Digital Commons Network^™

Modeling Of Flexible Drug-Like Molecules : Qsar Of Gbr 12909 Analog Dat/Sert Selectivity, Kathleen Mary Gilbert

Dissertations

The dopamine reuptake inhibitor GBR 12909 and related dialkyl piperazine and piperidine analogs have been studied as agonist substitution therapies acting on the dopamine transporter (DAT) to treat cocaine addiction. Undesirable binding to the serotonin transporter (SERT) can vary greatly depending on the specific substituents on the molecule. This study uses Comparative Molecular Field Analysis (CoMFA) and Comparative Molecular Similarity Indices (CoMSIA) techniques to determine a stable and predictive model for DAT/SERT selectivity for a set of flexible GBR 12909 analogs.

Families of analogs were constructed from six pairs of naphthyl-substituted piperazine and piperidine templates identified by hierarchical clustering as …

Mechanics Of Biocell Landfill Settlements, Chamil Hiroshan Hettiarachchi

Dissertations

Prediction of landfill gas generation and settlements are of concerns in design and maintenance of biocell landfills. Accurate settlement prediction is essential for design of piping systems used for the delivery of re-circulated leachate and recovery of landfill gas. Landfill settlement is the result of change in overburden stresses and biodegradation of waste. Biodegradation-induced settlement results from the re-arrangement of waste skeleton in response to the decomposition of waste mass.

Current practice of landfill settlement modeling is predominantly empirical, thus most of the available techniques make no attempt to simulate the real mechanisms of waste settlement. Traditionally compressibility index is …

Direct Numerical Simulations And Experimental Investigation Of Dielectrophoresis, Arun Thankamony John-Kadaksham

Dissertations

This dissertation deals with the numerical and experimental studies of the phenomenon of dielectrophoresis, i.e., the motion of neutral particles in nonuniform electric fields. Dielectrophoresis is the translatory motion of neutral particles suspended in a dielectric medium when they are subjected to an external nonuniform electric field. The translatory motion occurs because a force called the dielectrophoretic force, which depends on the spatial variation of the electric field, acts on the particles. As the generation of force involves no moving parts and the particles can be moved without touching them, dielectrophoresis can be used in many applications, including manipulation and …

Evaluating Rhizodegradation Of Petroleum Hydrocarbons And Polycyclic Aromatic Hydrocarbons In Wetland Sediments Containing Spartina Patens, Robert J. Lippencott

Dissertations

Biodegradation of petroleum hydrocarbons (PHC) and 16 polycyclic aromatic hydrocarbon (PAH) compounds was evaluated in sediments from a stormwater basin that was a former salt marsh at an active oil refinery. Spartina patens were grown in basin sediments during a field study and a greenhouse study over three consecutive growing seasons. Ninety percent (90%) survival was observed in field study plots containing sediments with <12% PHC. In the greenhouse study, planted and bulk sediments were monitored for PHC, PAH, microbial density, nutrients, pH, redox and root biomass at 2.5 and 7.5 cm in sediments with <12% PHC. The sediments contained on average 6.5% to 9.5% PHC and 56 to 124 parts per million (ppm) total PAH. The plants exhibited a 95% survival rate and added from 1% to 2% root biomass to the sediment. Microbial densities in planted sediments were significantly higher than in bulk sediments (p<0.05). Oxidizing conditions were prevalent in all treatments at both depths; however, reducing conditions developed in the planted sediments at 7.5 cm. PHC was 35% to 37% lower in the planted sediments vs. bulk sediment at the end of the study. Planted sediment PAH concentrations were generally lower than in bulk sediments. Low MW PAHs (2 and 3-Rings) were either absent or at relatively low concentrations in all treatments. Phenanthrene concentrations in bulk sediments did not change, but were reduced by 95% in planted sediments (p<0.01), with half-life estimates of 141 to 165 days at 2.5 cm. Temporal changes in high MW PAHs ( 4-Rings) were not observed over the greenhouse study period. Differences in PAH concentrations between planted and bulk sediments exhibited a decreasing trend with PAH molecular weight. Evaluation of differences in planted and bulk sediment PAH concentrations suggests that lower MW PAHs degrade better under oxidizing conditions, and higher MW PAHs under reducing conditions in the planted sediments. Comparison of planted and bulk sediment PAH concentrations links depth and redox conditions to decreases in PAH as a function of PAH MW. Therefore, it was concluded that spatio-temporal variations and cycling of redox conditions should be considered to properly evaluate biodegradation of PAH.

