Index Catalog // ScholarsArchive@OSU

Simulating dynein’s powerstroke using Brownian dynamics

Creator:: Capek, Elliott L.
Abstract:: Dynein is a motor protein which transports cargo along tracks inside the cell. Like related motor proteins kinesin and myosin, dynein uses cellular energy to take steps with its two foot domains. Unlike kinesin or myosin, dynein’s stepping pattern is highly varied: it can take steps between zero and 60nm...
Resource Type:: Undergraduate Thesis
Full Text:: powerstroke using Brownian dynamics Author: Elliott Capek Supervisor: Dr. David Roundy A thesis submitted

A Generalized Scheme for Creating Regge Calculus Models of General Relativity

Creator:: Hanson, Ben R.
Abstract:: Solutions to Einstein's equations are usually found by considering ideal, simplified models. However, if the real world always matched ideal physics models, then farmers would milk black and white spheres. To combat this, Regge calculus was developed as a numerical approximation scheme for general relativity. In Regge calculus curved manifolds...
Resource Type:: Undergraduate Thesis
Full Text:: General Relativity Ben Hanson An Undergraduate thesis advised by David Craig Submitted to the

Drunken Walking: A Novel Brownian Dynamics Simulation for the Mechanochemical Cycle of the Dynein Motor Protein

Creator:: Waczak, John L.
Abstract:: The dynein molecule is a peculiar motor protein recognized for its unique stepping behavior. Sometimes it steps forwards. Other times it steps backwards. It has even been observed to occasionally shuffle by beginning a step with the same domain many times in row. These motions make dynein an interesting object...
Resource Type:: Undergraduate Thesis
Full Text:: advised by David Roundy submitted to Department of Physics, Oregon State University in partial

Comparison of the Accuracy and Applicability of Forebody Wake Effect Models for Parachute System Design

Creator:: Kemling, Gabriel H. and Blunck, David L.
Abstract:: The forebody wake effect (FWE) is important to consider when designing parachute systems because it can affect parachute performance. Parachutes work by altering the aerodynamic properties of an attached forebody to control a descent. The FWE can reduce parachute drag, causing the system to descend faster than desired. This drag...
Resource Type:: Research Paper
Full Text:: Gabriel H. Kemling1 and David L. Blunck2 Oregon State University, Corvallis, Oregon, 97330, United States

Exploiting Diffraction Orders from a Phase Limited SLM to Remove and Model Zernike Aberrations

Creator:: Goschie, Aaron J.
Abstract:: Using a plastic bottle, we explore the capabilities of a reflective phase-only Spatial Light Modulator (SLM) in removing wavefront aberrations using a Zernike polynomial phase mask, with the modulators phase depth limited to 0.8π radians. Wavefront aberrations, which can be modeled with Zernike polynomials, distort image transmission through various optical...
Resource Type:: Undergraduate Thesis
Full Text:: David H. McIntyre submitted to the Department of Physics, Oregon State University in partial

Freezing a Softly Repulsive Fluid : Monte Carlo Methods and the Weeks-Chandler-Andersen Potential

Creator:: May, Christopher
Abstract:: The equation of state for a fluid described by the Weeks-Chandler-Andersen (WCA) potential was solved to determine at what pressures and temperatures the fluid will theoretically freeze. A Monte Carlo (MC) algorithm was used to sample a system of 256 spheres for a set of thermodynamic averages to locate and...
Resource Type:: Undergraduate Thesis
Full Text:: and led to a series of articles written by John Weeks, David Chandler, and Hans Andersen describing a

Simulating the Dynein Motor Protein: A Monte Carlo Approach to Achieve Coordinated Stepping

Creator:: Kiatvongcharoen, Jin
Abstract:: The motor protein dynein is responsible for cellular processes such as axonal transport and cell division by delivering vital information along the microtubule track. A failed delivery can cause severe damage to the cell’s functionality and lead to neurological diseases. Despite dynein’s rich history in cellular research, the mechanism of...
Resource Type:: Undergraduate Thesis
Full Text:: . David Roundy submitted to the Department of Physics, Oregon State University in partial fulfillment of

Detection of exciton polaritons in organic thin film TES-ADT

Creator:: Haas, David P.
Abstract:: Exciton polaritons are quasiparticles composed of a quantum superposition of matter and light states that arises from the coupling of a standing wave photon and an exciton. This research has two primary objectives: to design and fabricate a Fabry-Perot microcavity system in which to produce exciton polaritons; and to show...
Resource Type:: Undergraduate Thesis
Full Text:: film TES-ADT David Haas An undergraduate thesis advised by Oksana Ostroverkhova

Functional consequences of microRNA regulation by polycyclic aromatic hydrocarbons in 3D human bronchial epithelial cells

Creator:: Mans, Michael-Andres D.
Abstract:: Polycyclic aromatic hydrocarbons (PAHs) are a class of contaminants ubiquitous in the environment and result from the incomplete combustion of fossil fuels. Many PAHs have been identified as procarcinogenic, and are metabolized to form DNA adducts; however, other mechanisms also may contribute to toxicity and help explain differences in toxicity...
Resource Type:: Undergraduate Thesis
Full Text:: _____________________________________________________ _______________ David Williams, Environmental and Molecular Toxicology

Practical Mechanically Interlocked Molecules: A Model of Gas Adsorption in Metal OrganicFrameworks Harboring Rotaxane Molecular Shuttles

Creator:: Carney, Jonathan
Abstract:: Metal organic frameworks(MOFs) are a class of crystalline materials utilized in gas storage, chemicalsensing, and other engineering applications. Recently chemists have begun synthesizing MOFs withmoving parts in order to further these applications. A wide array of dynamic MOFs have been created andtheorized. Among them is the interlocking of a ring...
Resource Type:: Undergraduate Thesis
Full Text:: undergraduate thesis advised by David Roundy and Cory Simon submitted to the Department of Physics, Oregon

ScholarsArchive@OSU

Simulating dynein’s powerstroke using Brownian dynamics

A Generalized Scheme for Creating Regge Calculus Models of General Relativity

Drunken Walking: A Novel Brownian Dynamics Simulation for the Mechanochemical Cycle of the Dynein Motor Protein

Comparison of the Accuracy and Applicability of Forebody Wake Effect Models for Parachute System Design

Exploiting Diffraction Orders from a Phase Limited SLM to Remove and Model Zernike Aberrations

Freezing a Softly Repulsive Fluid : Monte Carlo Methods and the Weeks-Chandler-Andersen Potential

Simulating the Dynein Motor Protein: A Monte Carlo Approach to Achieve Coordinated Stepping

Detection of exciton polaritons in organic thin film TES-ADT

Functional consequences of microRNA regulation by polycyclic aromatic hydrocarbons in 3D human bronchial epithelial cells

Practical Mechanically Interlocked Molecules: A Model of Gas Adsorption in Metal OrganicFrameworks Harboring Rotaxane Molecular Shuttles

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