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

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

Authors :
Aïchaoui L
Jules M
Le Chat L
Aymerich S
Fromion V
Goelzer A
Source :
Bioinformatics (Oxford, England) [Bioinformatics] 2012 Oct 15; Vol. 28 (20), pp. 2705-6. Date of Electronic Publication: 2012 Jul 04.
Publication Year :
2012

Abstract

Unlabelled: 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.<br />Availability: The BasyLiCA software and the related documentation are available at http://genome.jouy.inra.fr/basylica.

Details

Language :
English
ISSN :
1367-4811
Volume :
28
Issue :
20
Database :
MEDLINE
Journal :
Bioinformatics (Oxford, England)
Publication Type :
Academic Journal
Accession number :
22764159
Full Text :
https://doi.org/10.1093/bioinformatics/bts422