Digital Commons Network^™

Moral Concerns In Genomic Medicine Beyond Gina, Stuart Paul Reeves

Theses

Genomic medicine, including pharmacogenomics, represents a potential paradigm shift in the diagnosis of disease and delivery of healthcare. Beyond the promise to address and resolve pandemics affecting specific ethnic/racial communities is the potential to develop pharmacological therapies custom tailored to the individual patient¿s genomic profile. However, the delivery of such promise rests on the contribution of genomic samples from individuals in communities where the culpable polymorphisms are present in high volumes. With the potential for an ever-widening disparity in overall population health among the socio-economic tiers in which these communities are often found, a theory of justice is needed to …

Benthic Macroinvertebrate Diversity In A Shallow Estuary: Controls On Nutrient And Algal Dynamics, Natalie Ann Mclenaghan

Theses

Nutrient loading has produced radical shifts in the structure and function of shallow estuaries, with substantial impacts upon the community composition of invertebrates and autotrophs. The progression of eutrophication is regulated by both bottom-up and top-down factors, which may be mediated by fauna via trophic interactions and nutrient release. We conducted field surveys of benthic invertebrates in West Falmouth Harbor (WFH), MA, an estuary subject to localized wastewater enrichment, across a 1 km gradient of suspected degradation. Dominant taxa included gammarid amphipods and nereidid, orbiniid, and capitellid polychaetes, with lower diversity and opportunistic species characterizing the inner basin nearest the …

Exploring The Relationships Between Executive Functions And The Big Five Personality Traits Using The Behavior Rating Inventory Of Executive Functioning-Adult Form, Kira Formicola

Theses

The purpose of the study was to examine the relationship between three subscales of the Behavior Rating Inventory of Executive Function-Adult Form (BRIEF-A) and the Big Five personality traits. The data used for this study consists of 126 hearing, college age participants from the Rochester Institute of Technology who were used as a control group for a previous study. As hypothesized, Emotional Regulation and Shift scales of the BRIEF shared a significant negative correlation with Neuroticism. Contrary to the hypothesis, the scale Inhibit shared a positive correlation with Agreeableness and Conscientiousness. Shift was significantly correlated with Openness to Experience. No …

A Localized Morphometric Study Of Panicum Virgatum And Sister Taxa (Poaceae: Panicoideae: Paniceae), Sarah Elizabeth Youngstrom

Theses

Morphological distinctions were evaluated between taxa of Panicum section Virgata Nees as recognized by Hitchcock and Chase (1951) and Freckmann and Lelong (2002b): P. virgatum var. virgatum, P. virgatum var. cubense, P. amarum subsp. amarum, and P. amarum subsp. amarulum, using morphometrics and greenhouse experiments on material from the southeastern United States, a region with the most extreme overlap in distribution. 31 characters for 104 specimens were subject to univariate, bivariate, and multivariate analyses. Spikelet bivariate graphs showed two groups with large (C) and small (A+B) spikelets. When habitat, distribution, and phenology was superposed on these graphs, non-exclusive trends polarized …

Past With Present: A Design Process, Spencer Knape Biegler

Theses

The design process detailed in this thesis addresses how a designer brings a design that is both relevant but dated into the present. Four stages make up the design process: investigation, scattered design, design réseau, and focused design, and the process covers the choice of artifact, historical and cultural research, and the conclusions derived from research. The chandelier acts as artifact in this design process iteration. The goal of the thesis project is a process that stresses both innovation as well as the cultural and symbolic importance of older designs; the outcome of this design iteration is honed chandelier concepts …

Unintended Consequences Of Ethanol Production: Geospatial Lifecycle Analysis, Amanda Louise Malone

Theses

Ethanol use has been lauded as a way to provide a secure, diverse, environmentally friendly and economically beneficial energy supply for the US. However, along with this praise has been criticism due to potential unintended consequences that may arise from ethanol production and use. This thesis addresses one such unintended consequence: the displacement of emissions from downstream vehicle operation locations to upstream farming and production areas. The thesis uses the Upstream Ethanol Production (UEP) Model, a geospatial lifecycle model developed for analyzing spatial emissions inventories for ethanol production. The UEP model is based on the US GREET model – the …

In Silico Drug Design Of Potential Novel Anti Malarial Agents, Vishal Thovarai

Theses

This thesis project incorporates the principles of rational and computer aided drug design in the quest for an improved anti-malarial agent. The target, a pathway for isoprenoid biosynthesis (the deoxy-D-xylulose-5-phosphate (DOXP) pathway) occurs in the parasite plastid – the apicoplast, and among the factors that make it an excellent target for an anti-malarial agent is its uniqueness from the pathway in the host, thus accounting for its specificity and low toxicity. A library of 18 potential anti malarial analogues/ ligands were designed and tested in silico against the receptor using molecular docking. The analogue L ο (omicron) - {3-[acetyl(hydroxy)amino]-1-hydroxypropyl} phosphonic …

