Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates.
Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates.
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DOI：
10.1186/1471-2164-8-153
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发表时间：
2007-06-07
期刊：
影响因子：
4.4
通讯作者：
Kuo WP
中科院分区：
文献类型：
--
作者：
Liu F;Jenssen TK;Trimarchi J;Punzo C;Cepko CL;Ohno-Machado L;Hovig E;Kuo WP
基因表达谱的高通量系统已经开发出来，并在过去十年中迅速成熟。广义上，这些方法可以分为两类：基于杂交的方法和基于测序的方法。随着来自不同技术的数据不断积累，人们对各种技术之间的一致程度提出了关切和挑战。作为正在进行的大规模跨平台数据比较框架的一部分，我们在这里报告了基于单染料DNA微阵列平台和MPSS（大规模并行签名测序）之间相同样本的比较。DNA微阵列平台通常提供高度相关的数据，而微阵列和MPSS之间的中度相关性。这两种技术之间的分歧可归因于这两种技术固有的局限性。在合并的生物重复之间发现的变化强调了在鉴别差异表达时谨慎的重要性，特别是为了生物标志物发现的目的。基于不同的原理，基于杂交和基于测序的技术应该被认为是相互补充的，而不是用于测量基因表达的竞争性替代方案，并且目前两者都是转录组分析的重要工具。
High-throughput systems for gene expression profiling have been developed and have matured rapidly through the past decade. Broadly, these can be divided into two categories: hybridization-based and sequencing-based approaches. With data from different technologies being accumulated, concerns and challenges are raised about the level of agreement across technologies. As part of an ongoing large-scale cross-platform data comparison framework, we report here a comparison based on identical samples between one-dye DNA microarray platforms and MPSS (Massively Parallel Signature Sequencing). The DNA microarray platforms generally provided highly correlated data, while moderate correlations between microarrays and MPSS were obtained. Disagreements between the two types of technologies can be attributed to limitations inherent to both technologies. The variation found between pooled biological replicates underlines the importance of exercising caution in identification of differential expression, especially for the purposes of biomarker discovery. Based on different principles, hybridization-based and sequencing-based technologies should be considered complementary to each other, rather than competitive alternatives for measuring gene expression, and currently, both are important tools for transcriptome profiling.
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MPSS技术中标签位置偏差的分析。
影响因子：
4.4
作者：
Chen, Junfeng;Rattray, Magnus
通讯作者：
Rattray, Magnus
影响因子：
3.4
作者：
Evans, SJ;Datson, NA;Akil, H
通讯作者：
Akil, H
影响因子：
5.8
作者：
Man, MZ;Wang, XN;Wang, YX
通讯作者：
Wang, YX
DOI：
10.1186/bcr1604
发表时间：
2006
期刊：
Breast cancer research : BCR
影响因子：
--
作者：
Grigoriadis A;Mackay A;Reis-Filho JS;Steele D;Iseli C;Stevenson BJ;Jongeneel CV;Valgeirsson H;Fenwick K;Iravani M;Leao M;Simpson AJ;Strausberg RL;Jat PS;Ashworth A;Neville AM;O'Hare MJ
通讯作者：
O'Hare MJ
影响因子：
48
作者：
Larkin, JE;Frank, BC;Quackenbush, J
通讯作者：
Quackenbush, J