Analytical distributions for stochastic gene expression

Details Analytical distributions for stochastic gene expression Analytical distributions for stochastic gene expression

2008-12-17

arxiv.org/abs/0812.3344v1

Proc Natl Acad Sci U S A. 2008 Nov 11;105(45):17256-61

Biology

Quantitative Biology

Molecular Networks

Supplementary information can be found on PNAS website

Scientific paper

10.1073/pnas.0803850105

Gene expression is significantly stochastic making modeling of genetic networks challenging. We present an approximation that allows the calculation of not only the mean and variance but also the distribution of protein numbers. We assume that proteins decay substantially slower than their mRNA and confirm that many genes satisfy this relation using high-throughput data from budding yeast. For a two-stage model of gene expression, with transcription and translation as first-order reactions, we calculate the protein distribution for all times greater than several mRNA lifetimes and thus qualitatively predict the distribution of times for protein levels to first cross an arbitrary threshold. If in addition the promoter fluctuates between inactive and active states, we can find the steady-state protein distribution, which can be bimodal if promoter fluctuations are slow. We show that our assumptions imply that protein synthesis occurs in geometrically distributed bursts and allows mRNA to be eliminated from a master equation description. In general, we find that protein distributions are asymmetric and may be poorly characterized by their mean and variance. Through maximum likelihood methods, our expressions should therefore allow more quantitative comparisons with experimental data. More generally, we introduce a technique to derive a simpler, effective dynamics for a stochastic system by eliminating a fast variable.

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