Digital Commons Network^™

Collective Hydrodynamics Of Robotic Fish, Rohit S. Pandhare

Dissertations, Master's Theses and Master's Reports

Many animals in nature travel in groups either for protection, survival, or endurance. Among these, fish do so under the burden of hydrodynamic loads, which incites questions as to the significance of the multi-body fluid-mediated interactions that facilitate collective swimming. We study such interactions in the idealized setting of a rotational array of robotic fish whose tails undergo a prescribed flapping motion, but whose swimming speed is determined as a natural result of the hydrodynamic effects. Specifically, we examine how the measured collective speed of the swimmers varies with the imposed frequency and amplitude of their tail flapping, and with …

Characterizing Drought Adaptations, Phenotypic Plasticity, And Fixed Gene Expression Patterns Within Quercus, James K. Rauschendorfer

Dissertations, Master's Theses and Master's Reports

This dissertation was written on topics related to the genus Quercus with a primary focus on Quercus ellipsoidalis (northern pin oak) and Quercus rubra (northern red oak). Within this dissertation are chapters related to the setup of experimental common gardens within the Ford and Kellogg experimental forest, a literature review describing drought adaptations of Quercus sect. Lobatae (red oak group), identification of transcription factors within the Q. robur (English oak) and Q. rubra genomes, a study comparing leaf trait phenotypic plasticity of Q. ellipsoidalis and Q. rubra, and an RNA-seq experiment studying ecological speciation between Q. ellipsoidalis and Q. …

Avian Haemosporidian Blood Parasite Diversity, Prevalence, And Distribution In Michigan’S Western Upper Peninsula, Maria M. Ferrer

Dissertations, Master's Theses and Master's Reports

Avian haemosporidian parasites, known as avian malaria (phylum Apicomplexa) can diminish an individual bird’s fitness by causing parasitemia, anemia, and reduced survival. Climate change is predicted to increase the spread of malarial parasites into more northerly latitudes where little is known about community compositions of these parasites. I assessed the prevalence and diversity of haemosporidian parasites in the first-ever community-level sampling of malaria in songbirds across the western Upper Peninsula of Michigan. In total, 179 blood samples were collected from birds representing 17 species, at five locations in the Upper Peninsula, including a mature forest, an early successional forest, and …

Multilevel Computational Investigation Into The Dynamics And Reaction Mechanisms Of Non-Heme Iron And 2-Oxoglutarate Dependent Enzymes, Shobhit Sanjeev Chaturvedi

Dissertations, Master's Theses and Master's Reports

Computational chemistry methods have been extensively applied to investigate biological systems. This dissertation utilizes a multilevel computational approach to explore the dynamics and reaction mechanisms of two groups of enzymes belonging to non-heme Fe(II) and 2-oxoglutarate (2OG) dependent superfamily – histone lysine demethylases from class 7 and ethylene forming enzyme (EFE). Chapter 2 uncovers the role of conformational dynamics in the substrate selectivity of histone lysine demethylases 7A and 7B. The molecular dynamics (MD) simulations of the two enzymes revealed the importance of linker flexibility and dynamics in relative orientations of the reader (PHD) and the catalytic (JmjC) domains. Chapter …

Isolation And Chromatographic Separation Of Cytotoxic Plant Compounds, Michael C. Hromada

Dissertations, Master's Theses and Master's Reports

Plants produce diverse bioactive compounds that are used in the treatment of diseases such as cancer, microbial infection, and cardiovascular diseases. Our lab has discovered a potential anticancer compound named Hemolysin X (HelyX) in the storage and germination tissues of a plant species. Investigation of this compound relies on aqueous extraction which limits the isolation of other potentially important hydrophobic compounds. To overcome this limitation and to determine if HelyX is distributed in other tissues of the plant (such as flower), organic extracts of flower tissue were examined by analytical thin layer chromatography (TLC), preparative TLC, and silica gel column …

Comparative Transcriptomic Analysis Of Cancer Testis Genes In Ovarian Cancer, Zayne Knuth

