Digital Commons Network^™

Current Perspectives On Mass Spectrometry-Based Immunopeptidomics: The Computational Angle To Tumor Antigen Discovery, Bing Zhang, Michal Bassani-Sternberg

Faculty, Staff and Students Publications

Identification of tumor antigens presented by the human leucocyte antigen (HLA) molecules is essential for the design of effective and safe cancer immunotherapies that rely on T cell recognition and killing of tumor cells. Mass spectrometry (MS)-based immunopeptidomics enables high-throughput, direct identification of HLA-bound peptides from a variety of cell lines, tumor tissues, and healthy tissues. It involves immunoaffinity purification of HLA complexes followed by MS profiling of the extracted peptides using data-dependent acquisition, data-independent acquisition, or targeted approaches. By incorporating DNA, RNA, and ribosome sequencing data into immunopeptidomics data analysis, the proteogenomic approach provides a powerful means for identifying …

A Retrospective Review Of Social Deprivation Index And Maternal Outcomes With Placenta Accreta Spectrum From A Single Referral Center, Alison N Goulding, Karin A Fox, Christina C Reed, Bahram Salmanian, Alireza A Shamshirsaz, Kjersti M Aagaard

Faculty, Staff and Students Publications

Objective

Little is known about how community characteristics influence placenta accreta spectrum (PAS) outcomes. Our objective was to evaluate whether adverse maternal outcomes among pregnant people (gravidae) with PAS delivering at a single referral center differ by community-level measures of social deprivation.

Study Design

We conducted a retrospective cohort study of singleton gravidae with histopathology confirmed PAS delivering from January 2011 to June 2021 at a referral center. Data abstraction collected relevant patient information, including resident zip code, which was linked to Social Deprivation Index (SDI) score (a measure of area-level social deprivation). SDI scores were divided into quartiles for …

Mems 411: Dialysqueeze, Ranch Kimball, Maeve Lomax, Tyler Carlson

Mechanical Engineering Design Project Class

Design a device to reduce occupational fatigue injuries suffered by nurses who must manually clamp and unclamp tubing for dialysis machines. This device was designed for MEMS 411 Senior Design.

Mems 411: Medical Clamp, Edis Skampo, Rodery Gonzalez, Sokcheatra Samrith, Sean Lucas

Mechanical Engineering Design Project Class

The goal of the team was to design a plier that would be able to clamp down a medical clamp used for a dialysis machine. Ideally the plier should be able to clamp down 3 medical clamps on three separate dialysis tubes in less than 5 seconds, reduce the force required to clamp those clamps by 4 times, and weigh less than 113 grams. The product design was broken down into 3 separate concepts, with four options for each component. The most preferable option of each component was chosen and several risk factors were taken in consideration so that the …

Tnf Is A Critical Cytokine In Age-Related Dry Eye Disease, Yashaswini Kelagere, Kaitlin K Scholand, Erica N Dejong, Andrea I Boyd, Zhiyuan Yu, Roger A Astley, Michelle C Callegan, Dawn Me Bowdish, Helen P Makarenkova, Cintia S De Paiva

Faculty, Staff and Students Publications

Aging is a complex biological process that is characterized by low-grade inflammation, called inflammaging. Aging affects multiple organs including eye and lacrimal gland. Tumor necrosis factor (TNF) is a pleiotropic cytokine that participates in inflammation, activation of proteases such as cathepsin S, and formation of ectopic lymphoid organs. Using genetic and pharmacological approaches, we investigated the role of TNF in age-related dry eye disease, emphasizing the ocular surface and lacrimal gland inflammation. Our results show the increased protein and mRNA levels of TNF in aged lacrimal glands, accompanied by increased TNF, IL1β, IL-18, CCL5, CXCL1, IL-2, IL-2 receptor alpha (CD25), …

Conditional Deletion Of Cd25 In The Corneal Epithelium Reveals Sex Differences In Barrier Disruption, Anmar Abu-Romman, Kaitlin K Scholand, Sonali Pal-Ghosh, Zhiyuan Yu, Yashaswini Kelagere, Ghasem Yazdanpanah, Winston W-Y Kao, Vivien J Coulson-Thomas, Mary Ann Stepp, Cintia S De Paiva

Faculty, Staff and Students Publications

PURPOSE: IL-2 promotes activation, clonal expansion, and deletion of T cells. IL-2 signals through its heterotrimeric receptor (IL-2R) consisting of the CD25, CD122 and CD132 chains. CD25 knockout (KO) mice develop Sjögren Syndrome-like disease. This study investigates whether corneal CD25/IL-2 signaling is critical for ocular health.

