Digital Commons Network^™

Cancer Workforce-A Global Crisis: A Lancet Oncology Commission, Hedvig Hricak, Zachary Ward, Fabio Moraes, Andrew Scott, Farouk Dako, Wilfred Ngwa, Cynthia Villarreal-Garza, May Abdel-Wahab, Stephen Avery, Miriam Mutebi

General Surgery, East Africa

No abstract provided.

Detecting Cognitive Impairment Early In Hispanic And Black Older Adults: Community Voices From South Central Texas, Robin C. Hilsabeck, Stephanie Santiago-Mejias, Tara L. Fletcher, Shanae L. Rhodes, Gladys Maestre, Sudha Seshadri, Neela K. Patel, Fayron R. Epps

School of Medicine Publications

Background: Alzheimer disease and related dementias (ADRD) are more prevalent in Black and Hispanic older adults and are also more likely to be undetected and misdiagnosed. The purpose of this study was to engage with Black and Hispanic communities about interest in and support needed for memory screening.

Methods: Participants were recruited from established community partners of the South Texas Alzheimer's Disease Research Center to engagein a 90-minute listening session. The session was recorded with participants' permission, and a thematic analysis was conducted by 2 independent coders.

Results: Sixteen individuals (81% female, 88% Hispanic or Black) from various perspectives participated …

Research Matters: Problem-Setting: A Research Reflection Process, Merinda Kaye Hensley

Communications in Information Literacy

In this inaugural “Research Matters” column, Merinda Kaye Hensley introduces problem-setting as an intentional research reflection process inspired by instructional design. This three-pronged approach invites librarians to examine their research agendas by surfacing prior knowledge, identifying bottlenecks, and creating an assumptions inventory. By interrogating what we think we know and where we struggle in doing research related to information literacy, problem-setting reframes our research processes as a generative, inquiry-driven practice. Drawing on an example from her own research agenda, investigating undergraduate researchers’ understandings of the publication process, Hensley demonstrates how reflective problem-setting can unstick thinking, sharpen questions and energize scholarly …

Dot Product Engine Based Neuromorphic Hardware For Continuous-Time Biomedical Signal Classification, Sanjeev Srinivasan

Master's Theses

Accurate diagnosis of pathological conditions from biomedical signals, such as electrocardiograms (ECGs) is often performed offline, making it time-consuming, costly, and inefficient, especially when abnormal patterns are rare and long-term monitoring generates large amounts of data. To address this, this work proposes a compact, scalable, and programmable neuromorphic system designed for real-time preliminary arrhythmia detection and classification using ECG signals, that can be extended to other biomedical signals. The proposed design processes ECG signals using a delta modulation-based spike encoder, followed by classification with a dot-product engine (DPE) based spiking neural network (SNN) processor and winner-take-all (WTA) circuit. The architecture …

Crab: A Novel Clustering Score Using Clustering With Rivals And Buddies For Unsupervised Learning, Allen Choi

Master's Theses

Unsupervised clustering algorithms today are used across a wide variety of fields such as biology, engineering, and industry in order to classify observations into groups where labels are not provided. This can provide important latent information regarding the observations within groups, as well as insight regarding the groups themselves. In order to judge the optimal number of clusters for an unsupervised clustering algorithm, many methods exist such as the Elbow Method and Silhouette Score; however, these methods come with drawbacks and are not necessarily flexible across many unsupervised methods. We present a novel clustering score framework relying on a resampling-based …

Effects Of Hot Water Dipping And Sub-Zero Saline Chilling On The Microbial Safety Of Broiler Carcasses And Recycled Chilling Water, Elen Zhu

Master's Theses

Broiler meat became the most widely consumed meat within the United States and across the world in 2019. The trend of increasing broiler consumption is expected to continue due to affordability, health benefits, and production efficiency. To meet the growing demand of broilers, a substantial number of birds need to be produced and processed while minimizing bacteria contamination, water consumption and wastewater generation.