Dissertations, Master's Theses and Master's Reports

Cancer testis genes are common targets for the development of immunotherapy for cancer treatment. Ovarian cancer is one of the leading causes of death in women cancer patients. Cancer testis genes play a role in tumorigenesis, but it is not clear how these genes are activated. This study utilized differential expression analysis between The Cancer Genome Atlas (TCGA) ovarian cancer data, Genotype-Tissue Expression (GTEx) non-cancerous ovary and testis data, and cell line data to identify a list of cancer testis genes that have a novel expression profile. To identify ovarian cancer testis genes, we obtained normal ovary tissue data and …

An Analysis Of Compressive Convolutional Autoencoders For Image Archiving In Medical Informatics, Charles Warren

Dissertations, Master's Theses and Master's Reports

Within a given enterprise network, an array of data types needs to be communicated. These network transmissions consist of images, videos, text, and binaries that have unique requirements of bandwidth and computational overhead to transmit. With respect to medical informatics, these include a multitude of varying subjects, standards, and modalities which are communicated to and from imaging equipment, clinicians, and medical archives. To reduce the required bandwidth to transmit, or provide adequate storage capacity for archival purposes, the data may be compressed in such a way that reduces the size of the image when it is transferred or stored. The …

Spatial Heterogeneity Of Nitrogen Cycling Within And Across Freshwater Ecosystems, Erin K. Eberhard

Dissertations, Master's Theses and Master's Reports

Dinitrogen (N₂) fixation and denitrification are two nitrogen (N) cycling processes that despite differences in environmental requirements and constraints, co-occur in aquatic ecosystems. The overall goal of this dissertation was to evaluate how spatial heterogeneity of environmental variables 1) drive hot spots of N₂ fixation, denitrification rates and gene abundances in streams, 2) facilitate co-occurrence of these processes across wetland – stream – lake interfaces, and 3) affect differences in microbial community composition in streams across U.S. ecoregions. We found hot spots of both processes within 7 stream reaches in Michigan and Idaho, but rates of N …

Evolutionary Conservation Of The Dream Subcomplex Muvb, Spencer Snider

Dissertations, Master's Theses and Master's Reports

As the publications of annotated genomes from species representing most domains of life continue to grow exponentially, we are gaining more insight into how proteins, cellular pathways, and protein complexes evolved. We are interested in understanding how each protein in the 8-subunit transcriptional repressor complex called DREAM interacts with each other. DREAM is comprised of 3 main components: an E2F-DP transcription factor heterodimer, a pocket protein, and the highly conserved 5-subunit subcomplex called MuvB. We hypothesize that the mechanism of DREAM’s formation on chromatin dictates how DREAM functions to turn off target gene expression. Unfortunately, many interaction surfaces remain unknown, …

Display Site Selection By Male Ruffed Grouse In The Upper Great Lakes Region, Seth Finkel

Dissertations, Master's Theses and Master's Reports

The Ruffed Grouse (Bonasa umbellus) is widely known for its characteristic territorial drumming display. In this study, I used ruffed grouse drumming survey data from Minnesota and Michigan, in a series of mixed logistic models, to identify drivers of drumming log selection by reproductive male ruffed grouse. I collected drumming stage data utilizing a paired-random sampling structure. I used information theoretic model selection to examine three sets of a priori mixed logistic models: one for the entirety of my Minnesota dataset, one consisting of stages identified in aspen stands in Minnesota, and one for my Michigan dataset. In …

An Antimicrobial Polydopamine Surface Coating To Reduce Biofouling On Telemetry Tags Used In Marine Conservation Practices, Ariana Smies

Dissertations, Master's Theses and Master's Reports

Satellite telemetry tags are used to track the migration patterns of large cetaceans. These tags penetrate the dermis and remain embedded in the underlying blubber tissue. As the dermis of cetaceans is host to a diverse microbiome, and it is impossible to clean the skin before implanting the devices, the potential for infection is increased when the tags penetrate through the skin. H₂O₂ is a potential antimicrobial agent that, in addition to showing broad-spectrum efficacy against gram-negative and gram-positive bacteria, can promote wound healing outcomes by promoting proliferative factors and peptides that protect against oxidative stress. However, …

