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Viability Of A Controllable Chaotic Micromixer Through The Use Of Titanium-Nickel Shape Memory Alloy, David Ryan Lilly

Theses and Dissertations--Mechanical and Aerospace Engineering

Microfluidic devices have found applications in a number of areas, such as medical analysis, chemical synthesis, biological study, and drug delivery. Because of the small channel dimensions used in these systems, most microchannels exhibit laminar flow due to their low Reynold’s number, making mixing of fluids very challenging. Mixing at this size scale is diffusion-limited, so inducing chaotic flow patterns can increase the interface surface area between two fluids, thereby decreasing overall mixing time.

One method to create a chaotic flow within the channel is through the introduction of internal protrusions into the channel. In such an application protrusions that …

Developing A Tool To Characterize The Ultradian Rhythm In Diploid Saccharomyces Cervisiae Using The Reporter Gene Green Fluorescent Protein, Imran Chiragh

LSU Master's Theses

Biological rhythms control many temporal behaviors of organism, such as the sleep cycle, hearts rhythms, seasonal animal migrations etc. Understanding these rhythms would provide insight into the temporal process of living organisms. Saccharomyces cerevisiae, a budding yeast, is an ideal model organism to study biological rhythms in eukaryotic cells because of its sequenced genome and discerned processes. By characterizing the biological rhythm in budding yeast, insight can be gained into more complex organisms. Previous studies have exhibited oscillatory behavior of oxygen consumption and determined that deletion of the GTS1 gene dissipates this rhythm. However, to further understand the specific behavior …

Computational Discovery Of Phenotype Related Biochemical Processes For Engineering, Andrea M. Rocha

USF Tampa Graduate Theses and Dissertations

Application of bioengineering technologies for enhanced biological hydrogen production is a promising approach that may play a vital role in sustainable energy. Due to the ability of several naturally occurring microorganisms to generate hydrogen through varying metabolic processes, biological hydrogen has become an attractive alternative energy and fuel source.

One area of particular interest is the production of biological hydrogen in organically-rich engineered systems, such as those associated with waste treatment. Despite the potential for high energy yields, hydrogen yields generated by bacteria in waste systems are often limited due to a focus on microbial utilization of organic material towards …

A Domain Specific Language Based Approach For Developing Complex Cloud Computing Applications, Ashwin Kumar Manjunatha

Browse all Theses and Dissertations

Computing has changed. Lately, a slew of cheap, ubiquitous, connected mobile devices as well as seemingly unlimited, utility style, pay as you go computing resources has become available at the disposal of the common man. The latter commonly called Cloud Computing (or just Cloud) is democratizing computing by making large computing power accessible to people and corporations around the world easily and economically.

However, taking full advantage of this computing landscape, especially for the data intensive domains, has been hampered by many factors, the primary one being the complexity in developing applications for the variety of available platforms.

This thesis …

Modeling And Testing Of Dna Motion For Nanoinjection, Regis Agenor David

Theses and Dissertations

A new technique, called nanoinjection, is being developed to insert foreign DNA into a living cell. Such DNA transfection is commonly used to create transgenic organisms vital to the study of genetics, immunology, and many other biological sciences. In nanoinjection, DNA, which has a net negative charge, is electrically attracted to a micromachined lance. The lance then pierces the cell membranes, and the voltage on the lance is reversed, repelling the DNA into the cell. It is shown that DNA motion is strongly correlated to ion transport through a process called electrophoresis. Gel electrophoresis is used to move DNA using …

Modeling And Its Numerical Method For Micro-Scaled Diffusion -Reaction Systems In The Neuromuscular Junction, Abdul Khaliq

Doctoral Dissertations

The main subject of this research is the neuromuscular junction (NMJ). The NMJ is a biological structure composed of the interface between a neuron and a muscle cell. Currently, there is not a fully three dimensional model of diffusion-reaction processes occurring in the NMJ. Developing a useful predictive model of this structure will assist in the therapeutic efforts to restore and rehabilitate NMJ function to humans and in developing strategies to prevent damage to the NMJ. This research work developed 1D mass transport and full 3D reaction diffusion models. A new finite difference scheme is presented for solving 1D mass …