METHODS: Eyes from C57BL/6 mice were collected and prepared for immunostaining or in-situ hybridization. Bulk RNA sequencing was performed on the corneal epithelium from wild-type and CD25KO mice. We generated a conditional corneal-specific deletion of CD25 in the corneal epithelium (CD25

RESULTS: In C57BL/6 mice, CD25 mRNA was expressed in ocular tissues. Protein expression …

Cyber Fraud Profiling With Routine Activity Theory Using Data Mining Techniques, Sunardi Sunardi, Abdul Fadlil, Nur Makkie Perdana Kusuma

Malaysian Journal of Computing (MJoC)

Cyber profiling, as one of the supporting parts of digital forensics, is not only used to record and investigate cybercriminal behaviour. It can also be used to profile victim demographics based on victim characteristics. This study aims to create a cyber-fraud pattern based on a profile created from RAT. This research is expected to be input for internet users in Indonesia, especially IM users such as Instagram, Facebook, WhatsApp, and Telegram. The data collection method in this study uses data mining technology on structured and unstructured data. Structured data was obtained by conducting data mining on the number of cases …

Modelling Time Series Tropospheric Ozone Data And The Precursors To Study Effect And Relationship, Emilya Shahira Azli, Nurazrin Syafiqah Mat Asri, Siti Nurliyani Ahmad Tajuddin, Norshahida Shaadan, Siti Afiqah Muhamad Jamil, Shamsiah Sapri

Malaysian Journal of Computing (MJoC)

Understanding the role of pollutant precursors is very important to provide meaningful insights for planning and designing localized air pollution control strategies.  This study is conducted with the aim of describing the relationship and assessing the effect of several precursors (OX, NO, NO2, SO2, CO) towards O3 using Multiple Linear Regression (MLR) at an industrial (Petaling Jaya) and an urban (Shah Alam) location in Selangor, Peninsular Malaysia. Statistical modelling and analysis were conducted based on secondary data of time-series observations of multi-variables from the period of the year 2015-2017 obtained from the Department of Environment, Malaysia. Two models were developed, …

Vulgarized Neighbouring Network Of Multivariate Autoregressive Processes Of With Student-T Distri, Rasaki Olawale Olanrewaju, Ravi Prakash Ranjan, Queensley C. Chukwudum, Sodiq Adejare Olanrewaju

Malaysian Journal of Computing (MJoC)

This paper introduces the vulgarized network autoregressive process with Gaussian and Student-t random noises. The processes relate the time-varying series of a given variable to the immediate past of the same phenomenon with the inclusion of its neighboring variables and networking structure. The generalized network autoregressive process would be fully spelt-out to contain the aforementioned random noises with their embedded parameters (the autoregressive coefficients, networking nodes, and neighboring nodes) and subjected to monthly prices of ten (10) edible cereals. Global-α of Generalized Network Autoregressive (GNAR) of order lag two, the neighbor at the time lags two and the neighbourhood nodal …

Irish Studies News And Events 2023, Irish Studies

News, Magazines and Reports

Irish Studies at SHU has been growing! In our first newsletter, we are thrilled to share news about our students, faculty, events, courses, the Irish Studies minor, and research and scholarship projects happening in both in Fairfield and Dingle.

Library space houses the newly-donated Connecticut Irish-American Historical Society archives, called The Shanachie Room/Seomra an tSeanchaí, where our Irish language and Irish drama courses are meeting this semester.

