On observability and reconstruction of promoter activity statistics from reporter protein mean and variance profiles

Eugenio Cinquemani 1
1 IBIS - Modeling, simulation, measurement, and control of bacterial regulatory networks
LAPM - Laboratoire Adaptation et pathogénie des micro-organismes [Grenoble], Inria Grenoble - Rhône-Alpes, Institut Jean Roget
Abstract : Reporter protein systems are widely used in biology for the indirect quantitative monitoring of gene expression activity over time. At the level of population averages, the relationship between the observed reporter concentration profile and gene promoter activity is established, and effective methods have been introduced to reconstruct this information from the data. At single-cell level, the relationship between population distribution time profiles and the statistics of promoter activation is still not fully investigated, and adequate reconstruction methods are lacking. This paper develops new results for the reconstruction of promoter activity statistics from mean and variance profiles of a reporter protein. Based on stochastic modelling of gene expression dynamics, it discusses the observability of mean and autocovariance function of an arbitrary random binary promoter activity process. Mathematical relationships developed are explicit and nonparametric, i.e. free of a priori assumptions on the laws governing the promoter process, thus allowing for the decoupled analysis of the switching dynamics in a subsequent step. The results of this work constitute the essential tools for the development of promoter statistics and regulatory mechanism inference algorithms.
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Communication dans un congrès
Eugenio Cinquemani; Alexandre Donzé. Fifth International workshop on Hybrid Systems Biology - HSB 2016, Oct 2016, Grenoble, France. Springer, Lecture Notes in Bioinformatics, 9957, pp.147-163, Hybrid Systems Biology. 〈10.1007/978-3-319-47151-8〉
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Eugenio Cinquemani. On observability and reconstruction of promoter activity statistics from reporter protein mean and variance profiles. Eugenio Cinquemani; Alexandre Donzé. Fifth International workshop on Hybrid Systems Biology - HSB 2016, Oct 2016, Grenoble, France. Springer, Lecture Notes in Bioinformatics, 9957, pp.147-163, Hybrid Systems Biology. 〈10.1007/978-3-319-47151-8〉. 〈hal-01399934〉

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