Optimal amounts of fluorescent dye improve expression microarray results in tumor specimens.

Abstract

Expression microarrays have great potential for clinical use but variability of the results represents a challenge for reliable practical application. The amount of fluorescent dye used in microarray experiments is a significant source of variability that has not been systematically studied. Here we demonstrate that the quantity of Cy3 dye affects microarray results performed on tumor specimens. Signal-to-noise ratios and coefficients of variation are significantly improved by increasing Cy3 to 150-180 pmol, but any further increase does not improve the data. In conclusion, optimal amounts of dye reduce variability and improve reliability of expression microarray experiments.

• Authors: Ali Naderi, Ahmed A Ahmed, Yanzhong Wang, James D Brenton, Carlos Caldas
• Journal: Molecular biotechnology (Mol Biotechnol) Vol. 30 Issue 2 Pg. 151-4 (Jun 2005) ISSN: 1073-6085 [Print] Switzerland
• PMID: 15920285 (Publication Type: Journal Article, Research Support, Non-U.S. Gov't)

Chemical References

• Carbocyanines
• Fluorescent Dyes
• cyanine dye 3

Topics

• Carbocyanines (standards)
• Fluorescent Dyes (standards)
• Gene Expression Profiling (methods, standards)
• Humans
• Neoplasms (genetics)
• Oligonucleotide Array Sequence Analysis (standards)