In this study, the microbial safety (mesophilic aerobic bacteria, coliforms, and Escherichia coli) of broiler carcasses and post-chill water (red water) was assessed, using innovative processing techniques and red water recycling. A total of 144 broilers …

Independent And Combined Effects Of Early-Life Iron Deficiency And Antibiotic Exposure On Growth And Hematological Outcomes In A Piglet Model, Ginger M. Fitzpatrick

Master's Theses

Iron deficiency (ID) affects over 2 billion individuals globally. Children under 5 are at increased risk of ID due to rapid growth and are especially vulnerable to its negative consequences because of iron’s essential role in cognitive development and immune maturation. ID is the leading cause of iron deficiency anemia (IDA), with IDA affecting approximately 40% of children in this age group. Antibiotic (abx) exposure is also prevalent during early life and may disrupt growth and through gut dysbiosis, with increasing use posing additional risk in younger populations. Geographically, there is overlap in regions with high anemia prevalence and those …

Large Scale Kmer-Based Proteomic Analysis: An Application Towards Evolutionary Constraint Discovery, Matthew Chak

Master's Theses

Large protein databases now make it possible to study short peptides across natural protein sequence space at unprecedented scale, but exhaustively counting k-mers across billions of protein sequences remains computationally difficult. This thesis develops an exact amino-acid k-mer counting method based on direct addressing, in which fixed-length amino-acid strings are encoded as base-20 integers and updated with a sliding-window recurrence. By avoiding key storage and collision resolution, this approach removes overhead inherent to hash-map-based methods when the k-mer space is sufficiently dense. A memory analysis shows when direct addressing is preferable to open-addressing hash tables, and expected-saturation calculations motivate its …

Structured Dynamic Factor Analysis Of Environmental Time Series With Application To Morro Bay Estuary, Jose Garcia

Master's Theses

This thesis develops a structured dynamic factor analysis (sDFA) framework for decomposing multivariate environmental time series into latent biological and physical components. The methodology is applied to five years of high-resolution passive monitoring data collected from two sites in Morro Bay, California from 2020 through 2024. Relative contribution indices are developed based on the structured DFA that measure how much each latent process contributes to each observed variable at any given time. Structured DFA models fit to the application data suggest site-specific patterns in how biological and physical processes affect water quality variables. At the bay mouth location, physical processes …

Benchmarking Gaslighting Negation Attacks Against Multimodal Large Language Models, Bin Zhu, Yinxuan Gui, Huiyan Qi, Jingjing Chen, Chong-Wah Ngo, Ee-Peng Lim

Research Collection School Of Computing and Information Systems

Multimodal Large Language Models (MLLMs) have exhibited remarkable advancements in integrating different modalities, excelling in complex understanding and generation tasks. Despite their success, MLLMs remain vulnerable to conversational adversarial inputs. In this paper, we systematically study gaslighting negation attacks—a phenomenon where models, despite initially providing correct answers, are persuaded by user-provided negations to reverse their outputs, often fabricating justifications. We conduct extensive evaluations of state-of-the-art MLLMs across diverse benchmarks and observe substantial performance drops when negation is introduced. Notably, we introduce the first benchmark GaslightingBench, specifically designed to evaluate the vulnerability of MLLMs to negation arguments. GaslightingBench consists of multiple-choice …

Marketing As Practice: Resolving The Hunt-Anderson Stalemate Through Practice Theory, Stephen A. Lemay, Martin Svendsen

Journal of Applied Marketing Theory

This paper revisits methodological debates in marketing theory, tracing the progression from Sidney Levy’s work on symbolic consumption to the Hunt–Anderson empiricist–relativist debate. We argue that this debate rests on a category error: marketing has been misclassified as either a science or an interpretive discipline. Drawing on contemporary practice theory, we reconceptualize marketing as a professional practice oriented toward creating and managing exchange relationships within cultural contexts. This perspective resolves the Hunt–Anderson stalemate, clarifies the epistemological foundations of Consumer Culture Theory (CCT) and Transformative Consumer Research (TCR), and generates distinct research questions and methods. Through comparative exemplars, we show how …

The Emerging Roles Of Ai In Self-Directed Stress Management: Systematic Review, Mary Kamillah Grace Reyes, Shauna Sha Min Teo, Andree Hartanto

Research Collection School of Social Sciences

Background: Stress is widespread and carries substantial mental health, social, and economic burdens. Yet, access to clinician-led stress management remains constrained by service capacity, cost, and stigma. In response, artificial intelligence (AI)–enabled tools have rapidly proliferated as scalable, self-directed options. However, evidence on how these systems support stress management outside formal clinical settings remains fragmented. Objective: This systematic review aimed to synthesize empirical evidence on how AI-enabled technologies are used for self-directed stress management. We mapped the emerging functions of these tools, the psychological frameworks informing their design, the populations and settings studied, and the outcomes reported. Methods: We conducted …

Engineering Immunity? Biotechnical Governance And The Experimental Failures Of Project Wolbachia In Singapore, Siew Ying Shee, Orlando Woods, Sayd Randle

