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Journal of the Association for Research in Otolaryngology

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01-03-2005 | Original Article

Differential Expression of Genes within the Cochlea as Defined by a Custom Mouse Inner Ear Microarray

Authors: Ken A. Morris, Einat Snir, Celine Pompeia, Irina V. Koroleva, Bechara Kachar, Yoshihide Hayashizaki, Piero Carninci, M. Bento Soares, Kirk W. Beisel

Published in: Journal of the Association for Research in Otolaryngology | Issue 1/2005

Abstract

Microarray analyses have contributed greatly to the rapid understanding of functional genomics through the identification of gene networks as well as gene discovery. To facilitate functional genomics of the inner ear, we have developed a mouse inner-ear-pertinent custom microarray chip (CMA-IE1). Nonredundant cDNA clones were obtained from two cDNA library resources: the RIKEN subtracted inner ear set and the NIH organ of Corti library. At least 2000 cDNAs unique to the inner ear were present on the chip. Comparisons were performed to examine the relative expression levels of these unique cDNAs within the organ of Corti, lateral wall, and spiral ganglion. Total RNA samples were obtained from the three cochlear-dissected fractions from adult CF-1 mice. The total RNA was linearly amplified, and a dendrimer-based system was utilized to enhance the hybridization signal. Differentially expressed genes were verified by comparison to known gene expression patterns in the cochlea or by correlation with genes and gene families deduced to be present in the three tissue types. Approximately 22–25% of the genes on the array had significant levels of expression. A number of differentially expressed genes were detected in each tissue fraction. These included genes with known functional roles, hypothetical genes, and various unknown or uncharacterized genes. Four of the differentially expressed genes found in the organ of Corti are linked to deafness loci. None of these are hypothetical or unknown genes.

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Title: Differential Expression of Genes within the Cochlea as Defined by a Custom Mouse Inner Ear Microarray
Authors: Ken A. Morris
Einat Snir
Celine Pompeia
Irina V. Koroleva
Bechara Kachar
Yoshihide Hayashizaki
Piero Carninci
M. Bento Soares
Kirk W. Beisel
Publication date: 01-03-2005
Publisher: Springer-Verlag
Published in: Journal of the Association for Research in Otolaryngology / Issue 1/2005
Print ISSN: 1525-3961
Electronic ISSN: 1438-7573
DOI: https://doi.org/10.1007/s10162-004-5046-x

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Differential Expression of Genes within the Cochlea as Defined by a Custom Mouse Inner Ear Microarray

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