共表达基因模块的鉴定与确认
Identification and confirmation of a module of coexpressed genes.
作者信息
Thompson H Garrett R, Harris Joseph W, Wold Barbara J, Quake Stephen R, Brody James P
机构信息
Department of Biomedical Engineering, University of California Irvine, Irvine, California 92697, USA.
出版信息
Genome Res. 2002 Oct;12(10):1517-22. doi: 10.1101/gr.418402.
Abstract
We synthesize a large gene expression data set using dbEST and UniGene. We use guilt-by-association (GBA) to analyze this data set and identify coexpressed genes. One module, or group of genes, was found to be coexpressed mainly in tissue extracted from breast and ovarian cancers, but also found in tissue from lung cancers, brain cancers, and bone marrow. This module contains at least six members that are believed to be involved in either transcritional regulation (PDEF, H2AFO, NUCKS) or the ubiquitin proteasome pathway (PSMD7, SQSTM1, FLJ10111). We confirm these observations of coexpression by real-time RT-PCR analysis of mRNA extracted from four model breast epithelial cell lines.
摘要
我们利用dbEST和UniGene合成了一个大型基因表达数据集。我们使用关联推断法（GBA）来分析该数据集并识别共表达基因。发现一个模块或一组基因主要在从乳腺癌和卵巢癌提取的组织中共同表达，但在肺癌、脑癌和骨髓组织中也有发现。该模块至少包含六个成员，据信它们参与转录调控（PDEF、H2AFO、NUCKS）或泛素蛋白酶体途径（PSMD7、SQSTM1、FLJ10111）。我们通过对从四种模型乳腺上皮细胞系中提取的mRNA进行实时RT-PCR分析，证实了这些共表达观察结果。
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