Matching Items (199)
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Western diets, high in dietary fat and red meat, are associated with hyperglycemia and weight gain, symptoms that promote insulin resistance and diabetes. Previous studies have shown that elevated glucose promotes glycation of circulating proteins such as albumin, which is thought to lead to hyperglycemia complications. It was hypothesized that

Western diets, high in dietary fat and red meat, are associated with hyperglycemia and weight gain, symptoms that promote insulin resistance and diabetes. Previous studies have shown that elevated glucose promotes glycation of circulating proteins such as albumin, which is thought to lead to hyperglycemia complications. It was hypothesized that diets with no meat consumption (pesco-vegetarian and lacto-vegetarian) would reduce protein glycation, in comparison to a diet with meat. Forty six healthy adult omnivorous subjects were randomized into one of three groups and instructed to either consume red meat (i.e. meat) or poultry twice per day (control), eliminate meat and increase fish consumption (pesco-vegetarian), or adopt a vegetarian diet devoid of fish, meat or poultry (lacto-vegetarian) for four weeks. Fasting plasma samples were collected from participants at baseline and after 4 weeks of the dietary intervention. Plasma glucose concentrations were measured using a commercially available kit. Percent glycated albumin was measured on a separate aliquot of plasma by mass spectrometry. Plasma glucose concentrations were significantly increased following 4-weeks of pesco-vegetarian diet (P=0.002, paired t-test). Neither the lacto-vegetarian (P=0.898) or the control diet (P=0.233) affected plasma glucose concentrations. Despite the significant increase in plasma glucose following a pesco-vegetarian diet, no change in percent glycated albumin was observed (P>0.50, ANOVA). These findings may indicate a protective effect of the pesco-vegetarian diet on protein glycation in the presence of elevated plasma glucose and suggest the need for additional studies to examine the link between increased fish consumption and glucose regulation.
ContributorsRaad, Noor (Author) / Sweazea, Karen (Thesis director, Committee member) / Borges, Chad (Committee member) / Barrett, The Honors College (Contributor) / School of Life Sciences (Contributor)
Created2015-05
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This paper discusses the theoretical approximation and attempted measurement of the quantum <br/>force produced by material interactions though the use of a tuning fork-based atomic force microscopy <br/>device. This device was built and orientated specifically for the measurement of the Casimir force as a <br/>function of separation distance using a

This paper discusses the theoretical approximation and attempted measurement of the quantum <br/>force produced by material interactions though the use of a tuning fork-based atomic force microscopy <br/>device. This device was built and orientated specifically for the measurement of the Casimir force as a <br/>function of separation distance using a piezo actuator for approaching and a micro tuning fork for the <br/>force measurement. This project proceeds with an experimental measurement of the ambient Casmir force <br/>through the use of a tuning fork-based AFM to determine its viability in measuring the magnitude of the <br/>force interaction between an interface material and the tuning fork probe. The ambient measurements <br/>taken during the device’s development displayed results consistent with theoretical approximations, while<br/>demonstrating the capability to perform high-precision force measurements. The experimental results<br/>concluded in a successful development of a device which has the potential to measure forces of <br/>magnitude 10−6 to 10−9 at nanometric gaps. To conclude, a path to material analysis using an approach <br/>stage, alternative methods of testing, and potential future experiments are speculated upon.

ContributorsMulkern, William Michael (Author) / Wang, Liping (Thesis director) / Kwon, Beomjin (Committee member) / Mechanical and Aerospace Engineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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This paper investigates near-field thermal radiation as the primary source of heat transfer between two parallel surfaces. This radiation takes place extremely close to the heated surfaces in study so the experimental set-up to be used will be done at the nanometer scale. The primary theory being investigated is that

This paper investigates near-field thermal radiation as the primary source of heat transfer between two parallel surfaces. This radiation takes place extremely close to the heated surfaces in study so the experimental set-up to be used will be done at the nanometer scale. The primary theory being investigated is that near-field radiation generates greater heat flux that conventional radiation governed by Planck’s law with maximum for blackbodies. Working with a phase shift material such as VO2 enables a switch-like effect to occur where the total amount of heat flux fluctuates as VO2 transitions from a metal to an insulator. In this paper, the theoretical heat flux and near-field radiation effect are modeled for a set-up of VO2 and SiO2 layers separated by different vacuum gaps. In addition, a physical experimental set-up is validated for future near-field radiation experiments.