Gold Nanoparticles And Their Polymer Composites: Synthesis Characterization And Applications, Nidhi Joshi

USF Tampa Graduate Theses and Dissertations

Gold nanoparticles are excellent candidates for all the biomedical applications due to their size and shape dependent optical and physiological properties. In this study, gold nanoparticles were synthesized chemically for bio-application. It was observed that the size and shape of gold nanoparticles depend strongly on the concentration of chemical solution, type of reducing agent used in the reaction, temperature of the solution and stabilizing agent for reaction. Transmission electron microscopy (TEM) has been used extensively to determine the size and shape of the gold nanoparticles. Optical properties of the size and shape selected nanoparticles were studied using UV-vis spectrophotometer in …

Caged Morpholino Oligonucleotide For Control Of Gene Expression In Zebrafish, Chad Michael Jarreau

LSU Master's Theses

To control gene expression in vivo with spatial and temporal precision remains a significant hurdle in laboratory studies of development as well as clinical genetic therapies. Here we demonstrate such control over gene expression by use of photochemistry to reversibly inactivate the hybridization of a nucleic acid analog used for specific protein knockdown. A morpholino oligonucleotide, commonly used for knockdown of protein expression in developmental studies, was “caged” using carbodiimide conjugate chemistry which yielded photocleavable adducts that can be removed with light exposure. Photochemical inactivation approaches to produce caged molecules have been used to control the spatiotemporal activity of biomolecules …

Design, Fabrication, And Implementation Of A Single-Cell Capture Chamber For A Microfluidic Impedance Sensor, Joshua-Jed Doria Fadriquela

Master's Theses

A microfluidic device was created for single-cell capture and analysis using polydimethylsiloxane (PDMS) channels and a glass substrate to develop a microfluidic single-cell impedance sensor for cell diagnostics. The device was fabricated using photolithography to create a master mold which in turn will use soft lithography to create the PDMS components for constant device production. The commercial software, COMSOLTM Multiphysics, was used to quantify the fluid dynamics in shallow micro-channels.

The device will be able to capture a cell and sequester it long enough to enable measurement of the impedance spectra that can characterize cell. The proposed device will be …

Site-Specific Deoxyribonucleic Acid Modifications For Use With Chemical Cages, John P. Casey Jr

Honors Capstones

No abstract provided.

Development Of An In-Vitro Tissue Engineered Blood Vessel Mimic Using Human Large Vessel Cell Sources, Dimitri E. Delagrammaticas

Master's Theses

Tissue engineering is an emerging field that offers novel and unmatched potential medical therapies and treatments. While the vast aim of tissue engineering endeavors is to provide clinically implantable constructs, secondary applications have been developed to utilize tissue-engineered constructs for in-vitro evaluation of devices and therapies. Specifically, in-vitro blood vessel mimics (BVM) have been developed to create a bench-top blood vessel model using human cells that can be used to test and evaluate vascular disease treatments and intravascular devices. Previous BVM work has used fat derived human microvascular endothelial cells (EC) sodded on an ePTFE scaffold. To create a more …

Laser Levitation Of Solid Particles For Combustion And Gasification Applications, Skigh E. Lewis

Theses and Dissertations

This dissertation details theoretical and experimental work in the development of a novel combustion diagnostic: laser levitation of solid particles. Theoretical analyses of the forces involved in the suspension of solid particles in a laser beam provide a comprehensive description of the levitation mechanism. Experimental work provides extensive observations and data that describe each of the forces involved, including results from detailed models. Theoretical models establish that a free-convective drag force, light scattering, photon momentum, and other minor forces contribute to the trapping mechanism. The theory quantitatively predicts particle temperature and magnitudes of each of the forces involved. Experimental measurements …

Biotechnology For Immune Cell Detection And Evaluation : Devices Specifically Designed To Capture, Detect Or To Evaluate Alterations In Leukocyte Structure And Function, Thomas Joseph Zieziulewicz

Legacy Theses & Dissertations (2009 - 2024)

The advent of Nano-biotechnology has opened a whole new area of biological study that has allowed us to pattern, manipulate, separate, evaluate and detect biological structures and functions that were previously not possible. This dissertation will describe different types of micro-fabricated devices that were designed to quantify and/or evaluate the functional activities of cells of the immune system. The micro-fabricated devices were developed in collaboration with our colleagues at Princeton University as part of our Cellular Micro-dynamics Program of the Nanobiotechnology Center (NBTC) at Cornell University.

