基因芯片筛选差异表达基因方法比较-生物通.PDF

HEREDITAS (Beijing) 2008 12 , 30(12): 1640―1646 ISSN 0253-9772 技术与方法 DOI: 10.3724/SP.J.1005.2008.01640 单文娟, 童春发, 施季森 , 210037 使用计算机模拟数据和真实的芯片数据, 对 8 种筛选差异表达基因的方法进行了比较分析, 旨在比较不 同方法对基因芯片数据的筛选效果。模拟数据分析表明, 所使用的8 种方法对均匀分布的差异表达基因有很好 的识别、检出作用。算法方面, SAM 和Wilcoxon 秩和检验方法较好; 数据分布方面, 正态分布的识别效果较好, 卡方分布和指数分布的识别效果较差。杨树 cDNA 芯片分析表明, SAM 、Samroc 和回归模型方法相近, 而 Wilcoxon 秩和检验方法与它们有较大差异。 : 基因芯片; 杨树; 差异表达 Comparison of statistical methods for detecting differential expres- sion in microarray data SHAN Wen-Juan, TONG Chun-Fa, SHI Ji-Sen The Key Laboratory of Forest Genetics and Gene Engineering of the State Administration and Jiangsu Province, Nanjing Forestry Univer- sity, Nanjing 210037, China Abstract: DNA microarray is a new tool in biotechnology, which allows simultaneously monitoring thousands of gene expression in cells. The goal of differential gene expression analysis is to detect genes with significant change of gene ex- pression levels arising from experimental conditions. Although various statistical methods have been suggested to confirm differential gene expression, only a few studies compared performance of the statistical methods. This paper presented comparison of statistical methods for finding differentially expressed genes (DEGs) from the microarray data. Using simu- lated and real datasets (Populus cDNA microarray data), we compared eight methods of identifying differential gene ex- pression. The simulated datasets included four differential distributions (normal distribution, uniform distribution, χ2 distributio