Research Collection School of Social Sciences

This paper introduces the idea of ‘experimental failure’ to critically interrogate the limits of engineering biological systems for urban governance. Whilst experimentation through projects related to smart cities and eco-cities has garnered significant attention, biotechnical experiments––which manipulate living organisms through technology––remain underexplored. Unlike interventions leveraging non-living, inanimate systems, engineering life must contend with ecological ‘unruliness’ and social uncertainties. These complexities often resist straightforward quantification and exceed conventional evaluation frameworks, demanding a rethinking of what constitutes ‘success’ and ‘failure’ in such interventions. Drawing on ethnographic research with public health officers, pest management professionals and residents in Singapore, we analyse the government-led …

Invasion Patterns And Niche Dynamics Of The Pollinivorous Florida Calligrapher, Toxomerus Floralis (Diptera: Syrphidae) In The Afrotropical Region, Burgert Muller, John Midgley, Georg Goergen, Ali Al Jahdhami, Michelson Azo'o Ela, Terence Bellingan, Simon Cavaillès, Robert Copeland, Marc De Meyer, Martin Hauser, Allen Holmes, Ximo Mengual, Gabriel Nève, Menno Reemer, Jeff Skevington, Gunilla Ståhls, Eugène Sinzinkayo, John Smit, Axel Ssymank, Genevieve Theron, Kurt Jordaens

All Peer-Reviewed Publications

The rapid spread of Toxomerus floralis (Fabricius, 1798) (Diptera: Syrphidae) within the Afrotropical region is described. We characterise and compare the climatic niches of T. floralis in its native (Southern North America, Central America and South America) and invaded (Afrotropical Region) range to assess the potential for further expansion across Africa and beyond, and included future global climate models and socioeconomic pathways as projections. Occurrence data for native and invaded ranges were obtained from field sampling by authors, major collections of Afrotropical Syrphidae, collections records and occurrence data from the Global Biodiversity Information Facility (GBIF), including iNaturalist data. Single and …

Gc-Ms-Based Comparative Analysis Of Compounds In Host Plants And Insect Gut Extracts, Rita Dill, Kimberly Smith, Shelia Okoth, Xavier Cheseto, Anne Osano

All Peer-Reviewed Publications

Background/Objectives: Herbivorous insects feed on plant tissues to obtain nutrients necessary for growth and development while simultaneously ingesting diverse plant secondary metabolites. Understanding the fate of these compounds during digestion is important for advancing knowledge of insect nutritional physiology and diet-associated biochemical processes. This study aimed to comparatively profile metabolites in host plants and corresponding insect gut extracts to generate insights into compound transfer and compositional changes within these systems. Methods: Gas Chromatography-Mass Spectrometry (GC-MS) metabolomics was combined with Ultraviolet-Visible (UV–Vis) quantification of total phenols and flavonoids to compare host plant tissues and insect gut extracts in three systems: fall …

Climate-Driven Stochastic Modelling Of Crimean-Congo Haemorrhagic Fever Transmission In Uganda, P. G. Kpatchana, J. Aduda, K. M. Agboka

All Peer-Reviewed Publications

Crimean-Congo haemorrhagic fever (CCHF) is a climate-sensitive tick-borne zoonosis that remains a significant public health concern in Uganda, where temperature and vapour pressure deficit influence tick ecology and consequently disease transmission. This study aimed to develop and analyse a climate-driven stochastic model for CCHF transmission among ticks, livestock, and humans under environmental variability in Uganda. A compartmental transmission model was formulated and extended into a stochastic differential equation framework by incorporating multiplicative environmental noise. Climate-dependent tick recruitment, development, and mortality were parameterized using district-level temperature and vapour pressure deficit data to capture spatial heterogeneity in transmission risk. Theoretical analyses based …

The Color Of Combat: How Subtleties Of Resource Value Alter The Effects Of Fighting Ability In Hermit Crab Contests: How Subtleties Of Resource Value Alter The Effects Of Fighting Ability In Hermit Crab Contests, Thomas M. Chatfield, Mark Briffa

School of Biological and Marine Sciences

During contests over resources, the intensity of fighting and the outcome is often influenced by an interaction between the difference between opponents in the fighting abilities (resource holding potential [RHP]) and the difference in how they subjectively value the resource. Additionally, because fighting can involve vigorous activity, engaging in a fight can make the opponents more noticeable to predators. Thus, predation risk, alongside resource value (RV), may interact with the effects of RHP difference. During hermit crab contests over the ownership of empty gastropod shells attackers perform vigorous shell rapping, whereas defenders adopt a protective posture inside their shells. This …

Human Stem Cell-Based Embryo Models: Innovation, Ethics, And Policy, Alfonso Martinez Arias, Thorold Theunissen, Et Al.

