Digital Commons Network^™

Missing History Of A Modern Domesticate: Historical Demographics And Genetic Diversity In Farm-Bred Red Fox Populations, Halie M. Rando, Emmarie P. Alexander, Sophie Preckler-Quisquater, Cate B. Quinn, Jeremy T. Stutchman, Jennifer L. Johnson, Estelle R. Bastounes, Beata Horecka, Kristina L. Black, Michael P. Robson, Darya V. Shepeleva, Yury E. Herbeck, Anastasiya V. Kharlamova, Lyudmila N. Trut, Jonathan N. Pauli, Benjamin N. Sacks, Anna V. Kukekova

Computer Science: Faculty Publications

The first record of captive-bred red foxes (Vulpes vulpes) dates to 1896 when a breeding enterprise emerged in the provinces of Atlantic Canada. Because its domestication happened during recent history, the red fox offers a unique opportunity to examine the genetic diversity of an emerging domesticated species in the context of documented historical and economic influences. In particular, the historical record suggests that North American and Eurasian farm-bred populations likely experienced different demographic trajectories. Here, we focus on the likely impacts of founder effects and genetic drift given historical trends in fox farming on North American and Eurasian farms. A …

Durable Responses With Mosunetuzumab In Relapsed/Refractory Indolent And Aggressive B-Cell Non-Hodgkin Lymphomas: Extended Follow-Up Of A Phase I/Ii Study, Lihua E Budde, Nancy L Bartlett, Et Al.

2020-Current year OA Pubs

No abstract provided.

Survival Disparities In Rural Versus Urban Patients With Pancreatic Neuroendocrine Tumor: A Multi-Institutional Study From The Us Neuroendocrine Tumor Study Group, Muhammad Bilal Mirza, Jordan J Baechle, Paula Marincola Smith, Mary Dillhoff, George Poultsides, Flavio G Rocha, Clifford S Cho, Emily R Winslow, Ryan C Fields, Shishir K Maithel, Kamran Idrees

2020-Current year OA Pubs

BACKGROUND: Pancreatic Neuroendocrine Tumors (PNETs) are indolent malignancies that often have a prolonged clinical course. This study assesses disparities in outcomes between PNET patients who live in urban (UA) and rural areas (RA).

METHODS: A retrospective cohort study was performed using the US Neuroendocrine Tumor Study Group database. PNET patients with a home zip code recorded were included and categorized as RA or UA according to the Federal Office of Rural Health Policy. Overall survival (OS) was analyzed by Kaplan-Meier method, log-rank test, and logistical regression.

RESULTS: Of the 1176 PNET patients in the database, 1126 (96%) had zip code …

Spinal Calcifying Pseudoneoplasms Of The Neuraxis: A Case Report And Review Of The Literature, Ajay Chatrath, Mackenzie Lemieux, Rujvee P Patel, Kaleigh F Roberts, Sonika Dahiya, Brenton Pennicooke

2020-Current year OA Pubs

Calcifying pseudoneoplasms of the neuraxis (CAPNON) are rare, non-neoplastic, slow-growing tumors that can present anywhere throughout the central nervous system. While the etiology of these lesions remains unknown, the mainstay of treatment is surgical excision. We describe a case of CAPNON at our institution in a 66 year-old female patient who presented with 5 months of pain and burning sensation in her thigh. On MRI, an intradural extramedullary lesion was identified at the level of T11-T12. The mass was surgically excised and the patient reported resolution of her symptoms by her six week follow-up appointment. We reviewed 79 spinal CAPNON …

Distinguishing Recrudescence From Reinfection In Lymphatic Filariasis, Young-Jun Choi, Kerstin Fischer, Aboulaye Méité, Benjamin G Koudou, Peter U Fischer, Makedonka Mitreva

2020-Current year OA Pubs

BACKGROUND: The Global Program to Eliminate Lymphatic Filariasis (GPELF) is the largest public health program based on mass drug administration (MDA). Despite decades of MDA, ongoing transmission in some countries remains a challenge. To optimise interventions, it is critical to differentiate between recrudescence and new infections. Since adult filariae are inaccessible in humans, deriving a method that relies on the offspring microfilariae (mf) is necessary.

