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Related Experiment Videos

Relating whole-genome expression data with protein-protein interactions.

Ronald Jansen1, Dov Greenbaum, Mark Gerstein

  • 1Department of Molecular Biophysics, Yale University, New Haven, Connecticut 06520, USA.

Genome Research
|January 10, 2002
PubMed
Summary

Yeast protein complex subunits are coexpressed, with permanent complexes showing a strong link to gene expression. Transient complexes show weaker links, but can contain smaller permanent subunits that correlate with expression.

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Area of Science:

  • Molecular Biology
  • Systems Biology
  • Genomics

Background:

  • Protein-protein interactions are fundamental to cellular function.
  • Understanding the link between protein complexes and gene expression is crucial for systems biology.
  • Previous studies have explored gene expression patterns but often lack integration with protein interaction data.

Purpose of the Study:

  • To investigate the relationship between protein-protein interactions and mRNA expression levels in yeast.
  • To determine if subunits of known protein complexes exhibit coexpression.
  • To differentiate the expression-interaction relationship for permanent versus transient protein complexes.

Main Methods:

  • Integration of diverse data sources for yeast.
  • Focus on known protein complexes with defined subunit interactions.

Related Experiment Videos

  • Classification of complexes into permanent and transient categories.
  • Analysis of mRNA expression levels and expression profile similarities.

    • Main Results:

    • Subunits of the same protein complex demonstrate significant coexpression.
    • Permanent complexes (e.g., ribosome, proteasome) show a strong relationship with gene expression.
    • Transient complexes generally exhibit a weaker relationship with gene expression.
    • Subdivision of some transient complexes reveals underlying permanent subunits with strong expression correlation.
    • Aggregated genome-wide data (e.g., yeast two-hybrid) show a weak relationship with gene expression.

    Conclusions:

    • Coexpression of protein complex subunits is a significant biological phenomenon.
    • The stability of protein complexes (permanent vs. transient) influences their relationship with gene expression.
    • Gene expression is a key regulatory factor for permanent protein complexes.
    • Complex cellular machinery can be understood by dissecting into stable, coexpressed units.