Digital Commons Network^™

Protein Language Models-Based Representation For Post-Translational Modification Prediction, Suresh Pokharel

Theses

Post-translational modifications (PTMs) are chemical changes that occur after translation and play a key role in regulating protein function and cellular processes. Their dysregulation is associated with various diseases, making accurate prediction of PTM sites essential for understanding cellular mechanisms and informing therapeutic strategies. This work focuses on the computational prediction of two biologically significant PTMs, namely succinylation and O-GlcNAcylation, utilizing recent advances in protein language models (pLMs). Drawing an analogy to natural languages, amino acids are treated as words and sequences as sentences, allowing pLMs to capture contextual dependencies within protein sequences. One of the earliest contributions of this …

Comprehensive Investigation Of The Torsional Behavior Of Triply Periodic Minimal Surface (Tpms) Inspired Structures, Mikhail Skibar

Theses

This work is concentrated on research of torsion properties of TPMS structures, numerically and experimentally. Currently, there are not many works that concentrate on studying torsion properties of TPMS structures. Most of them are concentrated on structures for biomedical applications and structures, printed of Ti6Al4V titanium alloy. In other areas, such as aerospace, automotive, etc. TPMS structures may also find applications. In this work, shear modulus, shear strength and resilience are tested, depending of the following conditions: cell geometries Diamond, Gyroid and Primitive, with relative densities of 30%, 50% and 70%, and unit cell sizes of 10 mm, 15 mm …

Online And Offline Multi-Variate Time Series Forecasting With Neuroevolution Based Neural Architecture Search, Zimeng Lyu

Theses

Time series forecasting plays a crucial role in various fields, ranging from financial markets and predictive maintenance in industrial settings to healthcare analytics. Traditionally, statistical approaches were employed primarily for univariate forecasting tasks, but modern applications often require robust solutions capable of handling complex, multivariate, noisy, and non-stationary data. Current state-of-the-art solutions predominantly utilize transformer-based models, which demand significant computational resources, limiting their practicality, especially in resource-constrained environments. This dissertation introduces novel and efficient approaches to multivariate time series forecasting, leveraging NeuroEvolution-based Neural Architecture Search (NAS) methodologies. Specifically, two robust algorithms---Evolutionary eXploration of Augmenting Memory Models (EXAMM) for offline forecasting …

Sex-Based Differences In The Representation Of Top Youth Athletes, Jessica J. James, Sandra K. Hunter, Elizabeth P. Bueckers, Michael J. Joyner, Jonathon W. Senefeld

Exercise Science Faculty Research and Publications

Although emerging research demonstrates that male athletes outperform female athletes before puberty, the effect of these sex-related advantages on ordinal ranking of top performances remains unclear.

Objectives

Among overall top performances of youth track and swimming athletes, we aimed to determine 1) the proportional number of male compared with female athletes represented and 2) at what age females are no longer represented.

Methods

Finishing times and sex of the top 10 and top 100 performances of youth runners and swimmers between 5 and 18 yr were abstracted from online U.S.-based databases for four running (100 m–800 m) and six freestyle …

New Resource! Access Anesthesiology, Joanne Romano

TMC Library Newsletter (2015-)

No abstract provided.

New Resource! Mcgraw Hill Access Dermatology Dxrx, Joanne Romano

TMC Library Newsletter (2015-)

No abstract provided.

Cinahl Has A New Look, Joanne Romano

TMC Library Newsletter (2015-)

The new CINAHL Platform is now available!

The CINAHL database is now on a new platform! The next time you log in, you’ll see a redesigned interface that improves navigation and search features.

Need help searching? Reach out to a librarian at askus.library.tmc.edu, we're happy to assist!