Simulation Of Creep In Nickel Based Single Crystal Superalloys, Yunhong Pang

Dissertations

Nickel based single crystal Superalloys are finding wide spread use in high temperature gas turbines and other similar applications because of their superior high-temperature strength and creep properties as compared to the other materials. This is due to two factors: solid solution and precipitation strengthening of the gamma (γ) and gamma prime (γ') phases, and the elimination of grain boundaries. Creep of Nickel based single crystal Superalloys are caused by two primary mechanisms, dislocation creep and diffusion creep. Several factors that affect the creep life of Nickel based single crystal Superalloys are the specific microstructure, stress, temperature and rafting. Also, …

Bioinformatics Study Of Mammalian Mrna Polydenylation, Haibo Zhang

Dissertations

Messenger RNA polyadenylation is one of the key post-transcriptional events in mammalian cells, which have influences on many aspects of mRNA metabolism. Several human diseases have been shown to associate with abnormal polyadenylation, highlighting the importance of this process. The availability of the complete sequence of human and mouse genomes, together with their gene expression data provides valuable resources to study mRNA polyadenylation on a system level. This dissertation addresses the following issues of mammalian mRNA polyadenylation through bioinformatics approaches: (1) the extensive documentation of several key aspects of polyadenylation sites in humans and mice on a genomic level; (2) …

High-Dimensional Indexing Methods Utilizing Clustering And Dimensionality Reduction, Lijuan Zhang

Dissertations

The emergence of novel database applications has resulted in the prevalence of a new paradigm for similarity search. These applications include multimedia databases, medical imaging databases, time series databases, DNA and protein sequence databases, and many others. Features of data objects are extracted and transformed into high-dimensional data points. Searching for objects becomes a search on points in the high-dimensional feature space. The dissimilarity between two objects is determined by the distance between two feature vectors. Similarity search is usually implemented as nearest neighbor search in feature vector spaces. The cost of processing k-nearest neighbor (k-NN) queries via a sequential …

The Control Of Frequency Of A Conditional Oscillator Simultaneously Subjected To Multiple Oscillatory Inputs, Christina L. Ambrosio

Dissertations

A conditional oscillator is one that requires input to oscillate. An example of such is the gastric mill network of the stomatogastric ganglion of the crab Cancer borealis which requires modulatory input from outside the stomatogastric ganglion and fast input from the pyloric network of the animal in order to become active. This dissertation studies how the frequency of the gastric mill network is determined when it is simultaneously subjected to two different rhythmic inputs whose timing may be mismatched. We derive a mathematical model of the gastric mill network and deduce that the difference in timing between the pyloric …

Characterization Of Mismatch Between Behavioral Stimuli And Frmi Data Using The Kalman Filter, Jason Steffener

Dissertations

The advance of blood oxygen level dependent function magnetic resonance imaging, (BOLD fMRI), allows researchers to non-invasively investigate the functioning human brain. The BOLD fMRI response to brief stimuli is called the hemodynamic response function (HRF), which can vary across brain regions and across subjects.

Models of the HRF are used to increase sensitivity of statistical maps; however, they often don't account for spatial and temporal variance. Physiological effects, such as learning, fatigue or habituation, introduce mismatch between statistical models and the data. Methods that use minimal a priori information and track time varying signals are able to show the …

Utility Of Remote Sensing Data In Retrieval Of Water Quality Consituents Concentrations In Coastal Water Of New Jersey, Ting Yu

Dissertations

Three important optical properties used for monitoring coastal water quality are the concentrations of chlorophyll (CHL), color dissolved organic matter (CDOM) and total suspended materials (TSM). Ocean color remote sensing, a technique to collect color data by detection of upward radiance from a distance (Bukata et al.,1995), provides a synoptic view for determining these concentrations from upwelling radiances. In the open ocean (Case-I), it is not difficult to derive empirical algorithms relating the received radiances to surface concentrations of water quality parameters. In coastal waters (Case-Il), there are serious unresolved problems in extracting chlorophyll concentration because of high concentration of …

As-637-05 Resolution On Intellectual Property Policy, Intellectual Property Review Committee

Academic Senate Resolutions

Adopts Intellectual Property Policy.

Development Of An Underwater Infrared Camera To Detect Manatees, Edward O. Keith

Marine & Environmental Sciences Faculty Reports

In calendar year 2004, watercraft related mortality was the second leading cause of death of the Florida manatee (Trichechus manatus latirostris) accounting for 25% of total known manatee deaths. In an attempt to reduce this significant cause of manatee mortality, the Florida Fish and Wildlife Research Institute has instituted two rounds of Manatee Avoidance Technology grants. Herein I report the results of an evaluation of the ability of underwater infrared video cameras to detect captive manatees and other non-living targets. If such cameras could detect manatees at sufficient distances, they could be mounted in the bows of watercraft …

Disproportionate Representation Of Minority Students In The Special Education Program At The Kingsway Regional School District, Anthony J. Fitzpatrick