The Interaction Of Peptides With Functionalized Carbon Nanotubes, Poulami Barman

Theses

A literature study was conducted to review peptide adhesion to carbon nanotubes and they were found to be important in the drug designing industries. To attain target specificity CNTs (functionalized with DNA, peptides etc.) have been used as potential vector system. Prior studies show that single walled nanotubes (SWNTs) when functionalized with peptides have been proven to be better delivery systems than the previous vector delivery systems. Functionalized SWNTs can deliver the peptides to the specific target organs in the right concentration without having prominent toxic effect. Toxicity studies show that since the SWNTs have shorter half life periods most …

Genesis, Xinxin Su

Theses

Genesis is a feature-length science fiction/fantasy screenplay written for partial fulfillment of the requirements for the MFA degree in Imaging Arts/Film. The script tells the story of two parentless children and their rescuer as they journey across a barren landscape in a world disintegrating before an impending catastrophic event. Their goal is to reach a generation ship called Genesis designed to save only a portion of humankind. Along the way they encounter rebels and misfits who threaten and assist the three along their way. This submission includes: a thesis report which contains an analysis of the conception and writing process; …

Neuronic Sonic, Nicholas G. Baish

Theses

The production, Neuronic Sonic, partially fulfills the requirements for the degree of Masters of Fine Arts in Imaging Arts/ Computer Animation from the School of Film and Animation at the Rochester Institute of Technology. The completed work is a high-definition digital movie file that was created with custom coded software designed specifically for the purpose of this project, as well as off-the-shelf, industry standard, visual hardware and computer software technology. The following paper details the development of the work starting with the initial concept, and it explores areas such as pre-production experiments and production phases, as well as my personal …

Direct Occlusion Handling For High Level Image Processing Algorithms, Carl Ryan Kelso

Theses

Many high-level computer vision algorithms suffer in the presence of occlusions caused by multiple objects overlapping in a view. Occlusions remove the direct correspondence between visible areas of objects and the objects themselves by introducing ambiguity in the interpretation of the shape of the occluded object. Ignoring this ambiguity allows the perceived geometry of overlapping objects to be deformed or even fractured. Supplementing the raw image data with a vectorized structural representation which predicts object completions could stabilize high-level algorithms which currently disregard occlusions. Studies in the neuroscience community indicate that the feature points located at the intersection of junctions …

Face Recognition With Variation In Pose Angle Using Face Graphs, Sooraj Kumar

Theses

Automatic recognition of human faces is an important and growing field. Several real-world applications have started to rely on the accuracy of computer-based face recognition systems for their own performance in terms of efficiency, safety and reliability. Many algorithms have already been established in terms of frontal face recognition, where the person to be recognized is looking directly at the camera. More recently, methods for non-frontal face recognition have been proposed. These include work related to 3D rigid face models, component-based 3D morphable models, eigenfaces and elastic bunched graph matching (EBGM). This thesis extends recognition algorithm based on EBGM to …

Aptamer-Based Nano-Scale Dielectric Sensor For Protein Detection, Teena James

Theses

The specific detection and precise quantification of protein molecules play an essential role in basic discovery research as well as in clinical practice. In this research work, a novel protein detection mechanism based on nanoscale dielectric sensor functionalized with aptamer probes is developed. This work has been done in collaboration with Rational Affinity Devices LLC. The use of aptamer based detection offers several advantages over the traditional labor intensive antibody based immunosensing. In the initial phase of the work, the binding affinities of rationally designed oligomers towards a specific protein molecule (IgG) was studied and optimized under varying conditions of …

Preparation Of Nanovehicles For Targeted Drug Delivery, Anagha Avinash Bhakay

Theses

Application of nanotechnology in pharmaceutical research has opened new frontiers for drug development and its efficient delivery. In recent years, the focus of the research has been on the engineering of nano/micro-particulate structures for efficient and targeted delivery of drugs for selective and enhanced absorption. This work throws light on the preparation of biodegradable and non-toxic nanoparticulate systems for targeted drug delivery. The drug vehicles were made by two different processes namely electrostatic interactions and desolvation process. The drug carriers made by these processes were found to be in the size range of 150-200nm which is necessary for cellular uptake …

Sustainable Site Remediation : A Life Cycle Assessment Approach, Harnoor Dhaliwal

Theses

Remediation of contaminated areas is often a resource-intensive activity that itself can create environmental burdens. Life cycle assessment (LCA) was used as a tool to examine the environmental impacts associated with remediation activities. A hypothetical contaminated site with five remediation alternatives was developed for this analysis. The results of Life cycle Impact Assessment (LCIA) indicated that greater site activity in terms of transportation, material and equipment use translated into higher environmental impacts.

