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Identification of the Housekeeping Genes Using Cross Experiments via in silico Analysis  

Yim, Won-Cheol (Department of Plant Biotechnology, Dongguk Univ.)
Keum, Chang-Won (Bioinformatics and Molecular Design Research Center (BMDRC))
Kim, Sae-Hwan (Macrogen Inc.)
Jang, Cheol-Seong (Division of Rio-resources Technoiogy, Kangwon National University)
Lee, Byung-Moo (Department of Plant Biotechnology, Dongguk Univ.)
Publication Information
KOREAN JOURNAL OF CROP SCIENCE / v.55, no.4, 2010 , pp. 371-378 More about this Journal
Abstract
For sensitive and accurate gene expression analysis, normalization of gene expression data against housekeeping genes is required. There are conventional housekeeping gene (e.g. ACT) that primarily function as an internal control of transcription. In this study, we performed an in silico analysis of 278 rice gene expression samples (GSM) in order to identify the gene that is most consistently expressed. Based on this analysis, we identified novel candidate housekeeping genes that displayed improved stability among the cross experimental conditions. Furthermore four of the most conventional housekeeping genes were included in our 30 other housekeeping genes among the most stable genes. Therefore, these 30 genes can he used to normalize transcription results in gene expression studies on rice at a broad range of experimental conditions.
Keywords
housekeeping genes; normalization; GEO; micro array;
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