Addressing Filicide In Ghana: Linking Cultural Understanding With The Law Against Filicide. Does The Law Work?, Alhassan Abdullah, Margarita Frederico, Felix Mensah, Hajara Bentum, Yihang Wang, Jennifer Litela Asare

Research outputs 2022 to 2026

Introduction: Consistent with international promulgation on the criminalization of filicide, Ghana’s Children’s Act 1998 (560) and the Criminal Justice Act criminalizes any form of torture against children. Yet, perpetrators of filicide in Ghana may go unpunished due to the beliefs in cultural norms that justify filicide acts. The cultural narratives of filicide can impede on the application and effectiveness of the laws of filicide. Method: The study employed a vignette approach to explore the views of 19 adults, who were parents between 69 years of age and 30 years of age, in rural and urban Ghana on the laws of …

Protective Factors Against Self-Harm And Suicidality Among Australian Indigenous Adolescents: A Strengths-Based Analysis Of The Longitudinal Study Of Indigenous Children, Irteja Islam, Lisa Sharwood, Verity Chadwick, Tuguy Esgin, Alexandra Martiniuk

Research outputs 2022 to 2026

Background: Understanding and encouraging social and emotional well-being (SEWB) among Indigenous adolescents is vital in countering the impacts of colonisation and intergenerational trauma. As self-harm and suicidality are considered markers of poor SEWB among Indigenous communities, we aimed to identify the individual-level and community-level factors protecting Indigenous adolescents from self-harm and suicidality. Methods: Data came from Footprints in Time—The Longitudinal Study of Indigenous Children (waves 10 and 11), conducted among Indigenous families across Australia. A strengths-based analysis fitted multilevel logistic regression to explore associations with factors proposed as protective against self-reported self-harm and suicidality among Indigenous adolescents. Results: Our study …

Show, Attend And Detect: Towards Fine-Grained Assessment Of Abdominal Aortic Calcification On Vertebral Fracture Assessment Scans, Syed Zulqarnain Gilani, Naeha Sharif, David Suter, John T. Schousboe, Siobhan Reid, William D. Leslie, Joshua R. Lewis

Research outputs 2022 to 2026

More than 55,000 people world-wide die from Cardiovascular Disease (CVD) each day. Calcification of the abdominal aorta is an established marker of asymptomatic CVD. It can be observed on scans taken for vertebral fracture assessment from Dual Energy X-ray Absorptiometry machines. Assessment of Abdominal Aortic Calcification (AAC) and timely intervention may help to reinforce public health messages around CVD risk factors and improve disease management, reducing the global health burden related to CVDs. Our research addresses this problem by proposing a novel and reliable framework for automated “fine-grained” assessment of AAC. Inspired by the vision-to-language models, our method performs sequential …

Associations Of The Lipidome With Ageing, Cognitive Decline And Exercise Behaviours, Maria Kadyrov, Luke Whiley, Belinda Brown, Kirk I. Erickson, Elaine Holmes

Research outputs 2022 to 2026

One of the most recognisable features of ageing is a decline in brain health and cognitive dysfunction, which is associated with perturbations to regular lipid homeostasis. Although ageing is the largest risk factor for several neurodegenerative diseases such as dementia, a loss in cognitive function is commonly observed in adults over the age of 65. Despite the prevalence of normal age-related cognitive decline, there is a lack of effective methods to improve the health of the ageing brain. In light of this, exercise has shown promise for positively influencing neurocognitive health and associated lipid profiles. This review summarises age-related changes …

Cannabinoid And Substance Relationships Of European Congenital Anomaly Patterns: A Space-Time Panel Regression And Causal Inferential Study, Albert Stuart Reece, Gary Kenneth Hulse

Research outputs 2022 to 2026

With reports from Australia, Canada, USA, Hawaii and Colorado documenting a link between cannabis and congenital anomalies (CAs), this relationship was investigated in Europe. Data on 90 CAs were accessed from Eurocat. Tobacco and alcohol consumption and median household income data were from the World Bank. Amphetamine, cocaine and last month and daily use of cannabis from the European Monitoring Centre for Drugs and Drug Addiction. Cannabis herb and resin Δ9-Tetrahydrocannabinol concentrations were from published reports. Data were processed in R. Twelve thousand three hundred sixty CA rates were sourced across 16 nations of Europe. Nations with a higher or …