METHODS: We developed a genome amplification and kinship analysis-based approach using Brugia malayi samples from gerbils, and applied it to analyse Wuchereria bancrofti mf from humans in Côte d'Ivoire. We examined the pre-treatment genetic diversity …

Poglut2/3 Double Knockout In Mice Results In Neonatal Lethality With Reduced Levels Of Fibrillin In Lung Tissues, Sanjiv Neupane, Daniel B Williamson, Robyn A Roth, Carmen M Halabi, Robert S Haltiwanger, Bernadette C Holdener

2020-Current year OA Pubs

Fibrillin microfibrils play a critical role in the formation of elastic fibers, tissue/organ development, and cardiopulmonary function. These microfibrils not only provide structural support and flexibility to tissues, but they also regulate growth factor signaling through a plethora of microfibril-binding proteins in the extracellular space. Mutations in fibrillins are associated with human diseases affecting cardiovascular, pulmonary, skeletal, and ocular systems. Fibrillins consist of up to 47 epidermal growth factor-like repeats, of which more than half are modified by protein O-glucosyltransferase 2 (POGLUT2) and/or POGLUT3. Loss of these modifications reduces secretion of N-terminal fibrillin constructs overexpressed in vitro. Here, we investigated …

Modulation Of Tmem16b Channel Activity By The Calcium-Activated Chloride Channel Regulator 4 (Clca4) In Human Cells, Monica Sala-Rabanal, Zeynep Yurtsever, Kayla N Berry, Conor Mcclenaghan, Alyssa J Foy, Alex Hanson, Deborah F Steinberg, Jessica A Greven, Colin E Kluender, Jennifer M Alexander-Brett, Colin G Nichols, Tom J Brett

2020-Current year OA Pubs

The Ca

Study Of A Pst-Trained Voice-Enabled Artificial Intelligence Counselor For Adults With Emotional Distress (Speac-2): Design And Methods, Corina R Ronneberg, Thomas Kannampallil, Et Al.

2020-Current year OA Pubs

BACKGROUND: Novel and scalable psychotherapies are urgently needed to address the depression and anxiety epidemic. Leveraging artificial intelligence (AI), a voice-based virtual coach named Lumen was developed to deliver problem solving treatment (PST). The first pilot trial showed promising changes in cognitive control measured by functional neuroimaging and improvements in depression and anxiety symptoms.

METHODS: To further validate Lumen in a 3-arm randomized clinical trial, 200 participants with mild-to-moderate depression and/or anxiety will be randomly assigned in a 2:1:1 ratio to receive Lumen-coached PST, human-coached PST as active treatment comparison, or a waitlist control condition where participants can receive Lumen …

Aqueous Macrophages Contribute To Conserved Ccl2 And Cxcl10 Gradients In Uveitis, Joseph B Lin, Kathryn L Pepple, Christian Concepcion, Yulia Korshunova, Michael A Paley, Grace L Paley, Jennifer Laurent, Rajendra S Apte, Lynn M Hassman

2020-Current year OA Pubs

PURPOSE: Uveitis is a heterogenous group of inflammatory eye disease for which current cytokine-targeted immune therapies are effective for only a subset of patients. We hypothesized that despite pathophysiologic nuances that differentiate individual disease states, all forms of eye inflammation might share common mechanisms for immune cell recruitment. Identifying these mechanisms is critical for developing novel, broadly acting therapeutic strategies.

DESIGN: Experimental study.

SUBJECTS: Biospecimens from patients with active or inactive uveitis and healthy controls.

