Summaries of affymetrix GeneChip probe level data
Summaries of affymetrix GeneChip probe level data
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DOI：
10.1093/nar/gng015
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发表时间：
2003-02-15
影响因子：
14.9
通讯作者：
Speed, TP
中科院分区：
文献类型：
--
作者：
Irizarry, RA;Bolstad, BM;Speed, TP
高密度寡核苷酸阵列技术广泛应用于生物医学研究的许多领域，用于基因表达的定量和高度平行测量。Affyscore基因芯片阵列是最受欢迎的。在该技术中，每个基因通常由一组11 - 20对探针表示。为了获得表达测量，有必要总结探针水平数据。使用两个广泛的spike-in研究和稀释研究，我们开发了一套工具，用于评估表达措施的有效性。我们发现，通过使用来自经验驱动的统计模型的探针水平总结，可以显着提高Affyssoft微阵列套件提供的默认表达测量的当前版本的性能。特别地，证明了检测差异表达基因的能力的改进。
High density oligonucleotide array technology is widely used in many areas of biomedical research for quantitative and highly parallel measurements of gene expression. Affymetrix GeneChip arrays are the most popular. In this technology each gene is typically represented by a set of 11-20 pairs of probes. In order to obtain expression measures it is necessary to summarize the probe level data. Using two extensive spike-in studies and a dilution study, we developed a set of tools for assessing the effectiveness of expression measures. We found that the performance of the current version of the default expression measure provided by Affymetrix Microarray Suite can be significantly improved by the use of probe level summaries derived from empirically motivated statistical models. In particular, improvements in the ability to detect differentially expressed genes are demonstrated.