Oligonucleotide arrays: information from replication and spatial structure
Oligonucleotide arrays: information from replication and spatial structure
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DOI：
10.1093/bioinformatics/bti668
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发表时间：
2005-11-15
期刊：
影响因子：
5.8
通讯作者：
Lloyd, JC
中科院分区：
文献类型：
--
作者：
Upton, GJG;Lloyd, JC
动机：寡核苷酸DNA阵列的引入引起了关于用于测量基因表达的适当模型的许多争论。相比之下，很少考虑到已采取的可能性，确定的物理缺陷的原始data.Results：本文表明，与使用的复制和空间结构的意识，在数据中的缺陷可以被识别，其纠正的可能性可以确定和纠正可以影响（通过使用本地缩放）在可能的情况下。这些程序是由使用基因芯片ATH 1 -121501微阵列的拟南芥重复数据激发的。对于GeneChip（R）人类基因组U133阵列和更新且更大的GeneChip（R）小麦基因组微阵列，说明了类似的问题。
Motivation: The introduction of oligonucleotide DNA arrays has resulted in much debate concerning appropriate models for the measurement of gene expression. By contrast, little account has been taken of the possibility of identifying the physical imperfections in the raw data.Results: This paper demonstrates that, with the use of replicates and an awareness of the spatial structure, deficiencies in the data can be identified, the possibility of their correction can be ascertained and correction can be effected (by use of local scaling) where possible. The procedures were motivated by data from replicates of Arabidopsis thaliana using the GeneChip (R) ATH1-121501 microarray. Similar problems are illustrated for GeneChip (R) Human Genome U133 arrays and for the newer and larger GeneChip (R) Wheat Genome microarray.