METHODS: Protein concentration and single cell gene expression were assessed in aqueous fluid biopsies and plasma samples from deidentified patients with uveitis or healthy controls. …

Persistent Transcriptional Changes In Cardiac Adaptive Immune Cells Following Myocardial Infarction: New Evidence From The Re-Analysis Of Publicly Available Single Cell And Nuclei Rna-Sequencing Data Sets, Natasha De Winter, Jiahui Ji, Amalia Sintou, Elvira Forte, Michael Lee, Michela Noseda, Aoxue Li, Andrew L Koenig, Kory J Lavine, Sikander Hayat, Nadia Rosenthal, Costanza Emanueli, Prashant K Srivastava, Susanne Sattler

2020-Current year OA Pubs

INTRODUCTION: Chronic immunopathology contributes to the development of heart failure after a myocardial infarction. Both T and B cells of the adaptive immune system are present in the myocardium and have been suggested to be involved in post-MI immunopathology.

METHODS: We analyzed the B and T cell populations isolated from previously published single cell RNA-sequencing data sets (PMID: 32130914, PMID: 35948637, PMID: 32971526 and PMID: 35926050), of the mouse and human heart, using differential expression analysis, functional enrichment analysis, gene regulatory inferences, and integration with autoimmune and cardiovascular GWAS.

RESULTS: Already at baseline, mature effector B and T cells are …

[18f]F-Arag Imaging Reveals Association Between Neuroinflammation And Brown- And Bone Marrow Adipose Tissue, Jelena Levi, Caroline Guglielmetti, Et Al.

2020-Current year OA Pubs

Brown and brown-like adipose tissues have attracted significant attention for their role in metabolism and therapeutic potential in diabetes and obesity. Despite compelling evidence of an interplay between adipocytes and lymphocytes, the involvement of these tissues in immune responses remains largely unexplored. This study explicates a newfound connection between neuroinflammation and brown- and bone marrow adipose tissue. Leveraging the use of [

Healthy Dietary Patterns Are Associated With Exposure To Environmental Chemicals In A Pregnancy Cohort, Guoqi Yu, Ruijin Lu, Jiaxi Yang, Mohammad L Rahman, Ling-Jun Li, Dong D Wang, Qi Sun, Wei Wei Pang, Claire Guivarch, Anna Birukov, Jagteshwar Grewal, Zhen Chen, Cuilin Zhang

2020-Current year OA Pubs

Healthy dietary patterns, such as the alternate Mediterranean diet and alternate Healthy Eating Index, benefit cardiometabolic health. However, several food components of these dietary patterns are primary sources of environmental chemicals. Here, using data from a racially and ethnically diverse US cohort, we show that healthy dietary pattern scores were positively associated with plasma chemical exposure in pregnancy, particularly for the alternate Mediterranean diet and alternate Healthy Eating Index with polychlorinated biphenyls and per- and poly-fluoroalkyl substances. The associations appeared stronger among Asian and Pacific Islanders. These findings suggest that optimizing the benefits of a healthy diet requires concerted regulatory …

Plasmacytoid Dendritic Cells Control Homeostasis Of Megakaryopoiesis, Florian Gaertner, Marco Colonna, Et Al.

2020-Current year OA Pubs

Platelet homeostasis is essential for vascular integrity and immune defence

A Bistable Inhibitory Optogpcr For Multiplexed Optogenetic Control Of Neural Circuits, Jonas Wietek, Bobbie J Brown, Bryan A Copits, Et Al.

2020-Current year OA Pubs

Information is transmitted between brain regions through the release of neurotransmitters from long-range projecting axons. Understanding how the activity of such long-range connections contributes to behavior requires efficient methods for reversibly manipulating their function. Chemogenetic and optogenetic tools, acting through endogenous G-protein-coupled receptor pathways, can be used to modulate synaptic transmission, but existing tools are limited in sensitivity, spatiotemporal precision or spectral multiplexing capabilities. Here we systematically evaluated multiple bistable opsins for optogenetic applications and found that the Platynereis dumerilii ciliary opsin (PdCO) is an efficient, versatile, light-activated bistable G-protein-coupled receptor that can suppress synaptic transmission in mammalian neurons with …

Momelotinib Vs. Ruxolitinib In Myelofibrosis Patient Subgroups By Baseline Hemoglobin Levels In The Simplify-1 Trial, Vikas Gupta, Stephen Oh, Et Al.

