BasyLiCA: a tool for automatic processing of a Bacterial Live Cell Array

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Aïchaoui, Leslie | Jules, Matthieu | Le Chat, Ludovic | Aymerich, Stephane | Fromion, Vincent | Goelzer, Anne

Edité par CCSD ; Oxford University Press (OUP) -

Live Cell Array (LCA) technology allows the acquisition of high-resolution time-course profiles of bacterial gene expression by the systematic assessment of fluorescence in living cells carrying either transcriptional or translational fluorescent protein fusion. However, the direct estimation of promoter activities by time-dependent derivation of the fluorescence datasets generates high levels of noise. Here, we present BasyLiCA, a user-friendly open-source interface and database dedicated to the automatic storage and standardized treatment of LCA data. Data quality reports are generated automatically. Growth rates and promoter activities are calculated by tunable discrete Kalman filters that can be set to incorporate data from biological replicates, significantly reducing the impact of noise measurement in activity estimations.

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