Theses and Dissertations

The purposes of this study were to (a) determine the proportion of representation of minority students in special education programs on a federal, state, and district-wide level; and (b) determine the needs of the Kingsway Regional School District in addressing any disproportionate representation that exists. The subject sample was the special education population in the United States as determined by IDEA. The sample population would be studied to ascertain the proportion of representation and the determination standards used to classify them. It was concluded that Kingsway did not have a problem with disproportionate representation but rather an issue with consistent …

Interrupting The Interaction Of Intercellular Adhesion Molecule-1 And Respiratory Syncytial Virus For Prevention And Treatment Of Infection, Shyam S. Mohapatra, Aruna Behera, Hiroto Matsuse, Mukesh Kumar

USF Patents

There is provided a method of preventing a respiratory infection by administering an effective amount of an agent for regulating ICAM-1 expression. Also provided is a composition for the prevention of respiratory infection including an agent which regulates ICAM expression. method of preventing RSV infection by administering an effective amount of an agent that interferes with the binding of RSV to ICAM-1. A method of preventing RSV infection by administering an effective amount of an agent that down regulates the expression of ICAM-1, thereby decreasing RSV binding to ICAM-1 is also provided. There is provided a method of treating RSV …

Critical And Creative Thinking Reflections Of An Adventure In Career Changing, Meghann Mcniff

Critical and Creative Thinking Capstones Collection

I came to the Critical and Creative Thinking (CCT) program to figure out what I want to do when I grow up. I had been in the military for eight years and felt unhappy and unfulfilled. In the CCT program I found a safe place to speak from my heart. I found support to share my questions, inspiration to try new ideas, and the guidance and knowledge to formulate a product. Thinking critically has disciplined my creative process, and taught me how to make use of my creative thinking. Through the application of reflective tools to think about my own …

Personal Evolution: Reflections On A Journey To Self-Understanding, Michelle K. Morgan

Critical and Creative Thinking Capstones Collection

This synthesis is a reflective narrative scaffolded by three years of living and learning in a culture of thinking. I designed it to function as a record of my personal thinking evolution that I can refer back when I need inspiration months or years from now, as it defines where I was when I arrived, includes salient highlights from my three years in the program and ends with future directions. I came to CCT as a discouraged teacher confused about my future in education and frustrated with the rigorous demands of preparing students for high stakes testing. Learning to employ …

Whatever Happened To Lisa Simpson? An Exploration Of Female Adolescent Development Through Problem Based Learning, Amy Perrault

Critical and Creative Thinking Capstones Collection

As a teacher for the past six years in a girls’ school, I have met and had the chance to interact with hundreds of adolescent girls. Over time I have come to realize how much adolescence seems to have changed since I was in their shoes. The media inundates them with messages about what is cool, hip, and acceptable—music videos, fashion, and the internet provide the frame of reference against which today’s young woman compares her own self worth. While girls have always looked to society’s standards to help them develop as individuals, at no time in history have the …

Academic Senate - Agenda, 5/31/2005, Academic Senate

Academic Senate Agendas

No abstract provided.

Tapping The Global Information Base To Build An Innovative Knowledge Society, Arthur J. Carty Dr

Proceedings of the IATUL Conferences

No abstract provided.

Sparklines As Effective Graphics, George Francy

Theses

This research explores a method of graphical display called a sparkline. Sparklines are a valid method to convey statistical information, supported by an easy familiarity among users and a desire, expressed by information design expert Edward Tufte, for greater density in data display. The subject is examined in light of the broader concept of the integration of pictures and text, tracing this tradition back to medieval illuminated texts, through history to Galileo, and to such diverse modem techniques as emoticons. The historical perspective is expanded upon through an examination of perception theory and implications for data graphics. Ethical issues of …

Short-Term Effects Of Bulkheads On The Bayshore Of Fire Island, New York, Dipanjali Chavan

Theses

Construction of bulkheads as a method of shore protection is common on the bay shoreline of Fire Island, New York but there are few studies that assess the effects of these structures on beach change in estuarine and lagoon environments. A short-term field study was conducted at Cherry Grove on Fire Island to assess the effect of a bulkhead on the fronting profile and to the adjacent beaches on the east side of the bulkhead. Data on winds, waves, and currents were gathered daily at high water. Data on profile change and depth of sediment activation were gathered at low …

Stereo Vision Algorithm Using Propagation Of Correspondences Along An Array Of Cameras, Danyan Ganjali

Theses

One well known problem in stereo vision is the trade-off between precision and accuracy.

