WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data
WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data
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DOI：
10.1093/bioinformatics/btq016
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发表时间：
2010-05-01
期刊：
影响因子：
5.8
通讯作者：
de Jong, Hidde
中科院分区：
文献类型：
--
作者：
Boyer, Frederic;Besson, Bruno;de Jong, Hidde
动机：荧光和发光报告基因系统与自动酶标仪相结合，可以在高精度和高采样密度下实时监测群体水平上的基因表达。这产生了大量的数据，用于分析的计算机工具是失踪的data.Results：我们已经开发了WellReader，一个MATLAB程序的荧光和发光报告基因数据的分析。WellReader允许用户加载酶标仪的输出文件，删除离群值，校正背景效应，平滑和拟合数据。此外，它从测量的信号中计算生物学相关量，特别是启动子活性和蛋白质浓度，并比较不同基因在不同条件下的表达谱。
Motivation: Fluorescent and luminescent reporter gene systems in combination with automated microplate readers allow real-time monitoring of gene expression on the population level at high precision and sampling density. This generates large amounts of data for the analysis of which computer tools are missing to date.Results: We have developed WellReader, a MATLAB program for the analysis of fluorescent and luminescent reporter gene data. WellReader allows the user to load the output files of microplate readers, remove outliers, correct for background effects and smooth and fit the data. Moreover, it computes biologically relevant quantities from the measured signals, notably promoter activities and protein concentrations, and compares the resulting expression profiles of different genes under different conditions.