Contributor info: Dr Luca Ciandrini

Luca Ciandrini, Richmond L. Crisostomo, Juraj Szavits-Nossan

SciPost Phys. Codebases 22 (2023) · published 13 December 2023 | Toggle abstract · pdf

The totally asymmetric simple exclusion process (TASEP) is a paradigmatic lattice model for one-dimensional particle transport subject to excluded-volume interactions. Solving the inhomogeneous TASEP in which particles' hopping rate vary across the lattice is a long-standing problem. In recent years, a power series approximation (PSA) has been developed to tackle this problem, however no computer algorithm currently exists that implements this approximation. This paper addresses this issue by providing a Python-based package TASEPy that finds the steady state solution of the inhomogeneous TASEP for any set of hopping rates using the PSA truncated at a user-defined order.

Luca Ciandrini, Richmond L. Crisostomo, Juraj Szavits-Nossan

SciPost Phys. Codebases 22-r1.1 (2023) · published 13 December 2023 | Toggle abstract · src

The totally asymmetric simple exclusion process (TASEP) is a paradigmatic lattice model for one-dimensional particle transport subject to excluded-volume interactions. Solving the inhomogeneous TASEP in which particles' hopping rate vary across the lattice is a long-standing problem. In recent years, a power series approximation (PSA) has been developed to tackle this problem, however no computer algorithm currently exists that implements this approximation. This paper addresses this issue by providing a Python-based package TASEPy that finds the steady state solution of the inhomogeneous TASEP for any set of hopping rates using the PSA truncated at a user-defined order.

Yvan Rousset, Luca Ciandrini, Norbert Kern

SciPost Phys. 6, 077 (2019) · published 26 June 2019 | Toggle abstract · pdf

We introduce a model for stochastic transport on a one-dimensional substrate with particles assuming different conformations during their stepping cycles. These conformations correspond to different footprints on the substrate: in order to advance, particles are subject to successive contraction and expansion steps with different characteristic rates. We thus extend the paradigmatic exclusion process, provide predictions for all regimes of these rates that are in excellent agreement with simulations, and show that the current-density relation may be affected considerably. Symmetries are discussed, and exploited. We discuss our results in the context of molecular motors, confronting a hand-over-hand and an inchworm stepping mechanism, as well as for ribosomes.