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Examining The Functional Role Of The C-Terminal Domain Of The Insulin Like Growth Factor 1 Receptor Kinase Using Naturally Occurring Mutations Present In Human Cancers, Christa Nicole Pappalardo

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

Insulin Like Growth Factor 1 Receptor (IGF1R) is a receptor tyrosine kinase that functions to control cell proliferation and apoptosis. Activation occurs upon the binding of the IGF1 ligand to the extracellular domain facilitating trans-autophosphorylation and thus activation. The receptor activates downstream signaling through both the MAPK and PI3K/Akt pathways that contribute to cellular proliferation and preventing cell death, respectively. IGF1R is overexpressed and hyperactive in many human cancers. We postulated that IGF1R could also be activated by mutation. We further hypothesized that particular C-terminal mutations could affect the ability of this domain to autoregulate the receptor. Mutations were chosen …

Tissue Engineering Using 3d Template Casting, Travis Kruse

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

One of the major goals of tissue engineering is to develop methods that reliably fabricate tissues and organs ex vivo for use/implantation in vivo. However, the ability to create large-scale 3D tissues at physiological cell densities is hindered by our inability to sustain cells. The main reason for this is that without an incorporated vascular network, the transport of nutrients and wastes are restricted to molecular diffusion, which is limited to approximately 100 µm in biological tissues. Here we have developed a casting based templating technology to create highly ordered microchannels in polymers for MRI phantom and in vitro tissue …

Constrained Functional Linear Model For Multi-Loci Genetic Mapping, Jiayu Huang

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

In genome-wide association studies (GWAS), the efficient incorporation of linkage disequilibria (LD) among dense-typed linked genetic variants into analysis to improve the association power is critical yet challenging problem. Functional linear models (FLM), which impose a smoothing structure on the coefficients of correlated covariates, are advantageous in genetic mapping of multiple variants with high LD. Here we propose a novel constrained FLM (cFLM) framework to perform simultaneous association tests on a block of linked SNPs with various traits, including continuous, binary and zero-inflated count phenotypes. The new cFLM applies a set of inequality constraints on the FLM to ensure model …

Bundle-Forming Α-Helical Peptide-Dendron Hybrids | Bundle-Forming α-Helical Peptide-Dendron Hybrids, Jeannette Elizabeth Marine

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

Accurate control over the three-dimensional arrangement of atoms in synthetic materials remains a challenge for polymer and supramolecular chemistry. A defined sequence of monomers programs the folding and self-assembly of peptides and proteins, which makes them excellent candidates for materials in which the precise arrangement of atoms is known. The inherent sensitivity of peptides to external stimuli hampers their practical application. Conjugating peptides with synthetic polymers creates biohybrid materials with increased stability and processability. Hybrid biomaterials can retain the folding and self-assembly properties of peptides. Our approach to hybrid biomaterials is to combine helix bundle-forming peptides with a class of …

The Interactive Effects Of Acidification, Temperature Stress, And Food Supply On The Growth And Survival Of The Forage Fish, Menidia Beryllina And Cyprinodon Variegatus, Lucas R. Merlo

Stony Brook Theses and Dissertations Collection, 2006-2020 (closed to submissions)

The combustion of fossil fuels is increasing atmospheric CO2 concentrations and, in turn, acidifying and warming world oceans. A further consequence of warming oceans may be declines in the abundance of plankton. Some of these changes can already be observed in coastal oceans and may affect marine biota including forage fish which play a key role in marine food webs as key consumers of primary production and prey of fishery species. While these climate change stressors have previously been shown to negatively affect the performance of larval fish, the interactive effects of these multiple stressors on fish have yet to …

Circadian And Circatidal Rhythms Of Protein Abundance In The Intertidal Mussel Mytilus Californianus, Cory Elowe

Master's Theses

The intertidal zone is a dynamic environment that fluctuates with the 12.4-h tidal and 24-h light/dark cycle to predictably alter food availability, temperature, air exposure, wave action, oxygen partial pressure, and osmotic conditions. Intertidal sessile bivalves exhibit behavioral or physiological changes to minimize the persistent challenges of fluctuating environmental conditions, such as adjusting gaping behavior and heart rate. At the cellular level, transcriptomic studies on mussels’ baseline circadian and circatidal rhythms have determined that the circadian rhythm is the dominant transcriptional rhythm. However, as proteins reflect the basic molecular phenotype of an organism and their abundance may differ greatly from …