In a conventional two camera model, as the baseline separating the two cameras becomes smaller, the images that both cameras produce become more identical. This results in a more accurate set of correspondences, however at the same time causing less precise depth measurement due to the small angle used for triangulation. Similarly, in a larger baseline model, the depth measurement is more precise while the correspondences are not as accurate as of the shorter baseline model. This thesis proposes a method that promises to solve the …

Spider Heuristics, Fiona R. Cross, Robert R. Jackson

All Peer-Reviewed Publications

Simple heuristics may help explain how even a spider, despite its minute brain, can be disturbingly intelligent. Hutchinson and Gigerenzer suggest that the generalist-specialist distinction (or more accurately the predictability-unpredictability distinction) may be related to a species' level of reliance on simple heuristics, and spider behaviour may present some especially instructive opportunities for investigating these ideas. Daniel Dennett's distinction between Darwinian, Skinnerian and Popperian animals might be useful for discerning the different contexts in which optimality considerations and individual decision making are relevant. © 2005 Elsevier B.V. All rights reserved.

Structure And Dynamics Of Soluble Guanylyl Cyclase, Kentaro Sugino

Theses

Soluble guanylyl cyclase (sGC) is one of the key enzymes involved in many fundamental biological processes including vasodilatation. It can be allosterically activated by synthetic compound such as YC-l. Recently, the 3D structure of adenylyl cyclase (AC), which is a homologue of sGC, was determined. Using AC as template and homology modeling, the 3D structure of sGC is predicted. Prior experimental work has suggested two binding modes of YC- 1. In the current investigation, molecular dynamics simulations (MD) were conducted to seek more detail of molecular mechanism of sGC activation.

From these MD simulations, a tentative mechanism of sGC activation …

Ambulatory Biopotential Measurement, Lakshmi Chitra Penugonda

Theses

Biopotential signals measure the electrical activity of different parts of the body. Conventional bedside monitors only provide information about the body under restricted conditions. Observation and documentation of biopotential signal during daily activities and the relation to patient symptoms may be important factors for clinical decision-making. Ambulatory monitoring helps to monitor the biopotential signal of a patient in the natural environment. The effective ambulatory system can help a physician to diagnose the patient's abnormality.

In this project, a low cost and flexible ambulatory biopotential system, compared to the commercially available systems, was designed and tested. Concurrently a software program was …

Planar Visual Fusion Scintigraphy, Jacob Puthiamadathil

Theses

Planar scintigraphy, while providing useful information about the distribution of the radiopharmaceutical being used, often does not provide adequate information about the surrounding anatomical structures. A proposed method to solve this problem is by registering and fusing a scintigraphic image with a digital visual image. Fusing planar scintigraphic images with visual photographic images to supply an anatomic correlate to regions of radiopharmaceutical accumulation has been explored in this study. The digital visual image will provide a context for the relevant structures in the scintigraphic image. The validity of using one set of affine transformation parameters for registering all patient data …

Analysis Of Acceleration And Deceleration During Cyclic Exercise, Jeena Vadi

Theses

The Cyclic Exercise Protocol is a novel protocol that is designed to create a series of cyclic waves of exercise and recovery. This exercise protocol involves short bursts of exercise lasting for 60 seconds or less followed by a period of complete cardio recovery. This study involves the analysis of the acceleration and the deceleration regions of the cyclic exercise sessions. The objective of this study was to develop an algorithm to quantitatively analyze the acceleration and the deceleration regions of cyclic exercise sessions. The acceleration and the deceleration regions of cycles were split into three segments and each segment …

Enabling Cost Aware Routing With Auctions In Wireless Ad-Hoc Networks, Ali Yuksel

Theses

Battery power is a precious resource in wireless ad-hoc networks, and most routing protocols that have been proposed so far do not generate cost efficient routes. In this thesis, a novel auction-based cost-aware routing scheme, called CARA, is presented. CARA is designed as an extension of the MAC layer, and is shown to improve the cost efficiency of existing ad-hoc routing protocols through dynamic power control, while introducing only minimal additional overhead. The MAC layer at each node is given the capability to run local sealed-bid second-price auctions for the user data packets that need to be transmitted, and to …

Non-Linear Digital Control Of A Mckibben Muscle System, Surinkumar Patel

Theses

McKibben muscles are pneumatic actuators that have potential application in the rehabilitation of persons with physical impairments. These actuators have been known to exhibit similarities in human musculoskeletal systems. In order to better understand and improve the closed - loop control of these pneumatic muscles, a physical joint model was constructed with an agonist and an antagonist muscle operating under non-linear control. With the use of LabVIEW software, compliant McKibben air muscles and Flock-of-Birds sensor, the author was able to implement and compare a standard bang-bang controller and experimental non-linear digital Proportional (P) controller. The feedback mechanism is based on …

The Effects Of Gamma Rays On Man-In-The-Moon Marigolds, Program

Theatre MSU and Blackfriars

The Effects of Gamma Rays on Man-in-the-moon Marigolds