Renal G Protein-Coupled Estrogen Receptor 1 Regulates The Epithelial Sodium Channel Promoting Natriuresis To A Greater Extent In Females, Victoria L Nasci, Jean C Bopassa, Elena Mironova, Megan Rhoads, Ravneet Singh, Dennis P Buehler, David M Pollock, Oleh M Pochynyuk, James D Stockand, Eman Y Gohar

Faculty, Staff and Student Publications

Hypertension prevalence is lower in women than men. Enhanced renal sodium (Na+) handling in females has been implicated in sex-differences in hypertension. Epithelial Na+ channel (ENaC) is a key contributor to Na+ homeostasis and is regulated by estrogen. Recent evidence suggests G protein-coupled estrogen receptor 1 (GPER1) evokes a female-specific natriuresis that involves endothelin-1 (ET-1). ET-1 has been shown to downregulate ENaC activity, but whether GPER1 regulates ENaC to modulate natriuresis is unknown. We tested the hypothesis that renal GPER1 functionally interacts with ENaC to promote natriuresis in a sex-specific manner. RNAscope confirmed co-expression of GPER1 and ENaC in rat …

Ovarian Cancer Risk And Survival According To Tumor Sex Hormone Receptor Expression: An Ovarian Cancer Association Consortium And Ovarian Tumor Tissue Analysis Consortium Pooled Analysis, Zhuxuan Fu, Lauren Borho, Sarah E Taylor, Linda E Kelemen, Anna Defazio, Penelope M Webb, Martin Köbel, Nicola S Meagher, Renhua Na, Antonis C Antoniou, Alison H Brand, Catherine J Kennedy, Nikilyn Nevins, Paul D P Pharoah, Yurii B Shvetsov, Stacey J Winham, Jennifer Alsop, Matthias W Beckmann, Adelyn Bolithon, Jessica Boros, David D L Bowtell, James D Brenton, Michael E Carney, Anita Chudecka-Głaz, Linda S Cook, Cezary Cybulski, Peter A Fasching, Sian Fereday, Renée T Fortner, María J García, Ellen L Goode, Marc T Goodman, Jacek Gronwald, Arndt Hartmann, Brenda Y Hernandez, Estrid Høgdall, David G Huntsman, Allan Jensen, Mercedes Jimenez-Linan, Janine M Joseph, Beth Y Karlan, Ewa Kaznowska, Susanne K Kjaer, Tomasz Kluz, Jennifer M Koziak, Jenny Lester, Teri A Longacre, Maria Lycke, Valerie Mcguire, Kirsten B Moysich, Rachel A Murphy, Sandra Orsulic, Susan J Ramus, Cristina Rodríguez-Antona, Joseph H Rothstein, Spinder Samra, Weiva Sieh, Helen Steed, Karin Sundfeldt, Aline Talhouk, Jan Uciński, Chen Wang, Nicolas Wentzensen, Alice S Whittemore, Lynne R Wilkens, Thomas Songer, Maria Mori Brooks, Lu Tang, Francesmary Modugno

Faculty, Staff and Student Publications

Objective: Many epithelial ovarian cancer (EOC) risk factors relate to sex hormones. The association between these factors and the expression of androgen receptor (AR), estrogen receptor-α (ER), and progesterone receptor (PR) in tumors is unknown.

Method: We linked epidemiologic, AR/ER/PR tumor expression, and survival data from 19 studies in the Ovarian Cancer Association Consortium (OCAC; 4762 cases, 20,888 controls) and the Ovarian Tumor Tissue Analysis (OTTA) consortium (5737 cases). We estimated odds ratios (ORs) and 95 % confidence intervals (CIs) between hormonally-linked factors and tumor AR/ER/PR expression using polytomous logistic regression. We assessed survival by AR/ER/PR tumor expression overall and …

Book Review: The War For Ukraine: Strategy And Adaptation Under Fire, Jonathan P. Klug

Parameters Bookshelf – Online Book Reviews

Author: Mick Ryan

Reviewed by Dr. Jonathan P. Klug (colonel, US Army, retired), course integrator, Theater Army Staff Course, Center for Strategic Leadership, US Army War College

Mick Ryan’s book The War for Ukraine: Strategy and Adaptation Under Fire examines Russia’s and Ukraine’s strategies and, and Ukraine’s NATO supporters, “exploring how the Russians and Ukrainians adapted during the war—on the battlefield and institutionally.” The book has two parts. Part one explores strategy. Part two discusses adaptation in the Russia-Ukraine War and includes points about adaptation for future wars. The reviewer sees it as a must-read saying, “The War for Ukraine …

Data Annotations, Bradley M. Ratliff

Model Desert Terrain Monochromatic DoT Dataset

Pixel-wise object masks for each polarimetric scene in ASL file format for the Model Desert Terrain Monochromatic DoT data.