The Coat Protein And Nia Protease Of Two Potyviridae Family Members Independently Confer Superinfection Exclusion, Satyanarayana Tatineni, Roy French

Department of Plant Pathology: Faculty Publications

Superinfection exclusion (SIE) is an antagonistic virus-virus interaction whereby initial infection by one virus prevents subsequent infection by closely related viruses. Although SIE has been described in diverse viruses infecting plants, humans, and animals, its mechanisms, including involvement of specific viral determinants, are just beginning to be elucidated. In this study, SIE determinants encoded by two economically important wheat viruses, Wheat streak mosaic virus (WSMV; genus Tritimovirus, family Potyviridae) and Triticum mosaic virus (TriMV; genus Poacevirus, family Potyviridae), were identified in gain-of-function experiments that used heterologous viruses to express individual virus-encoded proteins in wheat. Wheat plants infected …

Educational Policies Committee Agenda, December 1, 2016, Utah State University

Educational Policies Committee

• Subcommittee Reports
• Curriculum Subcommittee
• Course Approvals
• Program Proposals
• Academic Standards Subcommittee
• General Education Subcommittee

Examining Illness Invalidation And Illness Perception In Relation To Physical Functioning In The Context Of Cardiovascular Disease, Jaclyn Ciera Turner

USC Aiken Psychology Theses

Invalidation is defined as the perception of cognitive, affective, and behavioral responses of others that are experienced as denying, lecturing, overprotecting, not supporting, and not acknowledging with the respect to the condition of the patient (Kool, 2012). Invalidation has also been suggested to negatively impact patients’ physical health (Kool, 2012). One specific type of invalidation is illness invalidation (II), defined as attitudes of distrust, suspicion, lack of support for, or acknowledgement that a patient is suffering from an illness (Blom et al., 2011). In addition to II, illness perception (IP) is another construct that has been linked to negative physical …

Predicting Malignant Nodules From Screening Ct Scans, Samuel Hawkins, Hua Wang, Ying Liu, Alberto Garcia, Olya Stringfield, Henry Krewer, Qiang Li, Dmitry Cherezov, Matthew Schabath, Lawrence O. Hall, Robert J. Gillies

Computer Science and Engineering Faculty Publications

Objectives

The aim of this study was to determine whether quantitative analyses (“radiomics”) of low-dose computed tomography lung cancer screening images at baseline can predict subsequent emergence of cancer.

Methods

Public data from the National Lung Screening Trial (ACRIN 6684) were assembled into two cohorts of 104 and 92 patients with screen-detected lung cancer and then matched with cohorts of 208 and 196 screening subjects with benign pulmonary nodules. Image features were extracted from each nodule and used to predict the subsequent emergence of cancer.

Results

The best models used 23 stable features in a random forests classifier and could …

Western Australian Rock Lobster Fishery Marine Stewardship Council Principle 3, Department Of Fisheries

Fisheries Occasional Publications

Governance – Policy – Fishery Specific Management

Pre-Competition, Jorge L. Contreras, Liza S. Vertinsky

North Carolina Law Review

As the costs of pharmaceutical research and development rise and concerns grow about the pace of innovation, both federal agencies and industry participants have turned to new forms of collaboration to increase the efficiency and effectiveness of biomedical research. Industry participants, many of them competitors, come together to define joint research and development objectives and to share project results in what are widely known as “pre-competitive” collaborations. There is a prevailing understanding among both industry and governmental actors that these pre-competitive endeavors are not only permissible, but encouraged. While the term “pre-competitive” is prevalent in the pharmaceutical industry, it is …

Peg3 Binds To H19-Icr As A Transcriptional Repressor, An Ye, Hongzhi He, Joomyeong Kim

