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Related Concept Videos

Proteomics01:33

Proteomics

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A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
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Cell Type-specific Gene Expression Profiling in the Mouse Liver
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Identifying Cell-Type-Specific Metabolic Signatures Using Transcriptome and Proteome Analyses.

Nadja Gebert1,2, Shahadat Rahman3, Caroline A Lewis4

  • 1Leibniz Institute on Aging-Fritz Lipmann Institute (FLI), Jena, Germany.

Current Protocols
|September 13, 2021
PubMed
Summary
This summary is machine-generated.

Adult stem cells have unique metabolic needs crucial for tissue regeneration and tumor growth, making them therapeutic targets. This study presents a framework to map these cell-specific metabolic features using omics data.

Keywords:
metabolismproteomestem celltranscriptome

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Area of Science:

  • Cellular Metabolism
  • Stem Cell Biology
  • Regenerative Medicine

Background:

  • Metabolic pathways critically regulate adult stem cell function in tissue regeneration and tumor initiation.
  • Unique metabolic dependencies of adult stem cells present novel therapeutic targets.
  • Advanced omics technologies (metabolomics, proteomics, transcriptomics) are emerging for stem cell metabolism research.

Purpose of the Study:

  • To develop a practical framework for systematic, cell-type-specific metabolic characterization.
  • To identify cell-type-specific metabolic features by integrating transcriptomics and proteomics data.
  • To provide protocols for comprehensive metabolic profiling of stem cells.

Main Methods:

  • Leveraging transcriptomics and proteomics to reconstruct cell identity and metabolic pathways.
  • Developing protocols for cell isolation, transcriptome and proteome analysis, and metabolite profiling.
  • Integrating omics data to map cell-type-specific metabolic signatures.

Main Results:

  • Identification of cell-type-specific metabolic features using integrated omics approaches.
  • Establishment of a versatile workflow applicable to various cell populations and public datasets.
  • Detailed protocols for key experimental steps including cell isolation and omics analyses.

Conclusions:

  • The presented framework enables systematic metabolic characterization of adult stem cells.
  • This approach facilitates the discovery of novel therapeutic targets based on stem cell metabolism.
  • The workflow is adaptable for diverse tissues and compatible with existing biological datasets.