Identification of rat lung--prominent genes by a parallel DNA microarray hybridization

BMC Genomics
Zhongming ChenLin Liu

Abstract

The comparison of organ transcriptomes is an important strategy for understanding gene functions. In the present study, we attempted to identify lung-prominent genes by comparing the normal transcriptomes of rat lung, heart, kidney, liver, spleen, and brain. To increase the efficiency and reproducibility, we first developed a novel parallel hybridization system, in which 6 samples could be hybridized onto a single slide at the same time. We identified the genes prominently expressed in the lung (147) or co-expressed in lung-heart (23), lung-liver (37), lung-spleen (203), and lung-kidney (98). The known functions of the lung-prominent genes mainly fell into 5 categories: ligand binding, signal transducer, cell communication, development, and metabolism. Real-time PCR confirmed 13 lung-prominent genes, including 5 genes that have not been investigated in the lung, vitamin D-dependent calcium binding protein (Calb3), mitogen activated protein kinase 13 (Mapk13), solute carrier family 29 transporters, member 1 (Slc29a1), corticotropin releasing hormone receptor (Crhr1), and lipocalin 2 (Lcn2). The lung-prominent genes identified in this study may provide an important clue for further investigation of pulmonary functions.

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Citations

Mar 12, 2008·The Journal of Biological Chemistry·Deming GouLin Liu
Mar 1, 2008·Toxicological Sciences : an Official Journal of the Society of Toxicology·Eva RachedAngela Mally
Jul 30, 2014·BMC Medical Genomics·Chaoqun HuangLin Liu
Apr 9, 2008·Lung Cancer : Journal of the International Association for the Study of Lung Cancer·Eugene P KopantzevEugene D Sverdlov
Apr 5, 2011·Liver International : Official Journal of the International Association for the Study of the Liver·Erawan Borkham-KamphorstRalf Weiskirchen

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Methods Mentioned

BETA
PCR
chips
glycosylation
electrophoresis

Software Mentioned

SAM
GenePix
MathType
SAM Significant Analysis of Microarray
RealSpot
Affymetrix
LOWESS

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