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Journal of Clinical Microbiology, May 2000, p. 1901-1908, Vol. 38, No. 5
0095-1137/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.

Technical Assessment of the Affymetrix Yeast Expression GeneChip YE6100 Platform in a Heterologous Model of Genes That Confer Resistance to Antimalarial Drugs in Yeast

Martin E. Nau,1 Lyndal R. Emerson,2 Rodger K. Martin,3 Dennis E. Kyle,3 Dyann F. Wirth,2 and Maryanne Vahey4,*

Henry M. Jackson Foundation for the Advancement of Military Medicine, Rockville, Maryland1; Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, Massachusetts2; and Division of Experimental Therapeutics3 and Division of Retrovirology,4 Walter Reed Army Institute of Research, Washington, D.C.

Received 4 January 2000/Returned for modification 17 February 2000/Accepted 24 February 2000

The advent of high-density gene array technology has revolutionized approaches to drug design, development, and characterization. At the laboratory level, the efficient, consistent, and dependable exploitation of this complex technology requires the stringent standardization of protocols and data analysis platforms. The Affymetrix YE6100 expression GeneChip platform was evaluated for its performance in the analysis of both global (6,000 yeast genes) and targeted (three pleiotropic multidrug resistance genes of the ATP binding cassette transporter family) gene expression in a heterologous yeast model system in the presence and absence of the antimalarial drug chloroquine. Critical to the generation of consistent data from this platform are issues involving the preparation of the specimen, use of appropriate controls, accurate assessment of experiment variance, strict adherence to optimized enzymatic and hybridization protocols, and use of sophisticated bioinformatics tools for data analysis.

* Corresponding author. Mailing address: Gene Array Laboratory, Walter Reed Army Institute of Research, 1600 East Gude Dr., Rockville, MD 20850. Phone: (301) 251-5058. Fax: (301) 762-7460. E-mail: mvahey{at}pasteur.hjf.org.

Journal of Clinical Microbiology, May 2000, p. 1901-1908, Vol. 38, No. 5
0095-1137/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.


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