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微阵列分析:成功实验的基本策略。

Microarray analysis: basic strategies for successful experiments.

作者信息

Ness Scott A

机构信息

Department of Molecular Genetics & Microbiology, Keck-UNM Genomics Resource and UNM Cancer Research and Treatment Center, University of New Mexico HSC, Albuquerque, NM 87131-0001, USA.

出版信息

Mol Biotechnol. 2007 Jul;36(3):205-19. doi: 10.1007/s12033-007-0012-6.

DOI:10.1007/s12033-007-0012-6
PMID:17873407
Abstract

Microarrays offer a powerful approach to the analysis of gene expression that can be used for a wide variety of experimental purposes. However, there are several types of microarray platforms that are available. In addition, microarray experiments are expensive and generate complicated data sets that can be difficult to interpret. Success with microarray approaches requires a sound experimental design and a coordinated and appropriate use of statistical tools. Here, the advantages and pitfalls of utilizing microarrays are discussed, as are practical strategies to help novice users succeed with this method that can empower them with the ability to assay changes in gene expression at the whole genome level.

摘要

微阵列提供了一种强大的基因表达分析方法,可用于多种实验目的。然而,有几种类型的微阵列平台可供使用。此外,微阵列实验成本高昂,会生成复杂的数据集,难以解释。微阵列方法的成功需要合理的实验设计以及对统计工具的协调和恰当使用。本文讨论了使用微阵列的优点和陷阱,以及帮助新手用户成功使用此方法的实用策略,这些策略能使他们有能力在全基因组水平检测基因表达的变化。

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Microarray analysis: basic strategies for successful experiments.微阵列分析:成功实验的基本策略。
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2
Basic microarray analysis: strategies for successful experiments.基础微阵列分析:成功实验的策略
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本文引用的文献

1
A genome-wide study of preferential amplification/hybridization in microarray-based pooled DNA experiments.基于微阵列的混合DNA实验中优先扩增/杂交的全基因组研究。
Nucleic Acids Res. 2006;34(15):e106. doi: 10.1093/nar/gkl446. Epub 2006 Aug 23.
2
Gene expression profiling of adult acute myeloid leukemia identifies novel biologic clusters for risk classification and outcome prediction.成人急性髓系白血病的基因表达谱分析确定了用于风险分类和预后预测的新型生物学集群。
Blood. 2006 Jul 15;108(2):685-96. doi: 10.1182/blood-2004-12-4633. Epub 2006 Apr 4.
3
Quantitative microarray profiling provides evidence against widespread coupling of alternative splicing with nonsense-mediated mRNA decay to control gene expression.
“组学”在朊病毒生物标志物发现中的应用。
J Biomed Biotechnol. 2010;2010:613504. doi: 10.1155/2010/613504. Epub 2010 Mar 4.
4
Innate immune modulation by RNA viruses: emerging insights from functional genomics.RNA病毒对固有免疫的调节:功能基因组学的新见解
Nat Rev Immunol. 2008 Aug;8(8):644-54. doi: 10.1038/nri2377.
定量微阵列分析提供了证据,反驳了可变剪接与无义介导的mRNA降解广泛偶联以控制基因表达的观点。
Genes Dev. 2006 Jan 15;20(2):153-8. doi: 10.1101/gad.1382806.
4
Oncogenic mutations cause dramatic, qualitative changes in the transcriptional activity of c-Myb.致癌突变会导致c-Myb转录活性发生显著的定性变化。
Oncogene. 2006 Feb 2;25(5):795-805. doi: 10.1038/sj.onc.1209105.
5
Genomewide single nucleotide polymorphism microarray mapping in basal cell carcinomas unveils uniparental disomy as a key somatic event.基底细胞癌的全基因组单核苷酸多态性微阵列图谱揭示单亲二体是关键的体细胞事件。
Cancer Res. 2005 Oct 1;65(19):8597-603. doi: 10.1158/0008-5472.CAN-05-0842.
6
MicroRNA gene expression deregulation in human breast cancer.人类乳腺癌中MicroRNA基因表达失调
Cancer Res. 2005 Aug 15;65(16):7065-70. doi: 10.1158/0008-5472.CAN-05-1783.
7
Revealing global regulatory features of mammalian alternative splicing using a quantitative microarray platform.使用定量微阵列平台揭示哺乳动物可变剪接的全局调控特征。
Mol Cell. 2004 Dec 22;16(6):929-41. doi: 10.1016/j.molcel.2004.12.004.
8
A Bayesian network classification methodology for gene expression data.一种用于基因表达数据的贝叶斯网络分类方法。
J Comput Biol. 2004;11(4):581-615. doi: 10.1089/cmb.2004.11.581.
9
Positive and negative determinants of target gene specificity in myb transcription factors.Myb转录因子中靶基因特异性的正向和负向决定因素
J Biol Chem. 2004 Jul 9;279(28):29519-27. doi: 10.1074/jbc.M403133200. Epub 2004 Apr 21.
10
Prognostically useful gene-expression profiles in acute myeloid leukemia.急性髓系白血病中具有预后价值的基因表达谱
N Engl J Med. 2004 Apr 15;350(16):1617-28. doi: 10.1056/NEJMoa040465.