Metabolites in Single Suspension Cells

Published on: June 21, 2019

5.8K

Area of Science:

  • Metabolomics
  • Mass Spectrometry
  • Cancer Biology

Background:

  • Current single-cell metabolomics (SCM) methods face challenges in metabolite detection, throughput, and reproducibility.
  • Understanding cellular metabolism at a single-cell level is crucial for dissecting biological complexity and heterogeneity.

Purpose of the Study:

  • To develop a high-throughput, reproducible SCM method for comprehensive metabolic profiling.
  • To establish a unified framework for SCM data analysis, including quality control and functional interpretation.
  • To investigate metabolic heterogeneity and identify metabolic markers in cancer cell lines.

Main Methods:

  • Developed HT SpaceM, integrating cell preparation, matrix-assisted laser desorption ionization (MALDI) imaging mass spectrometry (MS), and batch processing.
  • Validated metabolite detection using bulk liquid chromatography tandem MS (LC-MS/MS).
  • Applied the framework to profile over 140,000 cells from various cancer cell lines and control samples.

Main Results:

  • Detected 73 small-molecule metabolites with high reproducibility and single-cell resolution.
  • Identified cell-type specific metabolic markers and metabolic hubs across nine NCI-60 cancer cell lines.
  • Observed coordinated metabolic changes and intra-condition heterogeneity upon glycolysis inhibition in HeLa cells.

Conclusions:

  • HT SpaceM provides a robust and scalable solution for large-scale single-cell metabolomics.
  • The method facilitates the discovery of metabolic insights beyond population averages, crucial for understanding disease mechanisms.
  • This work offers a framework for advancing SCM research and its application in biomedical studies.