Faculty Publications

© 2016 Taylor & Francis Group, LLC. Paternally expressed gene 3 (Peg3) encodes a DNA-binding protein with 12 C2H2 zinc finger motifs. In the current study, we performed ChIP-seq using mouse embryonic fibroblast (MEF) cells. This experiment identified a set of 16 PEG3 genomic targets, the majority of which overlapped with the promoter regions of genes with oocyte expression. These potential downstream genes were upregulated in MEF cells lacking PEG3 protein, suggesting a potential repressor role for PEG3. Our study also identified the imprinting control region (ICR) of H19 as a genomic target. According to the results, PEG3 binds to …

A Review Of The Tawny Crazy Ant, Nylanderia Fulva, An Emergent Ant Invader In The Southern United States: Is Biological Control A Feasible Management Option?, Zinan Wang, Lori Moshman, Emily C. Kraus, Blake E. Wilson, Namoona Acharya, Rodrigo Diaz

Faculty Publications

© 2016 by the authors; licensee MDPI, Basel, Switzerland. The tawny crazy ant, Nylanderia fulva (Mayr) (Hymenoptera: Formicidae), has invaded states of the U.S. including Texas, Louisiana, Mississippi, Alabama, Florida, and Georgia. Native to South America, N. fulva is considered a pest in the U.S. capable of annoying homeowners and farmers, as well as displacing native ant species. As it continues to expand its range, there is a growing need to develop novel management techniques to control the pest and prevent further spread. Current management efforts rely heavily on chemical control, but these methods have not been successful. A review …

Crapemyrtle Bark Scale: A New Threat For Crapemyrtles, A Popular Landscape Plant In The U.S, Zinan Wang, Yan Chen, Mengmeng Gu, Erfan Vafaie, Michael Merchant, Rodrigo Diaz

Faculty Publications

© 2016 by the authors; licensee MDPI, Basel, Switzerland. Crapemyrtle bark scale, Acanthococcus (=Eriococcus) lagerstroemiae (Kuwana) (Hemiptera: Eriococcidae), is a newly introduced insect pest on crapemyrtles, Lagerstroemia spp. (Myrtales: Lythraceae), one of the most popular flowering shrubs in the U.S. Since first detected in Texas in 2004, this pest has spread to twelve states causing losses to stakeholders. To develop a management plan, we reviewed current knowledge about the pest’s biology and ecology, and suggested research approaches including studying its thermal tolerance, host range, plant resistance and biological control. Parasitoids and predators have been reared from A. lagerstroemiae in the …

Treescaper: Visualizing And Extracting Phylogenetic Signal From Sets Of Trees, Wen Huang, Guifang Zhou, Melissa Marchand, Jeremy R. Ash, David Morris, Paul Van Dooren, Jeremy M. Brown, Kyle A. Gallivan, Jim C. Wilgenbusch

Faculty Publications

© The Author 2016. Modern phylogenomic analyses often result in large collections of phylogenetic trees representing uncertainty in individual gene trees, variation across genes, or both. Extracting phylogenetic signal from these tree sets can be challenging, as they are difficult to visualize, explore, and quantify. To overcome some of these challenges, we have developed TreeScaper, an application for tree set visualization as well as the identification of distinct phylogenetic signals. GUI and command-line versions of TreeScaper and a manual with tutorials can be downloaded from https://github.com/ whuang08/TreeScaper/releases. TreeScaper is distributed under the GNU General Public License.

Possible Past Hybridization Among Desmognathus Ochrophaeus In Canadice Lake: An Ecological Survey Exploring Desmognathine Salamanders And The Competitive Exclusion Hypothesis In The Western Finger Lakes Of New York State, Aisha L. Gadson

Theses

Dusky Salamanders are a varied group of sister taxa found in Northeastern North America. Two species, Desmognathus fuscus and Desmognathus ochrophaeus, have geographically overlapping ranges. In addition, they are very morphologically similar, share many niche requirements, and are found in extremely similar or even the same salamander communities. These shared traits have been posited to arise from the influence of niche conservatism during their species’ evolutions. Also, despite their physical similarities they are historically found not to hybridize on a large scale, nor have ever had a full population merge recorded. Therefore, it appears that the community ecology of these …

A Study Of Sintered Copper Porous Surfaces For Pool Boiling Enhancement, Felix Liu

Theses

Miniaturization in microelectronics demands effective thermal management from high energy density devices. While current cooling solutions employ single-phase heat transfer, they are often limited by high fluid temperature differences and pressure drops. Alternatively, two-phase cooling schemes offers attractive solutions to dissipate high heat fluxes at small temperature differences. Specifically, pool boiling has the potential to dissipate high heat fluxes without using pumps and other complex header configurations.