2020-Current year OA Pubs

A key hallmark of myelofibrosis is anemia, which ranges from mild to severe based on hemoglobin levels. To more clearly define outcomes with the Janus kinase (JAK) 1/JAK2/activin A receptor type 1 inhibitor momelotinib by anemia severity, we performed a descriptive post hoc exploratory analysis of the double-blind, randomized, phase 3 SIMPLIFY-1 study (NCT01969838;

Tumor-Immune Signatures Of Treatment Resistance To Brentuximab Vedotin With Ipilimumab And/Or Nivolumab In Hodgkin Lymphoma, Edgar Gonzalez-Kozlova, Brad S Kahl, Et Al.

2020-Current year OA Pubs

UNLABELLED: To investigate the cellular and molecular mechanisms associated with targeting CD30-expressing Hodgkin lymphoma (HL) and immune checkpoint modulation induced by combination therapies of CTLA4 and PD1, we leveraged Phase 1/2 multicenter open-label trial NCT01896999 that enrolled patients with refractory or relapsed HL (R/R HL). Using peripheral blood, we assessed soluble proteins, cell composition, T-cell clonality, and tumor antigen-specific antibodies in 54 patients enrolled in the phase 1 component of the trial. NCT01896999 reported high (>75%) overall objective response rates with brentuximab vedotin (BV) in combination with ipilimumab (I) and/or nivolumab (N) in patients with R/R HL. We observed …

Suicide In Us Preteens Aged 8 To 12 Years, 2001 To 2022, Donna A Ruch, Lisa M Horowitz, Jennifer L Hughes, Katherine Sarkisian, Joan L Luby, Cynthia A Fontanella, Jeffrey A Bridge

2020-Current year OA Pubs

No abstract provided.

Matching-Adjusted Indirect Comparison From The Lymphoma Epidemiology Of Outcomes Consortium For Real World Evidence (Leo Crewe) Study To A Clinical Trial Of Mosunetuzumab In Relapsed Or Refractory Follicular Lymphoma, Matthew J. Maurer, Brad S. Kahl, Et Al.

2020-Current year OA Pubs

Mosunetuzumab is a novel bispecific antibody targeting epitopes on CD3 on T cells and CD20 on B cells with the goal of inducing T-cell mediated elimination of malignant B cells. A recent pivotal phase I/II clinical trial (GO29781) demonstrated that mosunetuzumab induced an overall response rate (ORR) of 80%, complete response (CR) rate of 60%, and a median progression-free survival (PFS) of 17.9 months in patients with relapsed/refractory (R/R) follicular lymphoma (FL) following at least two prior lines of systemic therapy, including alkylator and anti-CD20 antibody-based therapy. Historical data from cohorts receiving therapy for R/R FL can provide some context …

A Phase Ii Trial Of The Wee1 Inhibitor Adavosertib In Setd2-Altered Advanced Solid Tumor Malignancies (Nci 10170), Edward Maldonado, Nikolaos A Trikalinos, Et Al.

2020-Current year OA Pubs

UNLABELLED: We sought to evaluate the efficacy of WEE1 inhibitor adavosertib in patients with solid tumor malignancies (cohort A) and clear cell renal cell carcinoma (ccRCC; cohort B). NCT03284385 was a parallel cohort, Simon two-stage, phase II study of adavosertib (300 mg QDAY by mouth on days 1-5 and 8-12 of each 21-day cycle) in patients with solid tumor malignancies harboring a pathogenic SETD2 mutation. The primary endpoint was the objective response rate. Correlative assays evaluated the loss of H3K36me3 by IHC, a downstream consequence of SETD2 loss, in archival tumor tissue. Eighteen patients were enrolled (9/cohort). The median age …

A Survey Of Availability And Affordability Of Polypills For Cardiovascular Disease In Selected Countries, Gautam Satheesh, Bishal Gyawali, Marie France Chan Sun, Mark D Huffman, Amitava Banerjee, Pablo Perel, Adrianna Murphy

2020-Current year OA Pubs

BACKGROUND: The recent inclusion of polypills-fixed-dose combinations of antihypertensive medicines and a statin with or without aspirin-in the World Health Organization's Essential Medicines List (EML) reiterates the potential of this approach to improve global treatment coverage for cardiovascular diseases (CVDs). Although there exists extensive evidence on the effectiveness, safety and acceptability of polypills, there has been no research to date assessing the real-world availability and affordability of polypills globally.

