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WellInverter: a web application for the analysis of fluorescent reporter gene data

Abstract : Fluorescent reporter genes have become widely used for monitoring gene expression in living cells. When a microbial strain carrying a reporter gene is grown in a microplate reader, the fluorescence and the absorbance (optical density) of the culture can be automatically measured every few minutes in a highly parallelized way. The extraction of useful information from the resulting large amounts of data is not easy to achieve, because the fluorescence and absorbance measurements are only indirectly related to promoter activities and protein concentrations, requiring mathematical models of the expression of reporter genes for their interpretation. Although the principles of the analysis of reporter gene data are well-established today, there is a lack of general-purpose bioinformatics tools based on generic measurement models and sound inference procedures. This has motivated the development of WellInverter, a web application based on well-known methods for regularized linear inversion.
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https://hal.inria.fr/hal-02195461
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Submitted on : Friday, July 26, 2019 - 12:39:56 PM
Last modification on : Friday, November 6, 2020 - 4:30:48 AM

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Yannick Martin, Michel Page, Christophe Blanchet, Hidde de Jong. WellInverter: a web application for the analysis of fluorescent reporter gene data. BMC Bioinformatics, BioMed Central, 2019, 20 (1), pp.309. ⟨10.1186/s12859-019-2920-4⟩. ⟨hal-02195461⟩

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