Modeling Molecular Traffic: Theory, Simulations, and Potential Applications (thesis)
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Author
Aldritch, Emma C.
Subject
Washington and Lee University -- Honors in Physics
Computer simulation
Molecules -- Models
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Thesis; [FULL-TEXT AVAILABLE FOLLOWING A 1-YEAR EMBARGO] Emma C. Aldritch is a member of the Class of 2022 of Washington and Lee University. I present a traffic model inspired by the motion of molecular motors along microtubules, represented by particles moving along a one-dimensional track of variable length. As the particles move unidirectionally along the track, several processes can occur: additional particles can attach at an unoccupied site, particles already on the track can move to the next open site, or particles on the track can detach. I study the model using mean-field theory and Monte Carlo simulations, with a focus on the steady-state properties and the time evolution of the particle density and particle currents. I then expand the model to include two-dimensional side-stepping along a cylindrical microtubule, as well as bidirectional movement of two different species of motors along tracks of fixed and variable length. Though each model expansion adds complexity, I keep the model general to allow for versatile applications throughout non-equilibrium statistical physics and biology.