Polarimetric Data: Scenario 06, Bradley M. Ratliff

Model Desert Terrain Monochromatic DoT Dataset

Polarimetric data Scenario 06 collected within the Automated Remote Sensing Solar Simulation Lab at the University of Dayton. The data were collected using a visible monochromatic division-of-time imaging polarimeter. The dataset is parameterized across different sensor, scene, and illumination geometries that mimic outdoor solar irradiance conditions.

Polarimetric Data: Moderate Scenarios 05 - 08, Bradley M. Ratliff

Model Parking Lot RGB DoFP Dataset

Polarimetric data moderate configuation Scenarios M05 through M08 collected within the Automated Remote Sensing Solar Simulation Lab at the University of Dayton. The data were collected using a visible RGB division-of-focal-plane imaging polarimeter. The dataset is parameterized across different sensor, scene, and illumination geometries that mimic outdoor solar irradiance conditions.

Polarimetric Data: Scenario 05, Bradley M. Ratliff

Model Desert Terrain Monochromatic DoT Dataset

Polarimetric data Scenario 05 collected within the Automated Remote Sensing Solar Simulation Lab at the University of Dayton. The data were collected using a visible monochromatic division-of-time imaging polarimeter. The dataset is parameterized across different sensor, scene, and illumination geometries that mimic outdoor solar irradiance conditions.

Polarimetric Data: Scenario 03, Bradley M. Ratliff

Model Desert Terrain Monochromatic DoT Dataset

Polarimetric data Scenario 03 collected within the Automated Remote Sensing Solar Simulation Lab at the University of Dayton. The data were collected using a visible monochromatic division-of-time imaging polarimeter. The dataset is parameterized across different sensor, scene, and illumination geometries that mimic outdoor solar irradiance conditions.

Exploitable Mechanisms Of Antibody And Car Mediated Macrophage Cytotoxicity, Tianyi Liu, Alexander B Kim, Young Ah Goo, Minsoo Son, Jaenyeon Kim, Carl J Deselm, Et Al.

2020-Current year OA Pubs

Macrophages infiltrate solid tumors and either support survival or induce cancer cell death through phagocytosis or cytotoxicity. To uncover regulators of macrophage cytotoxicity towards cancer cells, we perform two co-culture CRISPR screens using CAR-macrophages targeting different tumor associated antigens. Both identify ATG9A as an important regulator of this cytotoxic activity. In vitro and in vivo, ATG9A depletion in cancer cells sensitizes them to macrophage-mediated killing. Proteomic and lipidomic analyses reveal that ATG9A deficiency impairs the cancer cell response to macrophage-induced plasma membrane damage through defective lysosomal exocytosis, reduced ceramide production, and disrupted caveolar endocytosis. Depleting non-cytotoxic macrophages using CSF1R inhibition …

Guardrails For Discretionary Powers: A Case Comment On The State Of Tamil Nadu V The Governor Of Tamil Nadu And Another, Pranav Verma

National Law School Journal

This Case Comment argues that by prescribing timelines for the president and the governors to grant or withhold assent to bills in The State of Tamil Nadu v the Governor of Tamil Nadu, decided in April 2025, the Supreme Court did not exceed its constitutional role, as argued by some critics. Instead, it applied established administrative law principles—relevant considerations, natural justice, and absence of mala fides—to the specific power of granting or withholding assent to bills. These principles have been long used to guide the other powers of the president, the governors, and the speaker/chairman. The court thereby reinforced …

Religious Beliefs, Cooperation, And Evolutionary Mechanisms, Nicole Fellice Ko, Norman P. Li

Research Collection School of Social Sciences

Religion is an organized system of spiritual beliefs, practices, and rituals that often involve a sense of the divine (Schilbrack, 2022). An evolutionary mechanism is an evolved set of traits that interpret environmental inputs and generate behavioral responses that enhance survival or reproductive success (Li et al., 2018). Cooperation refers to the act of individuals or groups working together to achieve a shared goal or mutual benefit (Alós-Ferrer & Garagnani, 2020).

