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Targeted Metabolomics on Rare Primary Cells
08:28

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Published on: February 23, 2024

Genomics-informed approach identifies which cell types regulate the metabolome.

Haim Krupkin1,2, Evin M Padhi2, Daniel Nachun2

  • 1Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, United States.

Bioinformatics (Oxford, England)
|May 29, 2026
PubMed
Summary
This summary is machine-generated.

This study identifies key cell types regulating body-wide metabolite levels. Hepatocytes are the main regulators, but a multi-gene approach also reveals novel associations with beta cells.

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A Method for Measuring Metabolism in Sorted Subpopulations of Complex Cell Communities Using Stable Isotope Tracing
07:41

A Method for Measuring Metabolism in Sorted Subpopulations of Complex Cell Communities Using Stable Isotope Tracing

Published on: February 4, 2017

Area of Science:

  • Genetics
  • Metabolomics
  • Cell Biology

Background:

  • Metabolite levels vary by cell type, but the specific regulatory cells are largely unknown.
  • Understanding cell-specific metabolism is crucial for deciphering complex diseases.

Purpose of the Study:

  • To identify specific cell types responsible for regulating metabolite levels throughout the body.
  • To explore novel metabolite-cell type associations using advanced computational methods.

Main Methods:

  • Integration of large-scale metabolite quantitative trait loci (mQTL) datasets (TOPMed, UK Biobank) with single-cell RNA sequencing data (Tabula Sapiens).
  • Application of a multi-gene analysis approach to uncover metabolite-cell type associations.

Main Results:

  • Hepatocytes were identified as the primary regulatory cell type for 94% of analyzed metabolites (385/410).
  • A multi-gene approach identified significantly more metabolite associations with beta cells compared to single-gene methods.
  • A novel association was found between phenylpropanoic acid and beta cells, challenging previous microbiome-centric hypotheses.

Conclusions:

  • Hepatocytes play a dominant role in regulating systemic metabolite concentrations.
  • Advanced multi-gene analysis enhances the discovery of cell-specific metabolic regulation, particularly implicating beta cells in novel ways.
  • These findings provide a framework for understanding cell-type specific metabolic regulation and its implications for health and disease.