IMR Press / FBE / Volume 2 / Issue 1 / DOI: 10.2741/E93

Frontiers in Bioscience-Elite (FBE) is published by IMR Press from Volume 13 Issue 2 (2021). Previous articles were published by another publisher on a subscription basis, and they are hosted by IMR Press on imrpress.com as a courtesy and upon agreement with Frontiers in Bioscience.

Open Access Article
Microarray probes and probe sets
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1 Department of Biostatistics, Bioinformatics, and Biomathematics, Georgetown University Medical Center, Washington, DC, 20007, USA

*Author to whom correspondence should be addressed.

Academic Editor: Robert Clarke

Front. Biosci. (Elite Ed) 2010, 2(1), 325–338; https://doi.org/10.2741/E93
Published: 1 January 2010
(This article belongs to the Special Issue Classification and prediction in genomics and proteomics)
Abstract

DNA microarrays have gained wide use in biomedical research by simultaneously monitoring the expression levels of a large number of genes. The successful implementation of DNA microarray technologies requires the development of methods and techniques for the fabrication of microarrays, the selection of probes to represent genes, the quantification of hybridization, and data analysis. In this paper, we concentrate on probes that are either spotted or synthesized on the glass slides through several aspects: sources of probes, the criteria for selecting probes, tools available for probe selections, and probes used in commercial microarray chips. We then provide a detailed review of one type of DNA microarray: Affymetrix GeneChips, discuss the need to re-annotate probes, review different methods for regrouping probes into probe sets, and compare various redefinitions through public available datasets.

Keywords
Microarray
GeneChips
Probes
Probe sets
Review
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