Singapore At 60: Home Truly Is An Idea That Never Stands Still, Lily Kong

Research Collection School of Social Sciences

There are many new stories to embrace but also quiet distances between us that we must bridge.

In a National Day op-ed published in The Straits Times, SMU President Professor Lily Kong reflects on what ‘home’ means as Singapore marks its 60th year of independence — and how that meaning continues to evolve across generations. Prompted by a walk through a familiar playground now transformed, Prof Kong considers how Singapore’s changing physical and social landscape mirrors shifts in national identity. While progress and policy evolution signal a society in transition, she also notes the emergence of quieter divides – between …

Diaspora By Another Name: The Making Of Refugees In Cold War China, Jiaqi M. Liu, Clare Xiaoqian Wan

Research Collection School of Social Sciences

By examining China’s refugee policies from 1949 to 1982, this article demonstrates how the Chinese state redefined “return” and “refugee” to serve shifting political objectives. While China is often perceived as a source, rather than a host, of asylum seekers, it hosted over 320,000 displaced migrants—primarily ethnic Chinese from Southeast Asia—during the Cold War. Through a systematic discourse analysis of 382 People’s Daily articles, we identify four state narratives—diaspora, diplomatic tool, ideological sanctuary, and legal duty—that structured how China labeled displaced migrants, interpreted their sentiments, and determined their settlement. These models evolved dynamically: from the 1950s to the late 1970s, …

Not Staying Regular?, Joshua Thong

Research Collection School of Social Sciences

Consider the following claims: 1. Rational credences are real-valued. 2. A rational agent is more confident in than in just in case appropriate set-theoretic relations between the relevant events and/or appropriate inequalities between her numerical credences, whether conditional or not, hold. 3. If a rational agent’s conditional credence in, given, is greater than her conditional credence in, given, then she is more confident in than in. 4. There are two distinct and particular ways of ordering the events in a lottery over the naturals, for each of which there exists a rational agent whose comparative confidence ordering corresponds to that …

Calibrated Structures Of Feeling: Cultural Citizenship And The Reproduction Of The Military In Singapore, John Lowe, George Wong

Research Collection School of Social Sciences

This article discusses the nexus between Raymond Williams’ structure of feelings and the reproduction of military masculinity as cultural citizenship. By placing the gaze upon National Service in the Singapore Armed Forces as a rite of passage into manhood, this work uses representations of the military in popular culture and souvenirs/ephemera to elucidate how structures of feeling are calibrated as masculinity the state wants its citizenry to internalize. These render military masculinity emergent for Singaporean male bodies. With the male body functioning as an important edifice of the military, emotions toward military service are the connective tissue between enactments of …

Quantum Simulation Of Molecular Dynamics Processes─A Benchmark Study Using A Classical Simulator And Present-Day Quantum Hardware, Tamila Kuanysheva, Brian K. Kendrick, Lukasz Cincio, Dmitri Babikov

Chemistry Faculty Research and Publications

We explore how the fundamental problems in quantum molecular dynamics can be modeled using classical simulators (emulators) of quantum computers and the actual quantum hardware available to us today. The list of problems we tackle includes propagation of a free wave packet, vibration of a harmonic oscillator, and tunneling through a barrier. Each of these problems starts with the initial wave packet setup. Although Qiskit provides a general method for initializing wave functions, in most cases it generates deep quantum circuits. While these circuits perform well on noiseless simulators, they suffer from excessive noise on quantum hardware. To overcome this …

If We Don’T Lose Heart, John Peckham

Faculty Publications

No abstract provided.

Double Trouble: A Rare Cause Of Bilateral Upper Extremity Swelling, Lauren Abbas, Sheena Mckenzie

Advocate GME

No abstract provided.