A sensitivity analysis was performed to evaluate the environmental impacts further in different time horizons. The results showed that choice of time horizon can have a significant effect …

Deciphering The Biology Of Axon Stretch-Growth, Joseph R. Loverde

Theses

Traditional nerve regeneration strategies focus on growth cone-mediated growth, a form of nerve growth that occurs primarily during embryogenesis. Early axons continue to grow from the end distal to the soma, seeking targets on which to synapse. It is believed that once the axons synapse, stretch-growth takes over and is responsible for the great lengths achieved by nerves of the central and peripheral nervous systems. Recent work has demonstrated stretch-growth in vitro resulting in dramatically increased growth rates compared to the growth cone. Here, the aim was to decipher the underlying biology associated with axon stretch-growth using two approaches. First, …

Nano-Structured Platforms As A Spectroscopic Tool, Ruiqiong Li

Theses

Nano-structured platforms have been studied for the purpose of enhancing weak fluorescence signals. Each platform was constructed as a thin oxide layer on top of a metal (aluminum) The oxide was perforated with hexagonal array of nano-holes. The pitch of the array was much smaller than the optical wavelengths used. Surface charge waves (Surface Plasmons) could be excited when the platform was oriented at specific direction with respect to the incident optical beam. At this point one can demonstrate that fluorescence signals could be amplified. Since the oxide (alumina) is bio-compatible, one can envision using such platforms in the study …

Rna Secondary Structure Detection Programs With An Emphasis On Covariance Models, Justin Slotman

Theses

RNA secondary structure prediction requires a different approach from traditional alignment methods. Functional RNAs often have their secondary structure better conserved than their primary structure. Covariance models, probabilistic models that utilize stochastic-context-free grammars, are one approach. CMs allow for homology to be detected where purely sequence-based methods would fail. A background on CMs is given, as well as a background of the major classes of non-coding RNAs (ncRNAs). Comparisons are made between some CM-using tools (the Infernal suite and CMfinder) and some other RNA secondary structure tools (CARNAC, miRNAminer, Pfold, Mfold) as well as between Infernal and the primary alignment …

Evaluation Of Medical Alarm Sounds, Elizbha Philip

Theses

Auditory alarms in medical equipments perform considerably below their optimal level. Concern has been expressed about the quality of medical alarms by a large number of researchers in recent years. A detailed literature survey on the medical alarm related problems has been carried out. Hospital visits were made to obtain real life information and data of alarm sounds in various type of monitors used in OR and ICU. A laboratory experiment has been conducted on selected melodic alarm sounds. These melodic alarm sounds are being implemented in medical equipments and the idea of design is proposed in ISO / IEC …

In Situ Co-Hybridization Of Retroposon Sine-Ctrt1 And Hemogoblin Family Genes In The Polytene Chromosomes Of Chironomus Riparius (Diptera), Khuyen Doan

Theses

No abstract provided.

The Unearthing Of The Body In Adrienne Rich's Poetics, Michael J. Collins

Theses

No abstract provided.

Development Of Pcr Assays To Detect And Characterise Salmonella Isolates From Cheese And Meat Products By Utilizing An Integrated Genomics Approach, Noelle Geraldine Mccarthy

Theses

Salmonella is an extremely important foodborne pathogen which is responsible for millions of cases of gastroenteritis annually. Salmonella outbreaks have been associated with numerous common food stuffs such as meat, dairy and seafood. Traditional culture based methods for the detection Salmonella are labourious and costly. Rapid detection and serovar identification would dramatically decrease the time required to identify Salmonella outbreaks and potential health risks.

In the US 99% of all Salmonella infections are caused by members of Salmonella enterica subspecies 1. Serovars within subspecies 1 can vary due to host specificity and pathogenicity. DNA sequencing projects have provided valuable genomic …

Molecular Characterization Of Gastroenteritis Viruses Among Equines And Porcines In Southern Ireland From 2005-2007., P. J, Collins

Theses

Rotaviruses are a major cause of gastroenteritis in humans and animals. To date, seven serogroups (A to G) of rotavirus have been determined. Group A Rotaviruses (GARVs) are enteric pathogens, causing acute watery dehydrating diarrhea in various host species, including birds and mammals. Rotaviruses account for ~611,000 child deaths each year, mainly in developing countries. Likewise, rotavirus-associated enteritis is a major problem in young calves, weaning and post-weaning piglets and foals. Vaccines against the most important serologic group of rotaviruses (GARVs) are available for the prevention of rotavirus diseases in cows and horses, and, more recently, they have been made …

Extraction Of Hydrocarbons And Minimizing Organic Deposits From Crude Oil Using Carbon Dioxide, Adel Adib Azzam

Theses

Supercritical fluid extraction (SFE) technology is a new and powerful separation process, which has several applications in environmental and petroleum industry fields. Supercritical carbon dioxide (SC CO₂) extraction process can be applied as a remediation technique for sediments contaminated with crude oil. On the other hand, SC CO₂ can be applied as an Enhanced Oil Recovery (EOR) technique in the petroleum industry to increase the ultimate recovery factor of crude oil from reservoirs. Therefore, utilization of SC CO₂ for the extraction applications can result both in environmental and economic benefits.