ContributorsSluder, Nicole (Author) / Wang, Liping (Thesis director) / Wang, Ropert (Committee member) / Mechanical and Aerospace Engineering Program (Contributor, Contributor) / Barrett, The Honors College (Contributor)
Created2021-05
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Dielectrophoresis is a separations strategy that has the potential to separate small amounts of different proteins from each other. The forces at play in the channel used for dielectrophoresis are electroosmotic flow (EOF), electrophoresis (EP), and dielectrophoresis (DEP). EOF is the force exerted on liquid from an applied potential (1).

Dielectrophoresis is a separations strategy that has the potential to separate small amounts of different proteins from each other. The forces at play in the channel used for dielectrophoresis are electroosmotic flow (EOF), electrophoresis (EP), and dielectrophoresis (DEP). EOF is the force exerted on liquid from an applied potential (1). EP is the force exerted on charged particles in a uniform electric field (2). DEP is the force exerted on particles (charged and uncharged) in a non-uniform electric field (3). This experiment was focused on the testing of a new microfluidic device to see if it could improve the focusing of proteins in dielectrophoresis. It was predicted that the addition of a salt bridge would improve focusing by preventing the ions created by the electrolysis of water around the electrodes from interacting with the proteins and causing aggregation, among other problems. Control trials using the old device showed that electrolysis was likely occurring and was the causal agent for poor outcomes. After applying the electric potential for some time a pH front traveled through the channel causing aggregation of proteins and the current in the channel decreased rapidly, even while the voltage was held constant. The resistance in the channels of the control trials also slightly decreased over time, until the pH shift occurred, at which time it increased rapidly. Experimental trials with a new device that included salt bridges eliminated this pH front and had a roughly linear increase of current in the channel with the voltage applied. This device can now be used in future research with protein dielectrophoresis, including in the potential differentiation of different proteins. References: 1) Electroosmosis. Oxford Dictionary of Biochemistry and Molecular Biology. 2. Oxford University Press: Oxford, England. 2006. 2) Electrophoresis. Oxford Dictionary of Biochemistry and Molecular Biology. 2. Oxford University Press: Oxford, England. 2006. 3) Dielectrophoresis. Oxford Dictionary of Biochemistry and Molecular Biology. 2. Oxford University Press: Oxford, England. 2006.
ContributorsHayes, Katelyn Donna (Author) / Hayes, Mark (Thesis director) / Borges, Chad (Committee member) / School of Life Sciences (Contributor) / Department of Psychology (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
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Viral protein U (Vpu) is a type-III integral membrane protein encoded by Human Immunodeficiency Virus-1 (HIV- 1). It is expressed in infected host cells and plays several roles in viral progeny escape from infected cells, including down-regulation of CD4 receptors. But key structure/function questions remain regarding the mechanisms by which

Viral protein U (Vpu) is a type-III integral membrane protein encoded by Human Immunodeficiency Virus-1 (HIV- 1). It is expressed in infected host cells and plays several roles in viral progeny escape from infected cells, including down-regulation of CD4 receptors. But key structure/function questions remain regarding the mechanisms by which the Vpu protein contributes to HIV-1 pathogenesis. Here we describe expression of Vpu in bacteria, its purification and characterization. We report the successful expression of PelB-Vpu in Escherichia coli using the leader peptide pectate lyase B (PelB) from Erwinia carotovora. The protein was detergent extractable and could be isolated in a very pure form. We demonstrate that the PelB signal peptide successfully targets Vpu to the cell membranes and inserts it as a type I membrane protein. PelB-Vpu was biophysically characterized by circular dichroism and dynamic light scattering experiments and was shown to be an excellent candidate for elucidating structural models.

ContributorsDeb, Arpan (Author) / Johnson, William (Author) / Kline, Alexander (Author) / Scott, Boston (Author) / Meador, Lydia (Author) / Srinivas, Dustin (Author) / Martin Garcia, Jose Manuel (Author) / Dorner, Katerina (Author) / Borges, Chad (Author) / Misra, Rajeev (Author) / Hogue, Brenda (Author) / Fromme, Petra (Author) / Mor, Tsafrir (Author) / ASU Biodesign Center Immunotherapy, Vaccines and Virotherapy (Contributor) / College of Liberal Arts and Sciences (Contributor) / School of Life Sciences (Contributor) / Biodesign Institute (Contributor) / School of Molecular Sciences (Contributor) / Applied Structural Discovery (Contributor) / Personalized Diagnostics (Contributor)
Created2017-02-22
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This thesis presents a process by which a controller used for collective transport tasks is qualitatively studied and probed for presence of undesirable equilibrium states that could entrap the system and prevent it from converging to a target state. Fields of study relevant to this project include dynamic system modeling,