An Experimental And Numerical Investigation Of Flapping And Plunging Wings, Taylor A. Swanson

Doctoral Dissertations

"Micro air vehicles, or MAVs, are of current interest for a multitude of uses to which they, being small, unmanned vehicles, are uniquely suited. Among the proposed uses are exploration, reconnaissance, and communications. They can be deployed inside buildings, where their small size, hovering capability, and maneuverability, are important factors. Due to their small size, they operate at low Reynolds numbers where conventional flying mechanisms are not advantageous. Thus, attempts have been made to learn from natural flyers like insects and birds. Natural flight is accomplished by flapping wings, and this idea has been proposed for certain types of MAVs …

Genomics: Gtl 2008 Strategic Plan, Sharlene Weatherwax

United States Department of Energy: Publications

Table of Contents:
Mission-Inspired Science
GTL Concept and History
National Academy of Sciences Evaluation of GTL Program
GTL’s Fundamental Research Approach to Its Mission
Hallmarks of the GTL Research Approach
Multiscale Explorations
Office of Biological and Environmental Research User Facilities
Metamethods: Metagenomics and Metaproteomics
Robust Computational Framework for GTL Research
GTL Information and Data Sharing Policy
Elaboration of GTL Science for DOE Missions
Systems Biology for Energy Solutions
Systems Biology for Understanding the Carbon Cycle
Planet-Transforming Microbes
Systems Biology for Understanding Contaminant Transport in the Environment
Microbe-Mineral Interface in Contaminated Environments
DOE Office of Science
DOE Office of Biological and …

Alayzing The Effects Of Modularity On Search Spaces, Ozlem Garibay

Electronic Theses and Dissertations

We are continuously challenged by ever increasing problem complexity and the need to develop algorithms that can solve complex problems and solve them within a reasonable amount of time. Modularity is thought to reduce problem complexity by decomposing large problems into smaller and less complex subproblems. In practice, introducing modularity into evolutionary algorithm representations appears to improve search performance; however, how and why modularity improves performance is not well understood. In this thesis, we seek to better understand the effects of modularity on search. In particular, what are the effects of module creation on the search space structure and how …

Algorithmic Techniques Employed In The Isolation Of Codon Usage Biases In Prokaryotic Genomes, Douglas W. Raiford Iii

Browse all Theses and Dissertations

While genomic sequencing projects are an abundant source of information for biological studies ranging from the molecular to the ecological in scale, much of the information present may yet be hidden from casual analysis. One such information domain, trends in codon usage, can provide a wealth of information about an organism's genes and their expression. Degeneracy in the genetic code allows more than one triplet codon to code for the same amino acid, and usage of these codons is often biased such that one or more of these synonymous codons is preferred. Isolation of translational efficiency bias can have important …

Metalloporphyrin Catalyzed Degradation Of Pce: Effects Of Reductants, Buffers And Cosolvent Concentration, Sowmya Suryanarayanan

All Theses

Reductive dechlorination of chlorinated organic contaminants using metalloporphyrins as catalysts may be an effective approach to treat widespread contamination. However, most previous studies have examined water-soluble rather than insoluble metalloporphyrins despite the fact that the latter category makes up the largest fraction found in nature. Recent studies have shown that addition of different cosolvents to water can activate otherwise non-reactive metalloporphyrin catalysts and facilitate the reduction of tetrachloroethylene (PCE), presumably by the mere process of making the otherwise insoluble metalloporphyrins dissolve in solution. Therefore, solubility has been advanced as a key factor in the ability of metalloporphyrins to catalyze organic …

Gene Synthesis, Cloning, Expression, Purification And Biophysical Characterization Of The C2 Domain Of Human Tensin, Kiran Sukumar Gajula

