Ritari Jarmo, Paulin Lars, Hultman Jenni, Auvinen Petri
DNA sequencing and genomics laboratory, Institute of Biotechnology, University of Helsinki, 00790 Helsinki, Finland.
BMC Res Notes. 2009 Dec 14;2:249. doi: 10.1186/1756-0500-2-249.
Nucleic acid detection based on ligation reaction or single nucleotide extension of ssDNA probes followed by tag microarray hybridization provides an accurate and sensitive detection tool for various diagnostic purposes. Since microarray quality is crucial for reliable detection, these methods can benefit from correcting for microarray artefacts using specifically adapted techniques.
Here we demonstrate the application of a per-spot hybridization control oligonucleotide probe and a novel way of computing normalization for tag array data. The method takes into account the absolute value of the detection probe signal and the variability in the control probe signal to significantly alleviate problems caused by artefacts and noise on low quality microarrays.
Diagnostic microarray platforms require experimental and computational tools to enable efficient correction of array artefacts. The techniques presented here improve the signal to noise ratio and help in determining true positives with better statistical significance and in allowing the use of arrays with poor quality that would otherwise be discarded.
基于连接反应或单链DNA探针的单核苷酸延伸，随后进行标签微阵列杂交的核酸检测为各种诊断目的提供了一种准确且灵敏的检测工具。由于微阵列质量对于可靠检测至关重要，这些方法可受益于使用专门适配的技术校正微阵列伪影。
在此，我们展示了一种每个斑点杂交对照寡核苷酸探针的应用以及一种计算标签阵列数据归一化的新方法。该方法考虑了检测探针信号的绝对值和对照探针信号的变异性，以显著减轻低质量微阵列上伪影和噪声所导致的问题。
诊断微阵列平台需要实验和计算工具来有效校正阵列伪影。此处介绍的技术提高了信噪比，有助于以更好的统计学显著性确定真阳性，并允许使用否则会被丢弃的低质量阵列。