Molecular And Biochemical Analysis Of Cytochrome P450 2c19 And 2d6, Reema Saleous

Theses

Pharmacogenomics (PGx) is a relatively new field of study. It links genetics to pharmacology since it deals with the influence of the genetic makeup of the individual on their ability to respond to specific medications. Some of the most important genes in this field, dubbed very important pharmacogenes (VIPs), belong to the cytochrome P450 (CYP) superfamily of drug metabolizing enzymes. The two members of this family that are the main focus of this thesis are CYP2C19 and CYP2D6. They play major roles in the metabolism of numerous medications, and it is therefore imperative that variations within those genes in various …

Combination Therapy Of Triple-Negative Breast Cancer With Paclitaxel And Ambrisentan, A Selective Antagonist Of The Endothelin Type A Receptor, Inhibits Tumor Growth And Metastasis, Farah Nasser Almahrook

Theses

Cancer treatment is a big challenge especially when associated with metastasis. Moreover, the importance of using combination therapy is increasing, especially for highly invasive, drug-resistant cancers, such as triple-negative breast cancer (TNBC). Ambrisentan, a selective antagonist of the endothelin type A receptor (ETAR) was previously shown to reduce metastasis of TNBC in a preclinical tumor model when used prophylactically. In the current study, we investigated the therapeutic potential of Ambrisentan, given as monotherapy or in combination with Paclitaxel, on TNBC. The data show that oral dosing with Ambrisentan led to a significant retardation in tumor growth and metastasis. Moreover, combining …

Fathoming Faith: A Philosophical Synthesis On Faith And Reason, Martin Wang

Loyola Papers

No abstract provided.

Contributors, Contributors Contributors

Loyola Papers

No abstract provided.

Recycling Of Electrode Materials From Spent Lithium-Ion Batteries To Develop Supercapacitor Devices, Yasmine Mesbah

Theses and Dissertations

Recently, there has been a rapid expansion in the utilization of lithium-ion batteries (LIBs) due to the propagation of portable electronic devices, electric vehicles, and renewable energy storage systems. Despite the plentiful advantages provided by LIBs, concerns have emerged regarding resource depletion and the environmental impact associated with their widespread use. The lack of essential resources such as lithium, cobalt, and nickel, along with the difficulties associated with managing battery waste, necessitates the development of sustainable strategies that encompass the entire lifecycle of LIBs. Recycling has arisen as a promising solution to combat these challenges and promote a more circular …

Design, Fabrication, And Evaluation Of 3-D-Printed Cystotomy Spoons As A Retrieval Method In Dogs, Davina C. D'Angelo, Sam E. Stephens, Morten O. Jensen, Lauren R. Thomas

Animal Science Faculty Publications and Presentations

OBJECTIVE

Current cystotomy methods often implement the use of off-label devices, resulting in urocystolith extraction difficulty and potentially leading to postoperative complications and discomfort for the patient. The objective of this study was to create 3 novel 3-D printed cystotomy spoons that offer a dedicated solution for removing urocystoliths from a patient's urinary bladder.

ANIMALS

Clinical use of the 3 novel 3-D printed cystotomy spoons were ultimately evaluated in 4 dogs and 1 cat that presented for urocystotlith removal at 3 different veterinary hospitals in northwest Arkansas.

METHODS

The novel cystotomy spoons were designed using SolidWorks, 3-D printed with a …

What's Your Type? The Relationship Between Enneagram Personality Style And Psychiatric Diagnosis, Danielle Augusta Huber

Theses and Dissertations

Despite its long history and ever-growing popularity amongst mental health providers and laypeople, the Enneagram model of personality has seen limited empirical support regarding its clinical relevance and efficacy. The present study sought to contribute to the literature supporting the Enneagram’s use in psychotherapy. As a majority of therapeutic services aim for the reduction and/or resolution of psychopathology, often in terms of one or more diagnoses, and as previous research has theorized how the Enneagram model and psychiatric diagnoses might be related (Palmer, 1988), it was the researchers’ intention to analyze whether these theoretical associations could be statistically supported. This …

Characterizing Allosteric Regulation And Conformational Dynamics In Staphylococcus Aureus Pyruvate Carboxylase, Amanda Joan Laseke

Dissertations (1934 -)

Pyruvate carboxylase (PC) produces oxaloacetate from pyruvate and bicarbonatein an ATP-dependent manner. The catalytic activity of PC places it at a pivotal intersection between catabolism and anabolism. Understanding the essential metabolic role of PC requires a more complete description of how its activity is regulated and how that regulation is manifested through changes in conformational dynamics. PC activity is regulated by the mutually exclusive binding of the allosteric activator, acetyl-CoA, and the allosteric inhibitor, L-aspartate. The binding site for acetyl- CoA has largely been identified, but the binding location for the acetyl moiety is unknown. Given that the acetyl moiety …