Performance Enhancement In Rewound Industrial Retrofit Solutions For Five- And Six-Phase Permanent Magnet Assisted Synchronous Reluctance Machines, Kotb B. Tawfiq, Ayman M. El-Refaie, Peter Sergeant, Hatem Zeineldin, Ahmed Al-Durra, Ehab F. El-Sadaany

Electrical and Computer Engineering Faculty Research and Publications

This paper investigates upgrading aging three-phase Permanent Magnet Assisted Synchronous Reluctance Machines (PMaSynRMs) into multiphase configurations—specifically six- and five-phase windings—without modifying the existing stator or rotor laminations. This retrofit supports circular economic principles by extending machine life and reducing material waste and cost. Four configurations are examined: the original three-phase winding, asymmetrical six-phase winding, symmetrical six-phase winding, and five-phase winding. The feasibility of rewinding existing three-phase stators is explored for different slot/pole combinations. Balanced rewound five-phase windings are feasible only when the stator's slot/pole ratio is greater than or equal to 9. Both symmetrical and asymmetrical rewound six-phase windings are …

Advances In Noninvasive Imaging For Detecting Radiation-Induced Lung Injury (Rili), Austen Nissen, Said H. Audi, Anne V. Clough, Brian Fish, Amit Joshi, Meetha Medhora, Jason Walter Sidabras, Heather A. Himburg

Biomedical Engineering Faculty Research and Publications

Purpose: Dr. Richard Hill performed pioneering work in the field of radiation-induced normal tissue injury to the lung including noninvasive imaging studies aimed at identifying imaging biomarkers of radiation-induced lung injury (RILI). RILI is a life-threatening toxicity of radiation exposure relevant to both cancer patients undergoing thoracic radiation therapy (RT) and victims of accidental radiation exposure. The ability to detect RILI noninvasively has the potential to guide treatment planning for RT and, in the case of victims of acute radiation exposures, inform the decision to start mitigative therapies. As part of this special issue of IJRB honoring Dr. Hill’s many …

Electron Beam Irradiation Effects On Bulk Metals And High Entropy Alloys (Crmnv And Crmntiv) And The Synthesis And Characterization Of Irradiation-Induced Damage In Polycrystalline Metal And High Entropy Alloy Thin Films, Najmin Ara Sultana

Mechanical & Aerospace Engineering Theses & Dissertations

Accelerator beam exit windows are designed to withstand intense radiation and mechanical stress while preserving beam transmission and structural integrity. This dissertation explores the structural and mechanical responses of pure metals and high-entropy alloys (HEAs), in both bulk and thin-film forms, under high-dose electron beam (e-beam) irradiation to identify optimal materials for next-generation accelerator exit windows. Monte Carlo simulations using FLUKA, conducted at Jefferson Lab, revealed that amongst Ni, Ti, Cr, and V, Ni exhibits the highest power dissipation, while Ti depicts the lowest power dissipation, with Cr and V demonstrating intermediate characteristics. Bulk polycrystalline (PC) and single-crystalline (SC) samples …

Unraveling Nonperturbative Qcd With Transverse Momentum Hadronic Structures, Tommaso Rainaldi

Physics Theses & Dissertations

The main purpose of this thesis is to investigate the theoretical foundations of the factorization theorems that involve transverse quark and gluon momentum distributions, and to better understand the interface between foundational questions and phenomenological applications. Many of these applications involve using transverse parton momentum dependent (TMD) correlation functions as tools for probing the complex nonperturbative structures of the hadrons.

We first introduce the concepts of collinear and TMD factorization in a toy-model theory and, by leveraging the comparative simplicity of such a model, we test the range of validity and limitations of the factorization approach. At the same time, …

Designing A Portable And Accessible Diffuse Reflectance Spectroscopy System For Real-Time Detection Of Cervical Intraepithelial Neoplasia, Allison Scarbrough, Diana Moses, Tongtong Lu, Bing Yu

Biomedical Engineering Faculty Research and Publications

Significance: Over 80% of cervical cancer cases occur in lower-to-middle income countries (LMIC’s). This is partly because current screening techniques lack affordability, accessibility, and/or reliability for use in LMIC’s.

Aim: To develop an optical technique for cervical cancer screening that is affordable, accessible, and reliable for use in LMIC’s.

Approach: We developed a portable diffuse reflectance spectroscopy (DRS) system, which costs < $2500 USD to manufacture, and employs a Raspberry Pi to extract the absorption (μ_a) and reduced scattering (μ'_s) coefficients of biological tissue. The system was subject to travel and intentional rough handling. It was further used to capture 320 DRS spectra taken from 64 tissue-mimicking phantoms. Two …