Robust reconstruction of gene expression profiles from reporter gene data using linear inversion.

ABSTRACT:

Motivation

Time-series observations from reporter gene experiments are commonly used for inferring and analyzing dynamical models of regulatory networks. The robust estimation of promoter activities and protein concentrations from primary data is a difficult problem due to measurement noise and the indirect relation between the measurements and quantities of biological interest.

Results

We propose a general approach based on regularized linear inversion to solve a range of estimation problems in the analysis of reporter gene data, notably the inference of growth rate, promoter activity, and protein concentration profiles. We evaluate the validity of the approach using in silico simulation studies, and observe that the methods are more robust and less biased than indirect app

SUBMITTER: Zulkower V 

PROVIDER: S-EPMC4765859 | biostudies-literature | 2015 Jun

REPOSITORIES: biostudies-literature