Two performance criterion that govern the heat transfer in pool boiling systems are the (i) Critical Heat Flux (CHF), and the (ii) Heat Transfer Coefficient. The CHF is the upper limit in nucleate …

Passively Estimating Index Of Refraction For Specular Reflectors Using Polarimetric Hyperspectral Imaging, Jacob A. Martin

Theses and Dissertations

As off-nadir viewing platforms becoming increasingly prevalent in remote sensing, material classification and ID techniques robust to changing viewing geometries must be developed. Traditionally, either reflectivity or emissivity are used for classification, but these quantities vary with viewing angle. Instead, estimating index of refraction may be advantageous as it is invariant with respect to viewing geometry. This work focuses on estimating index of refraction from LWIR (875-1250 wavenumbers) polarimetric hyperspectral radiance measurements.

Enabling Marker Assisted Breeding (Mab) For Phytochemical Compounds In Peach [Prunus Persica (L.) Batsch], Asma Abdelghafar

All Dissertations

Genetic control and location of QTLs associated with phytochemical compounds in peach were evaluated using bi-parental mapping and genome wide association (GWAS). The bi-parental mapping was conducted in an F2 population (ZC2) derived from cross between ‘Zin Dai’ x ‘Crimson Lady’. GWAS was performed on an association panel representing modern peach cultivars available and/or produced for the U.S. market. Antioxidant capacity and phenolic compound accumulation (total phenolics, flavonoids and anthocyanins) were evaluated for two years on all materials. The ZC2 progeny were genotyped using IPSC 9K peach SNP array v1., and the association panel was genotyped using genotyping-by-sequencing. The genetic …

Using Soil Conditioners To Improve Soil Physiochemical Properties And Agricultural Productivity In Libya, Gandura Abagandura

All Dissertations

The results of Libyan agricultural review confirmed that soil degradation and limited freshwater resources are the primary causes of the country’s dependence on food imports. The intrusion of the seawater into the groundwater is causing soils to become salt-affected. In addition, many crops in the country are susceptible to pests. The spatial distribution of soil degradation occurrence and type were predicted using regression models, estimating that 666 882 km2 (53.5 %) of Libyan soils are degraded with 46.4 % due to salinization, 6.4 % water erosion and 0.66 % wind erosion.

The majority of the soils in Libya are sandy …

Investigating Materials That Promote New Organic Methodology And Remediation Of Volatile Organic Compounds, Mckenzie Louise Campbell

All Dissertations

The need for environmentally safe reagents for the promotion of organic transformations is critical in order to reduce hazardous waste and byproducts associated with industrial-scale chemical processes. We have developed two practical methods that obviate the need for harsh oxidative and toxic brominating reagents in electrophilic halogenation reactions.

In our hands, a catalytic loading of the inexpensive, commercially available V2O5 (~$0.25/g) promotes the bromolactonization of a series of substituted alkenoic acids in isolated yields up to 97% by means of the in situ generation of bromenium (Br+) from bromide (Br−) at room temperature. This process obviates the need for molecular …

Efficient Analytics For Large Implicit Correlation Networks, Raghuveer Mohan

All Dissertations

Large “correlation”-type networks have applications in machine learning, data mining and analysis of large biological networks. These networks contain short length-k (on the order of thousands) feature vectors for every node in the network that describe the characteristic or behavior of that node. Edges between nodes are expressed as correlations, partial correlations or coherence between the corresponding feature vectors. If the number of nodes n is too large (on the order of millions), then the dense correlation network with size n×n is computationally infeasible even to explicitly store in memory, let alone to use for computation of standard network analytics …

Investigation Into The Ecological And Toxicological Constraints On A Population Of Lesser Flamingos (Phoeniconaias Minor) At Kamfers Dam In Kimberley, South Africa, Lindsay Hill

