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Table 2 Reactions of the transport model

From: URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries

  Reaction Description Cellular location
(R1) ∅→ μ 1 V Creation of cargo Cell body
(R2–R5) V ⇌ σ d σ b V k , d Binding of V to microtubule All domains
(R6,R7) V k ⇌ σ dk σ kd V d Reversal of direction Microtubule
(R8) V→ μ 2 ∅ Degradation of V All domains
  1. Model of active transport of a cargo species V that is transported on microtubule filaments in a direction determined by the orientation of the fibers (as modeled by a velocity field) and the current motor protein bound to the fiber (kinesin or dynein).
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