BasyLiCA: a tool for automatic processing of a Bacterial Live Cell Array.
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.
AVAILABILITY: The BasyLiCA software and the related documentation are available at http://genome.jouy.inra.fr/basylica.
INRA, UR1077 Unité Mathématique Informatique et Génome, F-78350 Jouy en Josas, France.
SourceBioinformatics (Oxford, England) 28:20 2012 Oct 15 pg 2705-6
Pub Type(s)Journal Article
Research Support, Non-U.S. Gov't