WellInverter

WellInverter infers promoter activities and protein concentration dynamics from fluorescence and absorbance measurements collected by microplate readers using regularized linear inversion.

Key Features:

• Regularized Linear Inversion: Uses regularized linear inversion to interpret fluorescence and absorbance data that are indirectly related to promoter activities and protein concentrations.
• Microplate Reader Data Support: Processes time-series fluorescence and optical density (absorbance) measurements from microplate readers to enable quantitative analysis of reporter gene signals.
• Parallel Computing Architecture: Employs a parallel computing framework with a load balancer to distribute analysis queries across back-end servers for scalable processing.
• Plug-in System for Data Parsing: Provides a plug-in system capable of parsing data files from microplate readers manufactured by different companies.

Scientific Applications:

• Gene Expression Monitoring: Analysis of fluorescent reporter genes to monitor gene expression dynamics and infer promoter activities and protein concentrations in microbial strains such as Escherichia coli.
• Growth Media Analysis: Comparative analysis of reporter gene expression driven by a phage promoter in E. coli populations across different media to relate expression patterns to expected outcomes for constitutive genes and growth-rate effects.

Methodology:

Data are collected from microplate readers measuring fluorescence and optical density at regular intervals; data are processed using mathematical models and regularized linear inversion; computation is distributed via a parallel computing architecture with a load balancer; data files are parsed via a plug-in system supporting multiple microplate reader manufacturers.