Beyond The Binary: L1 Strategies For Spoken Non-Binary French, Kate Carlyle , '24

Senior Theses, Projects, and Awards

French, like other Romance languages, operates on a largely binary morphological gender system, leading to many potential linguistic complications when it is used to index social genders that fall outside of said binary (Michele 2016, Kaplan 2022). Certain morphosyntactic features of French specifically make accomplishing many non-binary (NB) marking strategies in speech all the more challenging. This paper presents an interview-based study conducted with 7 L1 French speakers living in France to assess what strategies are most commonly used in practice to describe a non-binary referent in speech. Through an elicitation exercise that prompted speakers to describe various stick figure-based …

Opportunities For Regional Collaboration And Prevention: Assessing The Risk Of The Live Bait Trade As A Pathway Of Invasive Species, Hannah Mulligan, Benjamin J. Schall, Tanner Davis, Alison A. Coulter

NRM Departmental Data Sets

File type: .xlsx
File size : 17 KB

This file contains the model input data for evaluating the influence of risk factors on the probability of obtaining a positive eDNA detection in sampled bait retailers of the Missouri River basin. Variables in the dataset include the bait retailer sampled, presence of signage, presence of non-advertised species, distance from a bait retailer to a recorded observation of bigheaded carp, detection of bigheaded carp eDNA in a bait retailer, state, and watershed.

There is also a metadata tab in the excel document with additional dataset and variable descriptions.

Implementation Of The Adult Adhd Self-Report Scale In A Mental Health Clinic, Anne Hocking

Doctor of Nursing Practice Projects

Less than 20% of adults with attention deficit hyperactivity disorder (ADHD) are adequately treated due to overlapping symptomology of comorbid psychiatric conditions. Anxiety and depression are the most common comorbid psychiatric conditions in adults with ADHD. Diagnosis, treatment, and outcomes of adults with ADHD are impacted due to inadequate screening. The setting for this project occurred in a Veteran Affairs mental health outpatient clinic in central Illinois. The process was implemented by screening adults diagnosed with depression or anxiety using the adult ADHD self-report scale (ASRS). Of the 150 participants, 90 scored higher than 17 on the self-report scale, indicating …

I See Myself Strong: A Description Of An Expressive Poetic Method To Amplify Two-Spirit, Lesbian, Gay, Bisexual, Trans, Queer Indigenous Youth Experiences In A Culture-Centered Hiv Prevention Curriculum, Ramona Beltrán, Antonia R.G. Alvarez, Angela R. Fernandez

School of Social Work Faculty Publications and Presentations

Poetry is an ideal tool to convey participant voices in social research as it compresses the meaning and essence of participant narratives through using evocative sensory words that illuminate nuances of lived experience. Expressive poetics is an emerging arts-based research method that facilitates a multi-sensory and relational analytical process. In this article, the authors describe and illustrate an adapted expressive poetics research method through highlighting the experiences of Two Spirit, lesbian, gay, transgender, or queer (2SLGBTQ) Indigenous youth that participated in a culture-centered HIV prevention curriculum. It is our hope that through creating dialogic poems, we deepen and nuance the …

Understanding The Prevalence, Progression, And Management Of Metabolic Syndrome In Saudi Arabia, Faez Falah Alshehri

Saudi Medical Journal

Metabolic syndrome (MetS) is characterized by the coexistence of several disorders comprising hypertension, abdominal obesity, insulin sensitivity, and dyslipidemia. In recent times, MetS has gained increased attention due to the global prevalence of obesity. Adipose tissue plays a crucial role in this syndrome by releasing various molecules significantly affecting lipid/insulin regulation, oxidative stress, and cardiovascular function. Tumor necrosis factor-α (p-α), an inflammatory cytokine, and adiponectin, an adipose tissue-specific protein, are considered vital adipokines that play a significant role in the pathogenesis of MetS. The impact of dietary ingredients on MetS management has been extensively studied over the past few decades. …

Assessing The Effects Of Upwelling-Driven Ph And Dissolved Oxygen Variability On Juvenile Rockfishes, Melissa Palmisciano

