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A Look-Ahead Simulation Algorithm for DBN Models of Biochemical Pathways Read chapter Read first chapter

2016 | OriginalPaper | Chapter

On Observability and Reconstruction of Promoter Activity Statistics from Reporter Protein Mean and Variance Profiles

Author : Eugenio Cinquemani

Published in: Hybrid Systems Biology

Publisher: Springer International Publishing

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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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Appendix
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Metadata
Title
On Observability and Reconstruction of Promoter Activity Statistics from Reporter Protein Mean and Variance Profiles
Author
Eugenio Cinquemani
Copyright Year
2016
Book
Hybrid Systems Biology

Print ISBN: 978-3-319-47150-1

Electronic ISBN: 978-3-319-47151-8

Copyright Year: 2016

DOI
https://doi.org/10.1007/978-3-319-47151-8_10

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