Power Spectra of a Constrained Totally Asymmetric Simple Exclusion Process

Abstract

To synthesize proteins in a cell, an mRNA has to work with a finite pool of ribosomes. When this constraint is included in the modeling by a totally asymmetric simple exclusion process (TASEP), non-trivial consequences emerge. Here, we consider its effects on the power spectrum of the total occupancy, through Monte Carlo simulations and analytical methods. New features, such as dramatic suppressions at low frequencies, are discovered. We formulate a theory based on a linearized Langevin equation with discrete space and time. The good agreement between its predictions and simulation results provides some insight into the effects of finite resoures on a TASEP.

4 pages, 2 figures v2: formatting changes

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• Non-equilibrium statistical mechanics: From a paradigmatic model to biological transport
• Modeling Translation in Protein Synthesis with TASEP: A Tutorial and Recent Developments
• Slow relaxation and aging kinetics for the driven lattice gas
• Multiple phase transitions in a system of exclusion processes with limited reservoirs of particles and fuel carriers
• Entrainment and unit velocity: Surprises in an accelerated exclusion process
• Density-feedback control in traffic and transport far from equilibrium
• Optimizing evacuation flow in a two-channel exclusion process
• Power spectra of TASEPs with a localized slow site
• Fluctuations in meta-population exclusion processes