Capstone Projects and Master's Theses

Global climate change is expected to increase the frequency and severity of upwelling events in the California Current Ecosystem, yielding concurrent reductions in pH and dissolved oxygen (DO) in coastal marine environments. Juvenile copper (Sebastes caurinus) and gopher (Sebastes carnatus) rockfish may be particularly vulnerable to low pH and DO because they settle nearshore during the upwelling season. Previous studies often use static (i.e., fixed) pH and DO treatments in the laboratory, but ocean chemistry is dynamic and these conditions fluctuate naturally in upwelling zones. To determine how fluctuations in ocean chemistry will impact rockfish behavioral and physiological performance at …

Habitat-Mediated Efficacy Of 360 Degree Diver-Operated Video For Quantitative Surveys Of California Reef Fishes, Kameron Strickland

Capstone Projects and Master's Theses

Temperate rocky reefs feature a mosaic of complex macrohabitat features which host a variety of demersal fish species. Giant kelp forests add considerable vertical structure to rocky reefs, including macrohabitats extending from the reef to the upper water column. Much of what we know about temperate communities derives from shallow SCUBA surveys in which divers record observations using underwater visual census (UVC) techniques. Increasingly, these communities are being studied with video techniques first utilized in deeper water. While UVC provides immediate data on fish communities and requires no additional technology either for data collection or post-processing, imagery captures the fine-scale …

Computational Investigation Of Mononuclear Iron Water Oxidation Catalyst Design, Kristal Stevens, Emily Jarvis

Chemistry and Biochemistry Faculty Works

Hydrogen production from non-carbon sources is an essential component of clean and sustainable technology for reducing greenhouse gas emissions from fuels. Water oxidation, which splits water molecules into hydrogen (protons) and molecular oxygen, is a thermodynamically challenging, multistep reaction achieved in photosynthetic organisms via photocatalysis by the Oxygen Evolving Complex (OEC) of Photosystem II. Mononuclear water oxidation catalysts that aim to mimic nature typically rely on heavy, rare metals such as ruthenium and iridium. Replacing these metals with iron is particularly appealing because it is abundant, benign, and inexpensive. We use density functional theory to characterize the catalytic ability of …

Academic Economic Espionage?, Elizabeth A. Rowe

William & Mary Law Review

In 2018 the U.S. government announced that Chinese espionage was occurring in university research labs, and the Department of Justice subsequently made it a high priority to prosecute economic espionage in academia. The DOJ’s grave concerns about espionage in academia have continued, and the Director of the FBI has lamented that American taxpayers are footing the bill for China’s technological development. This geopolitical concern about espionage has had real world and personal consequences in academia. Since 2019, over a dozen high-profile criminal prosecutions have put prominent professors at major research universities across the country in handcuffs and almost all the …

Examining Christ’S Method Of Ministering To People Using Maslow’S Hierarchy Of Needs: A Theoretical Analysis, Danie Potgieter

Journal of Adventist Mission Studies

This article seeks to view Christ’s Method through the lens of Maslow’s theory of Hierarchy of Needs. The ensuing theoretical discourse adheres to a structured framework, encompassing the following components: Introduction, Christ’s Methods as Found in Scripture, Christ’s Method as Articulated by Ellen G. White, Maslow’s Hierarchy of Needs Theory, Christ’s Method and Maslow’s Hierarchy of Needs, Application and Implications, and a Concluding Section.

Learning Opportunities 2023/2024, Illinois Math And Science Academy

Course Catalogs

The graduation requirements of the Illinois Mathematics and Science Academy are established by the IMSA Board of Trustees. Each semester students must take a minimum of five academic courses (2.5 credits) for a letter grade (not Pass/Fail) not including Fine Arts, Wellness, SIR, Internship, and Independent Study. Students may enroll in a maximum of nine courses each semester including academic courses, Fine Arts, Wellness, SIR, Internship, and Independent Study. The College and Academic Counselor approves enrollment for students in all courses and experiences. Only courses taken for a letter grade will count towards graduation credit.

Reclaiming The Balance: Blocking Glutamine Uptake To Restrain Pulmonary Fibrosis, Gang Liu, Ross Summer

Center for Translational Medicine Faculty Papers

No abstract provided.