WellReader: a MATLAB program for the analysis of fluorescence and luminescence reporter gene data

Bioinformatics
Frédéric BoyerHidde de Jong

Abstract

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. 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. WellReader is available under a LGPL licence at http://prabi1.inrialpes.fr/trac/wellreader.

References

Jul 13, 2002·Biotechnology and Bioengineering·Canghai LuGovind Rao
Jul 30, 2002·Proceedings of the National Academy of Sciences of the United States of America·Michal RonenUri Alon
Feb 25, 2005·Proceedings of the National Academy of Sciences of the United States of America·Oren KobilerAmos B Oppenheim
Jul 17, 2009·Environmental Science & Technology·Annalisa Onnis-HaydenApril Z Guc

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Citations

Jul 23, 2013·Research in Microbiology·Omaya DudinJohannes Geiselmann
Oct 6, 2015·ACS Synthetic Biology·Timothy James RudgeJim Haseloff
Mar 19, 2014·ACS Synthetic Biology·Boyan YordanovAndrew Phillips
Jun 13, 2019·BMC Bioinformatics·Yannick MartinHidde de Jong
Jan 1, 2021·ACS Synthetic Biology·Guillermo Yáñez FeliúTimothy J Rudge

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