This thesis presents a process by which a controller used for collective transport tasks is qualitatively studied and probed for presence of undesirable equilibrium states that could entrap the system and prevent it from converging to a target state. Fields of study relevant to this project include dynamic system modeling, modern control theory, script-based system simulation, and autonomous systems design. Simulation and computational software MATLAB and Simulink® were used in this thesis.
To achieve this goal, a model of a swarm performing a collective transport task in a bounded domain featuring convex obstacles was simulated in MATLAB/ Simulink®. The closed-loop dynamic equations of this model were linearized about an equilibrium state with angular acceleration and linear acceleration set to zero. The simulation was run over 30 times to confirm system ability to successfully transport the payload to a goal point without colliding with obstacles and determine ideal operating conditions by testing various orientations of objects in the bounded domain. An additional purely MATLAB simulation was run to identify local minima of the Hessian of the navigation-like potential function. By calculating this Hessian periodically throughout the system’s progress and determining the signs of its eigenvalues, a system could check whether it is trapped in a local minimum, and potentially dislodge itself through implementation of a stochastic term in the robot controllers. The eigenvalues of the Hessian calculated in this research suggested the model local minima were degenerate, indicating an error in the mathematical model for this system, which likely incurred during linearization of this highly nonlinear system.
Created2020-12
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As urban populations increase, so does the demand for innovative transportation solutions which reduce traffic congestion, reduce pollution, and reduce inequalities by providing mobility for all kinds of people. One emerging solution is self-driving vehicles, which have been coined as a safer driving method by reducing fatalities due to driving

As urban populations increase, so does the demand for innovative transportation solutions which reduce traffic congestion, reduce pollution, and reduce inequalities by providing mobility for all kinds of people. One emerging solution is self-driving vehicles, which have been coined as a safer driving method by reducing fatalities due to driving accidents. While completely automated vehicles are still in the testing and development phase, the United Nations predict their full debut by 2030 [1]. While many resources are focusing their time on creating the technology to execute decisions such as the controls, communications, and sensing, engineers often leave ethics as an afterthought. The truth is autonomous vehicles are imperfect systems that will still experience possible crash scenarios even if all systems are working perfectly. Because of this, ethical machine learning must be considered and implemented to avoid an ethical catastrophe which could delay or completely halt future autonomous vehicle development. This paper presents an experiment for determining a more complete view of human morality and how this translates into ideal driving behaviors.
This paper analyzes responses to deviated Trolley Problem scenarios [5] in a simulated driving environment and still images from MIT’s moral machine website [8] to better understand how humans respond to various crashes. Also included is participants driving habits and personal values, however the bulk of that analysis is not included here. The results of the simulation prove that for the most part in driving scenarios, people would rather sacrifice themselves over people outside of the vehicle. The moral machine scenarios prove that self-sacrifice changes as the trend to harm one’s own vehicle was not so strong when passengers were introduced. Further defending this idea is the importance placed on Family Security over any other value.
Suggestions for implementing ethics into autonomous vehicle crashes stem from the results of this experiment but are dependent on more research and greater sample sizes. Once enough data is collected and analyzed, a moral baseline for human’s moral domain may be agreed upon, quantified, and turned into hard rules governing how self-driving cars should act in different scenarios. With these hard rules as boundary conditions, artificial intelligence should provide training and incremental learning for scenarios which cannot be determined by the rules. Finally, the neural networks which make decisions in artificial intelligence must move from their current “black box” state to something more traceable. This will allow researchers to understand why an autonomous vehicle made a certain decision and allow tweaks as needed.
Created2019-05
Description
In eukaryotes, most messenger RNA precursors (pre-mRNA) undergo extensive processing, leading to the cleavage of the transcript followed by the addition of a poly(A) tail. This process is executed by a large complex known as the Cleavage and Polyadenylation Complex (CPC). Its central subcomplex, the Cleavage and Polyadenylation Specificity Factor