Nationwide Industry-Led Community Exercise Program For Men With Locally Advanced, Relapsed, Or Metastatic Prostate Cancer On Androgen-Deprivation Therapy, Oliver Schumacher, Daniel A. Galvao, Dennis R. Taaffe, Nigel Spry, Dickon Hayne, Colin Tang, Raphael Chee, Robert U. Newton

Research outputs 2022 to 2026

Purpose:

Androgen-deprivation therapy in patients with prostate cancer (PCa) is associated with considerable side effects and secondary comorbidities such as overweight/obesity and cardiovascular disease. The aim of this study was to investigate the effectiveness of an industry-led, treatment-integrated, community-based exercise program on outcomes of body weight, cardiovascular health, and physical function.

Patients and Methods:

PCa patients with locally advanced, relapsed, or metastatic disease receiving leuprorelin acetate were enrolled across multiple sites in Australia and assigned supervised group exercise undertaken weekly or biweekly (ie, 16 exercise sessions in total) for 10-18 weeks, consisting of aerobic and resistance training performed at moderate-to-vigorous …

Higher Consumption Of Fruit And Vegetables Is Associated With Lower Worries, Tension And Lack Of Joy Across The Lifespan, Simone Radavelli-Bagatini, Marc Sim, Lauren C. Blekkenhorst, Nicola P. Bondonno, Catherine P. Bondonno, Richard Woodman, Joanne M. Dickson, Craig Harms, Dianna J. Magliano, Jonathan E. Shaw, Robin M. Daly, Jonathan M. Hodgson, Joshua Lewis

Research outputs 2022 to 2026

Background and Aims: Higher total fruit and vegetable (FV) intakes have been
associated with lower perceived stress. However, the relationship of FV intake with domains of perceived stress is unclear. The aim of this cross-sectional study was to explore the relationship between consumption of FV and four perceived stress domains (worries, tension, lack of joy and demands) in a population-based cohort of Australian adults.

Methods: Participants (n = 8,640) were men and women aged ≥ 25 years from
the Australian Diabetes, Obesity and Lifestyle (AusDiab) Study. Dietary intake was assessed using a 74-item validated Food Frequency Questionnaire. Perceived stress domains …

Do Bird Communities Differ With Post-Fire Age In Banksia Woodlands Of South-Western Australia?, Robert A. Davis, Leonie E. Valentine, Michael D. Craig

Research outputs 2022 to 2026

Prescribed fire is a widespread management practice in fire-prone ecosystems that can have significant effects on fauna. To inform the development of appropriate prescribed burning regimes, we explored bird responses to time since fire in threatened Banksia woodlands in south-western Australia. We used area searches to estimate bird densities on 20 plots ranging from 1 to 26 years post fire. Fire had no significant effect on the overall bird community or any foraging guilds and there was no clear post-fire succession. Of the 26 frequently occurring species analysed, only two showed responses to fire, with yellow-rumped thornbills more abundant in …

The Nursing Care Of People With Class Iii Obesity In An Acute Care Setting: A Scoping Review, Bev Ewens, Vivien Kemp, Mandy (Amanda) Towell-Barnard, Lisa Whitehead

Research outputs 2022 to 2026

Background

Patients with Class III obesity pose unique challenges to health care staff and organisations. Care requirements of this population are unique and require specialised equipment and knowledge to meet these needs, maintain the quality of care, as well as the safety of patients and staff.

Aim

To synthesise the evidence on the nursing care of Class III obese patients in acute care settings.

