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Related Experiment Video

Updated: Jun 22, 2026

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms
09:30

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

Improved procedures to mine data obtained from spotted cDNA arrays.

Andrei D Iacobas1, Marcia Urban, Aldo Massimi

  • 1Department of Neuroscience, Albert Einstein College of Medicine, Bronx, NY 10461, USA. diacobas@aecom.yu.edu

Journal of Biomolecular Techniques : JBT
|June 6, 2009
PubMed
Summary

This study introduces a new method to improve data accuracy in cDNA microarray experiments. The standard gene expression score enhances the identification of gene expression changes, revealing more significant results.

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Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Area of Science:

  • Molecular Biology
  • Genomics
  • Neuroscience

Background:

  • Spotted cDNA technology is widely used for gene expression profiling.
  • Experimental errors can significantly impact the accuracy of cDNA microarray results.
  • Understanding gene expression changes is crucial in cellular and developmental biology.

Purpose of the Study:

  • To address systematic errors affecting spotted cDNA microarray data.
  • To propose a novel experimental strategy and algorithm for enhanced data accuracy.
  • To identify gene expression changes induced by Cx36 transfection in neuroblastoma cells.

Main Methods:

  • Developed a four-step algorithm to correct for systematic errors in cDNA microarray data.
  • Utilized neuroblastoma (N2A) cells and a Cx36-transfected clone for gene expression analysis.

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Detection of Rare Mutations in CtDNA Using Next Generation Sequencing
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Last Updated: Jun 22, 2026

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms
09:30

Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms

Published on: September 13, 2018

Detection of Rare Mutations in CtDNA Using Next Generation Sequencing
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  • Employed a standard gene expression score considering normal variability for robust analysis.

    • Main Results:

    • Initial analysis identified 53 upregulated and 23 downregulated genes with a 1.5-fold change.
    • The standard gene expression score revealed 161 upregulated and 61 downregulated genes post-Cx36 transfection (p < 0.05).
    • The new scoring method significantly increased the detection of gene expression alterations.

    Conclusions:

    • Raw cDNA microarray data require correction for systematic errors to ensure accuracy.
    • The standard gene expression score effectively enhances the identification of experimentally induced gene expression changes.
    • This approach provides a more comprehensive understanding of molecular responses to biological interventions.