In eukaryotes, most messenger RNA precursors (pre-mRNA) undergo extensive processing, leading to the cleavage of the transcript followed by the addition of a poly(A) tail. This process is executed by a large complex known as the Cleavage and Polyadenylation Complex (CPC). Its central subcomplex, the Cleavage and Polyadenylation Specificity Factor (CPSF) complex is responsible for recognizing a short hexameric element AAUAAA located at the 3’end in the nascent mRNA molecule and catalyzing the pre-mRNA cleavage. In the round nematode C. elegans, the cleavage reaction is executed by a subunit of this complex named CPSF3, a highly conserved RNA endonuclease. While the crystal structure of its human ortholog CPSF73 has been recently identified, we still do not understand the molecular mechanisms and sequence specificity used by this protein to induce cleavage, which in turn would help to understand how this process is executed in detail. Additionally, we do not understand in additional factors are needed for this process. In order to address these issues, we performed a comparative analysis of the CPSF3 protein in higher eukaryotes to identify conserved functional domains. The overall percent identities for members of the CPSF complex range from 33.68% to 56.49%, suggesting that the human and C. elegans orthologs retain a high level of conservation. CPSF73 is the protein with the overall highest percent identity of the CPSF complex, with its active site-containing domain possessing 74.60% identity with CPSF3. Additionally, we gathered and expressed using a bacterial expression system CPSF3 and a mutant, which is unable to perform the cleavage reaction, and developed an in vitro cleavage assay to test whether CPSF3 activity is necessary and sufficient to induce nascent mRNA cleavage. This project establishes tools to better understand how CPSF3 functions within the CPC and sheds light on the biology surrounding the transcription process as a whole.
ContributorsGallante, Christina (Author) / Mangone, Marco (Thesis director) / Sharma, Shalini (Committee member) / Hrach, Heather (Committee member) / School of Life Sciences (Contributor) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2020-05
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This paper presents a variable damping controller that can be implemented into wearable and exoskeleton robots. The variable damping controller functions by providing different levels of robotic damping from negative to positive to the coupled human-robot system. The wearable ankle robot was used to test this control strategy in the

This paper presents a variable damping controller that can be implemented into wearable and exoskeleton robots. The variable damping controller functions by providing different levels of robotic damping from negative to positive to the coupled human-robot system. The wearable ankle robot was used to test this control strategy in the different directions of motion. The range of damping applied was selected based on the known inherent damping of the human ankle, ensuring that the coupled system became positively damped, and therefore stable. Human experiments were performed to understand and quantify the effects of the variable damping controller on the human user. Within the study, the human subjects performed a target reaching exercise while the ankle robot provided the system with constant positive, constant negative, or variable damping. These three damping conditions could then be compared to analyze the performance of the system. The following performance measures were selected: maximum speed to quantify agility, maximum overshoot to quantify stability, and muscle activation to quantify effort required by the human user. Maximum speed was found to be statistically the same in the variable damping controller and the negative damping condition and to be increased from positive damping controller to variable damping condition by 57.9%, demonstrating the agility of the system. Maximum overshoot was found to significantly decrease overshoot from the negative damping condition to the variable damping controller by 39.6%, demonstrating an improvement in system stability with the variable damping controller. Muscle activation results showed that the variable damping controller required less effort than the positive damping condition, evidenced by the decreased muscle activation of 23.8%. Overall, the study demonstrated that a variable damping controller can balance the trade-off between agility and stability in human-robot interactions and therefore has many practical implications.
ContributorsArnold, James Michael (Author) / Lee, Hyunglae (Thesis director) / Yong, Sze Zheng (Committee member) / Mechanical and Aerospace Engineering Program (Contributor) / School for Engineering of Matter,Transport & Enrgy (Contributor) / Barrett, The Honors College (Contributor)
Created2019-12
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The successful reduction of CO2 and protons by a light-induced cobalt porphyrin/cytb562 hybrid metalloenzyme in water is reported. Incorporation of the porphyrin into a protein scaffold results in increases in CO and H2 production over naked porphyrin. Rational point mutations to the CoPPIX binding site of cytb562 modulate production,

The successful reduction of CO2 and protons by a light-induced cobalt porphyrin/cytb562 hybrid metalloenzyme in water is reported. Incorporation of the porphyrin into a protein scaffold results in increases in CO and H2 production over naked porphyrin. Rational point mutations to the CoPPIX binding site of cytb562 modulate production, indicating possible further improvements in catalytic activity.
ContributorsGwerder, Noah D (Author) / Ghirlanda, Giovanna (Thesis director) / Williams, Peter (Committee member) / Mangone, Marco (Committee member) / School of Molecular Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2020-05