Methods

A scoping review informed by JBI. CINAHL Plus, Medline, Scopus, Proquest Central, Web of Science and Embase were searched for primary research articles about the nursing management of people classified as Class III obese in …

Investigating Secondary Mathematics Teachers’ Analogies To Function, Vesife Hatisaru

Research outputs 2022 to 2026

This study investigates the analogies used by a sample of secondary mathematics teachers when they described the concept of function. The study is concerned with understanding what analogies were used by the participant teachers and conceptions of functions positioned in those analogies. Using examples from a set of responses to five open-ended questionnaire items, the article presents the main analogies found in the descriptions of the participant teachers and examines ways in which these are structurally mapped to function by applying Gentner’s structure-mapping theory of analogy. Among those discussed are the child–mother linkage and machine/factory analogies. Of interest is the …

Prescribing Unproven Cancer Drugs: Physician Perspectives On Expanded Access And Right To Try, Haley Manley, Bryan A Sisk, Zubin Master, Christopher Thomas Scott

2020-Current year OA Pubs

BACKGROUND: For gravely ill patients who have no treatment options and who are ineligible for clinical trials, the US Food and Drug Administration (FDA) established the Expanded Access Program (EAP). Motivated by efforts to weaken FDA regulation and sold as providing greater access to experimental drugs, the federal Right to Try Act (RTT) was passed in 2017. It reduces FDA oversight by not requiring physicians to report safety data and foregoes approval of protocols by local institutional review boards.

METHODS: This study explored the views of 17 neuro-oncologists from 15 different academic medical centers with varying experience with EAP and …

An Analysis Of Anatomy Education Before And During Covid-19: August-December 2020, Stefanie M. Attardi, Derek J. Harmon, Malli Barremkala, Danielle C. Bentley, Kirsten M. Brown, Jennifer F. Dennis, Haviva M. Goldman, Kelly M. Harrell, Barbie A. Klein, Christopher J. Ramnanan, Gary J. Farkas

Faculty and Staff Publications

Coronavirus disease-2019 (Covid-19) disrupted the in-person teaching format of anatomy. To study changes in gross anatomy education that occurred during August-December, 2020 compared to before the pandemic, an online survey was distributed to anatomy educators. The 191 responses received were analyzed in total and by academic program, geographic region, and institution type. Cadaver use decreased overall (before: 74.1 ± 34.1%, during: 50.3 ± 43.0%, P < 0.0001), as well as across allopathic and osteopathic medicine, therapy, undergraduate, and veterinary programs (P < 0.05), but remained unchanged for other programs (P > 0.05). Cadaver use decreased internationally and in the US (P < 0.0001), at public and private (P < 0.0001) institutions, and among allopathic medical programs in Northeastern, Central, and Southern (P < 0.05), but not Western, US geographical regions. Laboratories during Covid-19 were delivered through synchronous (59%), asynchronous (4%), or mixed (37%) formats (P < 0.0001) and utilized digital resources (47%), dissection (32%), and/or prosection (21%) (P < 0.0001). The practical laboratory examination persisted during Covid-19 (P = 0.419); however, the setting and materials shifted to computer-based (P < 0.0001) and image-based (P < 0.0001), respectively. In-person lecture decreased during Covid-19 (before: 88%, during: 24%, P = 0.003). When anatomy digital resources were categorized, dissection media, interactive software, and open-access content increased (P ≤ 0.008), with specific increases in BlueLink, Acland's Videos, and Complete Anatomy (P < 0.05). This study provided evidence of how gross anatomy educators continued to adapt their courses past the early stages of the pandemic.

Beyond Homogenous Decision-Making Models: Role Of Brain Areas Interaction And Heterogeneity, Mohsen Rakhshan

Dartmouth College Ph.D Dissertations

Most existing mechanistic models of decision making consider microcircuits within a homogenous brain area and fail to consider the distributed nature of this cognitive process. More specifically, these models do not take into account: a) how different types of information might influence choice in different stages of the process; and b) how interactions and the heterogeneity between circuits across different brain areas might be essential for the process. In this dissertation, I present a combination of experimental and modeling approaches to study distributed nature of the decision-making by examining both the distributed processing of information as well as the interaction …

The Design Of Cmos Front-End Amplifiers For Electrical Impedance Applications, Yueh-Ching Teng

