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Related Experiment Videos

Effects of atmospheric ozone on microarray data quality.

Thomas L Fare1, Ernest M Coffey, Hongyue Dai

  • 1Rosetta Inpharmatics LLC, 12040 115th Avenue NE, Kirkland, Washington 98034, USA.

Analytical Chemistry
|November 25, 2003
PubMed
Summary
This summary is machine-generated.

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Ozone exposure causes data anomalies in DNA microarrays, affecting fluorescent signals. Keeping laboratory ozone levels below 2 ppb is crucial for reliable microarray results.

Area of Science:

  • Molecular Biology
  • Environmental Science
  • Biotechnology

Background:

  • Data anomalies in DNA microarray experiments can compromise fluorescent signal uniformity and reproducibility.
  • Previous studies have not fully elucidated the environmental factors contributing to such anomalies.

Purpose of the Study:

  • To identify the root cause of observed data anomalies in DNA microarray experiments.
  • To investigate the impact of environmental factors on fluorescent signal integrity.

Main Methods:

  • Experimental analysis of microarray production and scanning processes.
  • Monitoring of ozone levels and correlation with batch effects.
  • Controlled exposure of microarrays to varying ozone concentrations.

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Main Results:

  • A batch process anomaly was localized to posthybridization stringency washes.
  • Ozone levels were highly correlated with the observed batch effect.
  • Cyanine dyes like Cy5 and Alexa 647 are susceptible to low ozone levels (5-10 ppb), while Cy3 and Alexa 555 require higher levels (>100 ppb).

Conclusions:

  • Ozone is the root cause of data anomalies affecting fluorescent signals in DNA microarrays.
  • Specific cyanine dyes exhibit differential sensitivity to ozone exposure.
  • Maintaining laboratory ozone levels below 2 ppb is recommended for high-quality microarray data.