METHODS: We conducted a cross-sectional survey, based on the WHO/Health Action International methodology, in 13 countries around the world. In the surveyed countries, we first ascertained whether any polypill was authorised …

Integrating Multisector Molecular Characterization Into Personalized Peptide Vaccine Design For Patients With Newly Diagnosed Glioblastoma, Tanner M Johanns, Elizabeth A R Garfinkle, Katherine E Miller, Alexandra J Livingstone, Kaleigh F Roberts, Lakshmi P Rao Venkata, Joshua L Dowling, Michael R Chicoine, Ralph G Dacey, Gregory J Zipfel, Albert H Kim, Elaine R Mardis, Gavin P Dunn

2020-Current year OA Pubs

PURPOSE: Outcomes for patients with glioblastoma (GBM) remain poor despite multimodality treatment with surgery, radiation, and chemotherapy. There are few immunotherapy options due to the lack of tumor immunogenicity. Several clinical trials have reported promising results with cancer vaccines. To date, studies have used data from a single tumor site to identify targetable antigens, but this approach limits the antigen pool and is antithetical to the heterogeneity of GBM. We have implemented multisector sequencing to increase the pool of neoantigens across the GBM genomic landscape that can be incorporated into personalized peptide vaccines called NeoVax.

PATIENTS AND METHODS: In this …

Il2 Targeted To Cd8+ T Cells Promotes Robust Effector T-Cell Responses And Potent Antitumor Immunity, Kelly D Moynihan, Hussein Sultan, Robert D Schreiber, Et Al.

2020-Current year OA Pubs

IL2 signals pleiotropically on diverse cell types, some of which contribute to therapeutic activity against tumors, whereas others drive undesired activity, such as immunosuppression or toxicity. We explored the theory that targeting of IL2 to CD8+ T cells, which are key antitumor effectors, could enhance its therapeutic index. To this aim, we developed AB248, a CD8 cis-targeted IL2 that demonstrates over 500-fold preference for CD8+ T cells over natural killer and regulatory T cells (Tregs), which may contribute to toxicity and immunosuppression, respectively. AB248 recapitulated IL2's effects on CD8+ T cells in vitro and induced selective expansion of CD8+T cells …

Epigenetic Developmental Mechanisms Underlying Sex Differences In Cancer, Joshua B. Rubin, Tamara Abou-Antoun, Joseph E. Ippolito, Lorida Llaci, Camryn T. Marquez, Jason P. Wong, Lihua Yang

2020-Current year OA Pubs

Cancer risk is modulated by hereditary and somatic mutations, exposures, age, sex, and gender. The mechanisms by which sex and gender work alone and in combination with other cancer risk factors remain underexplored. In general, cancers that occur in both the male and female sexes occur more commonly in XY compared with XX individuals, regardless of genetic ancestry, geographic location, and age. Moreover, XY individuals are less frequently cured of their cancers, highlighting the need for a greater understanding of sex and gender effects in oncology. This will be necessary for optimal laboratory and clinical cancer investigations. To that end, …

Ballc And Ballcools: Efficient Formatting And Operating For Single-Cell Dna Methylation Data, Wei Tian, Wubin Ding, Jiawei Shen, Daofeng Li, Ting Wang, Joseph R Ecker

2020-Current year OA Pubs

MOTIVATION: With single-cell DNA methylation studies yielding vast datasets, existing data formats struggle with the unique challenges of storage and efficient operations, highlighting a need for improved solutions.

RESULTS: BAllC (Binary All Cytosines) emerges as a tailored format for methylation data, addressing these challenges. BAllCools, its complementary software toolkit, enhances parsing, indexing, and querying capabilities, promising superior operational speeds and reduced storage needs.

AVAILABILITY AND IMPLEMENTATION: https://github.com/jksr/ballcools.

