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Related Experiment Videos

A public database for gene expression in human cancers.

A Lal1, A E Lash, S F Altschul

  • 1Department of Pathology, Duke University Medical Center, Durham, North Carolina 27710, USA.

Cancer Research
|December 20, 1999
PubMed
Summary
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SAGEmap is a public database for analyzing human gene expression. It identified key genes involved in glioblastoma, including those related to angiogenesis and cell cycle, by comparing tumor and normal brain tissue.

Area of Science:

  • Genomics
  • Bioinformatics
  • Cancer Research

Background:

  • The Cancer Genome Anatomy Project developed SAGEmap, a public database for human gene expression data.
  • Serial Analysis of Gene Expression (SAGE) quantifies transcript levels in various human tissues.
  • SAGEmap facilitates comparison of gene expression profiles between different tissue libraries.

Purpose of the Study:

  • To introduce SAGEmap as a resource for gene expression analysis.
  • To demonstrate the utility of SAGEmap by comparing glioblastoma and normal brain tissue.
  • To identify differentially expressed genes in human glioblastomas.

Main Methods:

  • Utilized the SAGEmap database for data retrieval and analysis.
  • Employed Serial Analysis of Gene Expression (SAGE) for transcript quantification.

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  • Compared gene expression profiles between human glioblastoma and normal brain white matter tissues.

    • Main Results:

    • Of 47,174 unique transcripts, 471 (1.0%) showed >5-fold differential expression (P<0.001).
    • Identified genes with functions related to angiogenesis, transcription, and cell cycle.
    • These findings are consistent with the known biological characteristics of glioblastomas.

    Conclusions:

    • SAGEmap provides a valuable platform for comparative gene expression analysis.
    • The study identified specific genes and pathways dysregulated in glioblastomas.
    • This highlights the potential of SAGEmap in advancing cancer genomics research.