All Dissertations

This study investigates the threats to a breeding population of lesser flamingos (Phoeniconaias minor) at Kamfers Dam in Kimberley, South Africa. The main threats include water quality/quantity, algal food source abundance and exposure to contaminants accumulating in the dam. Water quality testing and analysis of historical water quality reports were used to analyze the effects of the physical and chemical parameters on the algal assemblage at Kamfers Dam and determine if changes in the water quality could predict changes in the algal assemblage. Arthrospira fusiformis, the flamingos preferred food, was positively correlated with conductivity, total dissolved salts …

Design Of A Rotating Brush Underwater Grooming Device With A Focus On Brush Optimization, Motor Control And Design For Reliability, Mark Harrison Nanney

Theses and Dissertations

The design and control of Remotely Operated Vehicles (ROV) to groom or clean the underwater surface of ship hulls is becoming an important aspect of the maintenance of vessels to the United States Navy. The biological growth below the waterline of the vessels can be the cause for drag penalties near 21% causing up to 32% increase in shaft power at 15 knots (Schultz, 2007). Research conducted by the Center for Corrosion and Biofouling Control at Florida Institute of Technology (FIT) indicated that weekly grooming can prevent high profile biological growth (Hearin, et al., 2015). The design of a rotating …

An Analysis Of Morphometric Differentiation In Lake And River Populations Of The Emerald Shiner, Notropis Atherinoides, John J.V. Lang

Biology Theses

Understanding mechanisms that account for phenotypic variation has been of interest to biologists since the advent of Darwin’s theory of evolution by natural selection. It is now understood that adaptive divergence is a key driving force of intraspecific differentiation. Further, differences in habitat (e.g., flow regime, prey regime) have been shown to drive adaptive divergence in fish. For instance, fish inhabiting faster flowing water generally exhibit more fusiform bodies than their lake counterparts. Similarly, the partitioning of benthic and pelagic morphs generally results in smaller heads with the latter. This study used geometric shape analysis to assess morphological differences between …

The Fourth Industrial Revolution By Klaus Schwab, Jake Okechukwu Effoduh

The Transnational Human Rights Review

No abstract provided.

Livd: Issue 15.2: "Letting Go", Portland State University. School Of Art + Design

LIVD

Layout, imagery, and editing: Meredith James

LIVD is a semi/annual publication produced in the Pacific Northwest, dedicated to the intersection of art, design, culture and how these influence lived experience.

LIVD pays hommage to the inspiring and idealistic efforts of the early twentieth century avant-garde, balancing the academic with the personal and experimental.

Issue 15.2 includes contributions responding to the following prompt: screwing up, messing up, vulnerability, shame... that sort of thing. Why isn't the prompt simply: failure? Because something strange happens when you ask people to talk about failure, they start talking about something else entirely.

Contributions by: Roz …

Using Technology To Facilitate Modeling-Based Science Education: Lessons Learned From A Meta-Analysis Of Empirical Research, Jing Lei, Patrick Heng Luo, Qiu Wang, Ji Shen, Sunghye Lee, Ye Chen

Journal of Educational Technology Development and Exchange (JETDE)

This study focused on the integration of technologies in regular science teaching within the pedagogical framework of modeling-based instruction (MBI), a well-established instructional method in science education, and aimed to identify new trends of technology integration in MBI, explore the particular features (Interactivity, Collaboration, and Scaffolding) and affordances of new technologies, and examine the effect of technology-supported MBI on students learning outcomes. By analyzing empirical MBI studies from 2000 to 2010 through a meta-analysis and qualitatively reviewing studies from 2011-2016, this study shared three major findings: (1) computer-based software was the most commonly used technology in MBI, with Internet and …

Free To Be: One Charter School's Approach To Supporting Gender And Sexual Minority Students, Katherine Sieger

Dissertations - ALL

This dissertation presents three and a half years of ethnographic data from an “LGBT” charter school. It explores how gender and sexuality appear within educational spaces and how providing students an anti-heteronormative inclusive education impacts a student’s sense of self. I show how critical pedagogy is deployed as an anti-heteronormative approach to supporting all students. The term anti-heteronormative is used to express an explicit rejection of heterosexism and genderism, acknowledging the complex oppressive factors that develop given the normative expectations of gender and sexuality and the impact such expectations have on all bodies and all students. Findings reveal how the …