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Related Experiment Videos

Global functional profiling of gene expression.

Sorin Draghici1, Purvesh Khatri, Rui P Martins

  • 1Department of Computer Science, Wayne State University, 5143 Cass Avenue, Detroit, MI 48202, USA. sod@cs.wayne.edu

Genomics
|March 7, 2003
PubMed
Summary
This summary is machine-generated.

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Onto-Express (OE) is a novel tool that automatically translates gene lists from microarray experiments into functional profiles. This approach aids researchers in understanding biological phenomena and disease mechanisms more efficiently.

Area of Science:

  • Bioinformatics
  • Genomics
  • Systems Biology

Background:

  • Microarray experiments yield lists of differentially regulated genes.
  • Interpreting these gene lists requires extensive literature and database searches.
  • Understanding the biological context of gene expression changes is crucial.

Purpose of the Study:

  • To develop a novel tool, Onto-Express (OE), for automated functional analysis of gene lists.
  • To translate lists of differentially regulated genes into meaningful biological insights.
  • To characterize the functional impact of specific biological conditions.

Main Methods:

  • Onto-Express (OE) utilizes Gene Ontology (GO) terms to construct functional profiles.
  • OE analyzes categories including biochemical function, biological process, cellular role, cellular component, molecular function, and chromosome location.

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  • Statistical significance is calculated for each functional category.

    • Main Results:

    • OE successfully translated gene lists into comprehensive functional profiles.
    • Analysis of two breast cancer datasets validated OE's utility.
    • OE identified known biological processes and uncovered novel mechanisms.

    Conclusions:

    • Onto-Express (OE) provides an efficient and automated method for gene list functional analysis.
    • OE facilitates a deeper understanding of biological phenomena from high-throughput experiments.
    • This tool aids in discovering novel biological mechanisms, particularly in disease research.