Doctoral Dissertations

Tensin is a large "docking" protein found in the adhesive junctions of animal cells and recruited early in the development of cell-substrate contacts. There it binds to the cytoplasmic domain of integrin β1 and caps the barbed ends of filamentous actin. This forms a rational basis for its implication in a direct role in the mechanics of membrane-cytoskeleton interactions. Tensin provides a physical link between the actin cytoskeleton, integrins, and other proteins at the cell-substrate contacts. Its overall biochemical properties are a function of its domain composition and architecture, i.e., the domains that are present and their relative positions in …

A Hybrid First Year Science Course For Engineering Students – Integrating Biology With Chemistry, David Harding, Pauline Schwartz, Jean Nocito-Gobel, Agamemnon Koutsospyros

Civil Engineering Faculty Publications

Biology is playing an increasingly important role in many engineering fields. With the typical engineering program already having a high credit hour requirement, the question becomes, how to best integrate biology concepts into a packed engineering curriculum. A typical biology course is not likely to introduce the important concepts of biology to engineering students. The solution here is to develop a hybrid course that integrates chemistry and biology. In the course, Chemistry with Applications to Biosystems, the concept is to develop a course that integrally links important concepts of chemistry and biology. The course focuses on the areas of biology …

Viability, Functionality, And Genetic Assessment Of Cells After Laser Guidance, Tabitha Rosenbalm

All Theses

We systematically vary the controllable laser parameters, namely, wavelength, intensity, and exposure time of the laser on single cells to clearly establish laser parameters that allow negligible cell damage with significant cellular position control. To accomplish this goal, embryonic day 7 (E7) chick forebrains neurons were cultured with control and test cells selected one hour after seeding to allow attachment, at which time test cells were subjected to the laser. Cells were imaged at 4, 12, 24, and 36 hours after laser exposure to evaluate viability and functionality by using the Live/Dead Viability Cytotoxicity Kit (Molecular Probes L3224) and measuring …

Synthesis And Antimalarial Activity Of New Isotebuquine Analogues, Olga V. Miroshnikova, Thomas H. Hudson, Lucia Gerena, Dennis E. Kyle, Ai J. Lin

United States Army: Publications

Amodiaquine (AQ) and tebuquine are 4-aminoquinoline antimalarials with Mannich base side chain and are highly effective against chloroquine (CQ)-resistant strains of Plasmodium falciparum. Clinical use of AQ has been severely restricted due to hepatoxicity and agranulocytosis side effects associated with its long term use. Lysosomal accumulation and bioactivation to generate reactive quinoneimine metabolite are implicated to be the cause of the observed AQ toxicities. To avoid the quinoneimine formation and thus the toxicity, a series of isotebuquine analogues and their N^ω-oxides with hydroxy group meta to the amino rather than in para position of the aniline moiety …

Introducing Journal Of Biological Engineering, Mark R. Riley

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Welcome to Journal of Biological Engineering (JBE), the flagship publication of the Institute of Biological Engineering. Biological Engineering is a new and unique discipline that encompasses a wide range of engineering theory and practice connected to and derived from biology. This emerging science-based engineering discipline and related applications are experiencing rapid growth. Prior to publication of JBE there is no refereed publication that encompasses the breadth and depth of biological engineering as a science- based discipline, rather than a collection of applications. Our goal in publishing JBE is to provide a forum for topics that address the foundational …

Adhesion-Delamination Mechanics Of Linear And Axisymmetric Film At Film-Substrate Interface, Ming-Fung Wong

Masters Theses

"This thesis is to characterize the thin membrane adhesion-delamination phenomena which occur in biological cells and micro-electro-mechanical systems (MEMS) operation. The delamination of a thin film adhered to a rigid substrate is subjected to the coupling effects of tensile residual stress and interfacial adhesion energy. The adhesion-delamination mechanics is derived using the classical linear elasticity and thermodynamics energy balance. The membrane deformation is here dominated by a mixed plate-bending and membrane-stretching, while the concomitant stress is neglected. An 1-dimensional model is first investigated where a pre-stressed rectangular film clamped at both ends delaminates from a rigid punch of the same …

Juvenile Crawfish (Procambarus Clarkii) Lc50 Mortality From South Louisiana Crude, Peanut And Mineral Oil, Okey Umejuru