Dartmouth College Ph.D Dissertations

Electrical Impedance Tomography (EIT) is a medical imaging methodology that does not need any kind of ionizing radiation. It is significantly cheaper and smaller than Computerized Tomography (CT) or Magnetic Resonance Imaging (MRI). These advantages make EIT particularly suitable for emerging applications like the continuous medical imaging and telemonitoring of organ function. Current bench-top EIT systems are bulky and require shielded cables to interface with measurement electrodes. The cable introduces parasitic capacitances which shunt the desired signals and degrade the accuracy of the measurements. A EIT system based on application-specific integrated circuits (ASICs) can reduce the parasitic and stray capacitance …

Phase-Changing Nanodroplets As Nanotheranostic Platform For Combination Cancer Therapy, Catalina-Paula Spatarelu

Dartmouth College Ph.D Dissertations

Cancer is a cluster of diseases, and 1.8 million Americans are newly diagnosed each year. Treatment issues such as drug instability, the occurrence of severe side effects, as well as resistance make the need for solutions to improve conventional methods, like chemotherapy, apparent. Nano-sized drug-delivery platforms, particles loaded with therapeutic molecules that escape the immune system clearance and accumulate at the tumor site, were proposed as one of these solutions. Despite the expansion of the field, several aspects still need to be addressed: inconsistent delivery of the drugs, inability of measuring the effective dose being delivered to the tumor, lack …

In Situ Vaccination Using Plant Viral Particles As A Novel Approach For Cancer Immunotherapy, Chenkai Mao

Dartmouth College Ph.D Dissertations

Non-infectious to mammals, genetically, and physically stable plant virus-based nanoparticles have been increasingly studied as a novel platform for cancer vaccine and adjuvants due to their immunogenic properties. Our prior work showed that, empty cowpea mosaic virus (eCPMV), a plant virus-like particle (VLP) that is composed of a separated capsid, is an excellent in situ vaccine (ISV) for cancer immunotherapy; however, little is known about the mechanisms linked to their activities regarding recognition and antigen presentation.

In the present studies, we report cowpea mosaic virus (CPMV) and RNA-lacking CPMV (empty, eCPMV) are both toll like receptor (TLR) agonists for TLRs …

The Three-Way Interplay Among Early Life Exposures, The Gut Microbiome, And Outcomes In Infancy, Yuka Moroishi

Dartmouth College Ph.D Dissertations

The bidirectional relationship between the gut microbiome and immune system plays an important role in host immune status: the immune system provides the gut microbiome the optimal environment to thrive in, and the gut microbiome helps regulate the immune system. This relationship is especially important in infants, whose immune system is still premature and rely on innate immunity.

We investigated the three-way interplay among early-life exposures, the developing gut microbiome, and outcomes in infancy from the general population in New Hampshire, US. We used prospective cohort data from the New Hampshire Birth Cohort study to 1) determine whether timing of …

Links Between Electrophilic Stress And Antifungal Resistance In Pathogenic Candida Species, Amy R. Biermann

Dartmouth College Ph.D Dissertations

Collectively, Candida species are the most prevalent cause of both superficial and invasive fungal infections worldwide. Invasive Candida infections have a high mortality rate and predominantly affect individuals with underlying diseases, such as diabetes, HIV, or cancer. Unfortunately, many invasive Candida infections are recalcitrant to antifungal treatment, while intrinsically multidrug-resistant pathogens, like Candida auris, are increasing in prevalence. Although the canonical mechanisms of antifungal resistance in Candida species are well established, i.e., overexpression of efflux pumps and overexpression of or mutations in genes encoding drug targets, factors affecting the natural evolution and regulation of resistance mechanisms remain poorly understood. …

Advancing Combined Radiological And Optical Scanning For Breast-Conserving Surgery Margin Guidance, Samuel Stewart Streeter

Dartmouth College Ph.D Dissertations

Breast cancer is one of the most common types of cancer worldwide, and standard-of-care for early-stage disease typically involves a lumpectomy or breast-conserving surgery (BCS). BCS involves the local resection of cancerous tissue, while sparring as much healthy tissue as possible. State-of-the-art methods for intraoperatively evaluating BCS margins are limited. Approximately 20% of BCS cases result in a tissue resection with cancer at or near the resection surface (i.e., a positive margin). A two-fold increase in ipsilateral breast cancer recurrence is associated with the presence of one or more positive margins. Consequently, positive margins often necessitate costly re-excision procedures to …