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Related Experiment Videos

Dynamic covariation between gene expression and proteome characteristics.

Mansour Taghavi Azar Sharabiani1, Markku Siermala, Tommi O Lehtinen

  • 1Institute of Medical Technology, FI-33014 University of Tampere, Finland. memata@gmail.com

BMC Bioinformatics
|September 1, 2005
PubMed
Summary

Cellular responses involve dynamic changes in protein properties that mirror gene expression patterns. This fundamental relationship between proteome characteristics and gene expression is key to understanding biological systems in health and disease.

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Area of Science:

  • Biochemistry
  • Systems Biology
  • Bioinformatics

Background:

  • Cells dynamically modulate complex biochemical networks in response to intra- and extracellular signals.
  • Cellular responses to external signals alter gene and protein expression.
  • Investigated correlations between protein parameters and gene expression to find proteome-wide trends.

Purpose of the Study:

  • Identify proteome-wide characteristics indicative of trends common to expressed proteins.
  • Investigate correlations between protein parameters and gene expression patterns.
  • Understand the dynamic relationship between proteome properties and gene expression.

Main Methods:

  • Utilized numerous bioinformatics methods for filtering and merging gene and protein annotation data.

Related Experiment Videos

  • Developed a novel statistical time point-oriented analysis for dynamic correlations in large time series data.
  • Applied the method to microarray datasets from various cell types, organisms, and processes (e.g., human B/T cell stimulation, Drosophila melanogaster lifespan, yeast cell cycle).

    • Main Results:

    • Demonstrated that synthesized protein properties dynamically correlate with gene expression profiles.
    • Found that physicochemical, structural, functional, and localization properties of proteins correlate with gene expression.
    • Observed strong correlations between gene expression and amino acid composition, sequence-derived variables, and gene ontology parameters.

    Conclusions:

    • Protein properties synthesized dynamically correlate with gene expression profiles.
    • Both protein identity/function and physicochemical properties are important in cellular responses.
    • A dynamic relationship between proteome properties and gene expression is fundamental to cellular mechanisms in health and disease.