In this study, SC CO_{2 …}

Polymeric Nanofibrous Media For Enhanced Ground Water Filtration, Bothaina Abdulla Al Shamsi

Theses

Water is one of the bulk transportation media for transmission of particulate contaminants. These contaminants are complex mixtures of particles; most of them are usually smaller than 1000 µm in diameter. Chemical and biological aerosols (particulates) are frequently in the range of 1- 10 µm. The particulate matters may carry some adsorbed gaseous contaminants. The removal of particulate and biological contaminants is thus an important step in water purification process. Particulate contaminants if not removed tend to foul reverse osmosis membranes and severely reduce the throughput of the final purification step. The filtration industry is looking for more efficient high …

The Molecular Identification Of Non Tuberculosis Mycobacteria (Ntm) From Clinical And Water Samples., Anne Curtin

Theses

Nontuberculosis Mycobacteria (NTM) are now considered a major source of opportunistic infection in immunocompromised patients. Reliable and rapid identification of NTM species is of the upmost importance for patient treatment regimes. Firstly, this study looked at the epidemiological trends of a small number of NTM isolates (n=50) from a large teaching hospital in Southern Ireland Cork University Hospital (C.U.H.). We found that 85% of clinical isolates were sampled from the respiratory tract, which is not unusual as the majority of samples analysed in the hospital lab originated from sputum samples. Also, the majority of patients were 59 years of age …

The Detection And Analysis Of Selected Pathogens In The Water Supply Of Dairy Cohort Herds., Niall Drummond

Theses

The issue of food safety is a growing concern to Irish agriculture and to the food industry. In the last twenty years, many novel pathogens, which can cause concern to the food industry, have been identified. Organisms such as Verocytotoxigenic Escherichia coli (VTEC) cause hemorrhagic colitis and Haemolytic Uremic Syndrome (HUS), which is the major cause of acute renal failure in children in many countries, and it’s presence in food is a cause of growing concern. Other pathogens causing concern are those implicated as causative agents of Acute Gastroenteritis (AGE) and these can be bacterial, viral and parasitic organisms.

Consumption …

Application Of Multiple Mass Spectrometric Techniques In The Isolation, Determination And Characterisation Of The Marine Toxins; Azaspiracid, Keith O'Callaghan

Theses

The Azaspiracids are a class of polyether marine biotoxins that present a significant health risk to consumers of shellfish. Since their discovery in the late 1990s several human intoxications have been reported, and traced to Irish shellfish farms resulting in closures or harvest rejections. As such incidents involving azaspiracid shellfish poisoning have a major socio-economic impact on communities that rely on shellfish farming revenues.

Recent evidence suggests that azaspiracid poisoning events may become more commonplace. With this increased risk the understanding of azaspiracids mode of action and biological targets becomes crucial. To support these endeavours effective analytical methods need to …

Participation And Determinants Of Physical Activity Amongst Irish 3rd Level Students., Jonathan Lerner

Theses

Currently, there is a dearth of research investigating physical activity patterns among Irish third level young adults (17-22 year olds). Both national and international research report that levels of physical activity decline in adolescence, this trend being most pronounced among females. Various biological, psychological, social, and environmental determinants have been found to influence physical activity; however, specific factors associated with the decline in activity during adolescence remain largely unknown. This research study examines participation and determinants of physical activity among Irish third level students.

A “National questionnaire” was administered to a sample of 532 students from Health Education Authority (HEA) …

Characterisation Of Immunosensor Surfaces Using Scanning Force Microscopy, Eva Maria Gil Romero

Theses

The overall aim of this thesis was twofold. Firstly, to evaluate how scanning force microscopy (SFM) could be used to characterise the surfaces of immunosensors. Four aspects of immunosensor characteristics where SFM has particular application potential have been identified: (a) immobilisation chemistry and (b) the surface density, (c) orientation and (d) specificity of the immobilised antibodies. Secondly, to examine experimentally how the Explorer SFM instrument could be used for such characterisation.

The Explorer SFM instrument is of an open-loop actuator design that is exposed to the intrinsic inadequacies of piezoelectric actuators. In this regard, careful calibration has shown that achieving …