LSU Master's Theses

Nearly every continent has species of crawfish that inhabit wetlands or are near coastal areas where petroleum and other oils are produced, transported, and accidentally released. Most crawfish cannot tolerate polluted water. Thus, they could serve as biomonitors of fossil fuel, biofuel, and other oil releases and assess potential negative impacts such oils have on wetland and coastal ecosystems. The objectives of this study were to estimate the acute toxicity of three oils to juvenile crawfish and determine if toxicity was due to poisoning or interference with oxygen transfer across the gills. Juvenile crawfish (Procambarus clarkii) were tested for acute …

Fabrication Of Perforated Polymer Membranes Using Imprinting Technology, Anish Roychowdhury

LSU Master's Theses

The goal of the present study was to fabricate perforated membrane structures in polymers with the pore diameter ranging from 10 ìm down to the sub ìm scale. The perforated membrane structure plays an important role in many biological systems. Thus the ability to reproduce such architecture will help with the study of biological systems by mimicking biological cell membrane-like structures and open new vistas in the study of transport behavior in cell biology and the separation of biological vesicles. Such structures also have potential uses as components in polymer optics and modular micro/nanofluidic devices. Use of polymer substrates is …

Bridge Damage Detection Using An Intelligent Engineering System, Dionysios N. Danilatos

Masters Theses

"This thesis concerns the design of an algorithm that is capable to detect structural damage in civil infrastructure bridges. The algorithm, which will be dubbed Damage Diagnostics System throughout the thesis, is the software component of a broader Bridge Health Monitoring System. This broader system integrates software and hardware,such as sensors and data acquisition components...The rationale for the Structural Damage Diagnosis is based on the principle of the structural vibration testing. The Health Monitoring System captures the vibration signals, as the bridge responds to excitation from various sources. The purpose of the Diagnostic System is to extract information from the …

Whole Genome Duplications And Contracted Breakpoint Graphs, Max A. Alekseyev, Pavel A. Pevzner

Faculty Publications

The genome halving problem, motivated by the whole genome duplication events in molecular evolution, was solved by El-Mabrouk and Sankoff in the pioneering paper [SIAM J. Comput., 32 (2003), pp. 754–792]. The El-Mabrouk–Sankoff algorithm is rather complex, inspiring a quest for a simpler solution. An alternative approach to the genome halving problem based on the notion of the contracted breakpoint graph was recently proposed in [M. A. Alekseyev and P. A. Pevzner, IEEE/ACM Trans. Comput. Biol. Bioinformatics, 4 (2007), pp. 98–107]. This new technique reveals that while the El-Mabrouk–Sankoff result is correct in most cases, it does not hold in …

Development Of Self-Assembled Monolayer-Based Cell Culture Platform Towards Fabrication Of A Three-Dimensional Bioreactor, Rajendra Kandoor Aithal

Doctoral Dissertations

The extracellular matrix (ECM) plays an important role in regulating a number of cellular properties and functions like cell differentiation, cell synthesis and degradation, cell viability and proliferation, cell function, and cell aging. Surface modification of planar substrates with self-assembled monolayers (SAMs) is a promising technique to achieve stable ECMs.

In this work, substrates such as silicon (Si), gallium arsenide (GaAs) and indium tin oxide (ITO) substrates were modified with SAMS containing amino (-NH2), methyl (-CH3), thiol (-SH) and carboxylic (-COOH) end groups and characterized using contact angle measurements, surface infrared (IR) spectroscopy and atomic force microscopy (AFM). Different cell …

Fundamental Aspects Of Regenerative Cerium Oxide Nanoparticles And Their Applications In Nanobiotechnology, Swanand Patil

Electronic Theses and Dissertations

Cerium oxide has been used extensively for various applications over the past two decades. The use of cerium oxide nanoparticles is beneficial in present applications and can open avenues for future applications. The present study utilizes the microemulsion technique to synthesize uniformly distributed cerium oxide nanoparticles. The same technique was also used to synthesize cerium oxide nanoparticles doped with trivalent elements (La and Nd). The fundamental study of cerium oxide nanoparticles identified variations in properties as a function of particle size and also due to doping with trivalent elements (La and Nd). It was found that the lattice parameter of …