PlateDesigner: a web-based application for the design of microplate experiments
PlateDesigner: a web-based application for the design of microplate experiments
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DOI：
10.1093/bioinformatics/bty853
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发表时间：
2019-05-01
期刊：
影响因子：
5.8
通讯作者：
Suarez-Farinas, Mayte
中科院分区：
文献类型：
--
作者：
Suprun, Maria;Suarez-Farinas, Mayte
在生物测定中，系统变异性（称为批次效应）通常会混淆真实生物条件的影响，并且已在各种高通量技术中得到充分记录。在基于微孔板的多重实验中，如Luminex或OLINK测定，研究人员需要考虑位置和板效应。如果实验设计得当，这些影响可以很容易地解释，包括在多个实验运行中随机化样品。然而，当处理多个样本时，进行特别随机化变得具有挑战性。PlateDesigner是第一个为微孔板实验提供随机化的基于Web的应用程序，确保应用实验设计的主要原则，例如对来自相同生物单元的样品进行分组和平衡实验条件的分布。使用PlateDesigner创建随机化非常简单，结果可以以多种格式导出，并且可以轻松地与酶标仪和统计分析软件集成。可用性和实施PlateDesigner是用R/Shiny编写的，由西奈山伊坎医学院生物统计中心在线托管。此应用程序可在platedesigner.net上免费获得。
In biological assays, systematic variability, known as a batch effect, can often confound the effects of true biological conditions and has been well documented for a variety of high-throughput technologies. In microplate-based multiplex experiments, such as Luminex or OLINK assays, researchers need to consider both position and plate effects. Those effects can be easily accounted for if the experiments are properly designed, which includes randomization of the samples across multiple experimental runs. However, doing the ad hoc randomization becomes challenging when handling multiple samples. PlateDesigner is the first web-based application that provides randomization for microplate experiments, ensuring that the main principles of the experimental design, such as grouping samples from the same biological units and balancing the distribution of experimental conditions, are applied. Creating randomizations with PlateDesigner is simple and the results can be exported in a variety of formats, and easily integrated with microplate readers and statistical analysis software.Availability and implementationPlateDesigner is written in R/Shiny and is hosted online by the Center of Biostatistics at the Icahn School of Medicine at Mount Sinai. This application is freely available at platedesigner.net.