Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms.
Experimental comparison and cross-validation of the Affymetrix and Illumina gene expression analysis platforms.
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DOI：
10.1093/nar/gki890
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发表时间：
2005
影响因子：
14.9
通讯作者：
Pavlidis P
中科院分区：
文献类型：
--
作者：
Barnes M;Freudenberg J;Thompson S;Aronow B;Pavlidis P
RNA表达微阵列的普及伴随着对数据可靠性的担忧，特别是在不同平台之间进行比较时。在这里，我们提出了使用两个平台，Affyssin GeneChips和Illumina BeadArrays的微阵列结果的再现性的评价。研究设计基于两种人体组织（血液和胎盘）的稀释系列，在每个平台上重复检测两次。平台之间的比较结果表明非常高的一致性，特别是对于预测在两种组织之间差异表达的基因。一致性与基因的表达水平密切相关。当两个平台上的探针可以被鉴定为可能靶向给定基因的同一组转录本时，一致性也得到了改善。这些结果揭示了跨微阵列平台的一致性的原因或失败。我们发现的可重复性最高的探针组可以被其他人使用，以帮助增加使用这些平台分析其他数据集的信心。
The growth in popularity of RNA expression microarrays has been accompanied by concerns about the reliability of the data especially when comparing between different platforms. Here, we present an evaluation of the reproducibility of microarray results using two platforms, Affymetrix GeneChips and Illumina BeadArrays. The study design is based on a dilution series of two human tissues (blood and placenta), tested in duplicate on each platform. The results of a comparison between the platforms indicate very high agreement, particularly for genes which are predicted to be differentially expressed between the two tissues. Agreement was strongly correlated with the level of expression of a gene. Concordance was also improved when probes on the two platforms could be identified as being likely to target the same set of transcripts of a given gene. These results shed light on the causes or failures of agreement across microarray platforms. The set of probes we found to be most highly reproducible can be used by others to help increase confidence in analyses of other data sets using these platforms.
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影响因子：
4.4
作者：
Shippy R;Sendera TJ;Lockner R;Palaniappan C;Kaysser-Kranich T;Watts G;Alsobrook J
通讯作者：
Alsobrook J
影响因子：
4.4
作者：
Huminiecki L;Lloyd AT;Wolfe KH
通讯作者：
Wolfe KH
影响因子：
7
作者：
Barczak, A;Rodriguez, MW;Erle, DJ
通讯作者：
Erle, DJ
影响因子：
3.8
作者：
Li, J;Pankratz, M;Johnson, JA
通讯作者：
Johnson, JA
三个微阵列平台：对它们在分析基因表达的一致性的分析。
影响因子：
4.4
作者：
Petersen, D;Chandramouli, GVR;Geoghegan, J;Hilburn, J;Paarlberg, J;Kim, CH;Munroe, D;Gangi, L;Han, J;Puri, R;Staudt, L;Weinstein, J;Barrett, JC;Green, J;Kawasaki, ES
通讯作者：
Kawasaki, ES