A Careful Examination Of The Parameters Impacting The Study Of Plant/Bacteria Interactions, Caroline Victoria Royals

Theses and Dissertations

Our laboratory has been studying how different Caulobacter strains impact Arabidopsis plant growth. While reading papers published by other laboratories, I noticed inconsistencies in the methods used by different plant/bacteria interaction studies. For example, a variety of different variables have been used for defining a bacterium as Plant Growth Promoting (PGP). To establish a baseline, I conducted longitudinal studies that examined the impact of bacteria on all phases of a plant’s life. I found that individual Caulobacter wild type strains impact different aspects of plant growth. In addition, I continuously encountered problems with within and between pot variation in plant …

Design And Development Of A Direct Medium Voltage Solar Pv Resonant Inverter, Parthkumar Sureshkumar Bhuvela

Theses and Dissertations

In a grid-tied photovoltaic (PV) system connected to a medium voltage (MV) grid, an inverter is generally employed with a line frequency transformer (LFT) to connect to the grid. These LFTs are large in size and weight, exhibit high cost and losses. In recent studies, the LFTs replaced by are by (high frequency transformer) HFT embedded in DC-DC converters. These DC-DC converters are used to boost voltage levels and DC-AC inverters are employed for MV inversion. This leads to high frequency switching at MV which increases losses in inversion stage. In this study, a novel MV grid-connected solar PV inverter …

Investigating The Effects Of Calcitonin Gene Related Peptide On Heart Failure And The Gut Microbiome, Talia Charlotte Kepniss

Theses and Dissertations

Heart failure affects millions of people worldwide with current available treatments that are limited in their efficacy. The financial burden for care of those with heart failure is over 20 billion dollars in the US alone. Calcitonin gene related peptide has demonstrated cardioprotective and powerful vasodilator effects. In this study our objective is to prevent the onset of heart failure and treat early stages of heart failure with injections of calcitonin gene related peptide in C57BL/6 mice. In order to model heart failure, experimental mice underwent a transverse aortic constriction surgery. Echocardiograms and fecal collections were completed to observe changes …

Collegiate Student-Athlete Responses To The Covid-19 Pandemic, Alexa Jenny Chandler

Theses and Dissertations

Introduction: Exercise imposes a physiological stressor on the body which is amplified as training intensifies. Collegiate fall-sport student-athletes return after summer break (off-season) and have approximately two weeks of training (preseason) with coaching staff before competition begins. The 2020 fall season was preceded by a five-month period away from campus due to the timing of the coronavirus 2019 (COVID-19) pandemic. This also meant all commercial gyms and training facilities were closed, and student-athletes were forced to train with the resources they had at home. Upon return to campus, significant changes were made to practice and competition structures in attempt to …

Control Optimization And Adaptive Tuning Of Droop Controlled Systems For Dc Bus Stability Via Terminal Impedance Shaping, Andy Wong

Theses and Dissertations

Many traditional AC systems have been moving towards DC in recent decades due to advancements in power electronics and semiconductor devices. DC power distribution systems, such as DC microgrids, have become increasing popular due to energy efficiency, resiliency, and renewable energy integration. However, with such systems which commonly utilize droop control, comes an issue of system stability due to the interconnection of multiple feedback-controlled converters to a common bus. To combat this issue, this thesis proposes a control optimization and adaptive tuning approach for maintaining DC bus stability and dynamic performance of droop controlled systems. First, a terminal impedance model …

Exploring Shape Dependency Of Catalysts For Chemical Reactions, Kaveh Shariati

Theses and Dissertations

Recent advancements in the synthesis of nanoparticles, particularly one-dimensional (1D) nanoparticles, have significantly enhanced the catalytic activity of various processes by enabling precise control over their morphologies and exposing unique crystallographic facets. The shape of nanoparticles is closely linked to their chemical, physical, electrical, optical, magnetic, and catalytic properties. This dissertation investigates the impact of 1D nanoparticle catalysts on two distinct and well-known chemical reactions. In the first part of the study, we explore the catalytic activity and selectivity of silver catalysts in the ethylene epoxidation reaction, which are intrinsically linked to their faceting. Silver nanowire catalysts representing Ag(100) and …