2020-Current year OA Pubs

The aim of this White Paper is to establish a foundational framework for research, technological development, and regulation in the emerging field of stem cell-based embryo models (SCBEMs). These models, generated from Pluripotent Stem Cells, are designed to recapitulate essential events in early stages of human development. They have the potential to illuminate the early stages of embryo development and implantation and hold promise as an avenue to address global health challenges, including infertility and pregnancy loss, congenital, neonatal and adult conditions, and the need for organ transplants. While SCBEMs are not a substitute for human embryos, their tractability for …

A Trans-Omics Gene-Smoking Interaction Study Of Lung Cancer Based On Consortium Data, Ning Xie, Xiaowen Xu, Yanru Wang, Aoxuan Wang, Xiang Wang, Xuan Wang, Mengsheng Zhao, Jiacheng Zhou, Yongyue Wei, Manel Esteller, Zhibin Hu, Hongbing Shen, Rayjean J Hung, Christopher I Amos, Yi Li, David C Christiani, Feng Chen, Yang Zhao, Ruyang Zhang

Faculty, Staff and Students Publications

Rationale: Genetically predicted molecular traits provide a cost-effective approach for identifying biomarkers and uncovering underlying biological mechanisms. We extended this framework to investigate gene-smoking interactions in lung cancer susceptibility.

Objectives: To identify trans-omics gene-smoking interactions affecting lung cancer risk and to assess how biomarkers modify effect of smoking.

Methods: We conducted the first trans-omics gene-smoking interaction study of lung cancer by integrating consortium-scale individual genotype data (27 737 cases vs 449 910 noncases) from the International Lung Cancer OncoArray Consortium (ILCCO-OncoArray), Transdisciplinary Research Into Cancer of the Lung (TRICL), Prostate, Lung, Colorectal, and Ovarian Cancer Screening Trial (PLCO), and the …

Malaria In Children At 9 Us Hospitals: 2016-2023, Sesh Alexander Sundararaman, Brianne Roper, Amy K F Davis, Karen L Hanze Villavicencio, Jonathan A Mayhew, Michelle L Wang, Nina L Tang, Vijaya L Soma, Ziyi Wang, Margaret E Feeney, Indi Trehan, Jill E Weatherhead, Chandy C John, Jeffrey S Gerber, Audrey R Odom John

Faculty, Staff and Students Publications

Objectives: This study set out to describe imported pediatric malaria in the United States over an 8-year period, including patient demographics, clinical outcomes, and risk factors for severe disease.

Methods: A retrospective descriptive study of pediatric patients treated for malaria at 9 hospitals in the United States from 2016 to 2023 was conducted to analyze patient demographics, clinical outcomes, and risk factors for severe malaria.

Results: A total of 171 children were treated across the 9 US hospitals included in this study from 2016 to 2023. Most patients had traveled to West Africa to visit friends and relatives. Fever was …

Wayfindr: Investigating Feedback In Biological Pathways, Polina Bombina, Reginald L Mcgee Ii, Jake Reed, Zachary B Abrams, Lynne V Abruzzo, Kevin R Coombes

2020-Current year OA Pubs

Understanding biological pathways requires more than static diagrams. We present WayFindR, an R package that converts pathway data from WikiPathways and KEGG into graph structures using igraph, enabling computational analysis of regulatory features such as negative feedback loops. Rooted in control theory, negative feedback is essential for system stability, yet it is often underrepresented in curated pathway data. In this study, we systematically analyzed pathway information from both databases across multiple species and found that feedback loops-particularly negative ones-are rarely captured. This gap likely reflects both biological and technical challenges. Biologically, feedback mechanisms are inherently complex and often remain uncharted …

Biomedgraphica: An All-In-One Platform For Joint Textual Biomedical Prior Knowledge And Numeric Graph Generation, Heming Zhang, Shunning Liang, Tim Xu, Wenyu Li, Di Huang, Yuhan Dong, Philip Miller, Peter Goedegebuure, Marco Sardiello, Jonathan Cooper, William Buchser, Patricia Dickson, Ryan C Fields, Carlos Cruchaga, Yixin Chen, Michael Province, Philip Payne, Fuhai Li, Et Al.

2020-Current year OA Pubs

MOTIVATION: Multiomics data analysis is essential for scientific discovery in precision medicine. However, translating analysis results of omics data analysis into novel scientific hypotheses remains a significant challenge. Human experts must manually review analysis results and generate new hypotheses based on extensive and interconnected biomedical prior knowledge, which is subjective and not scalable. While large language models can accelerate the discovery, their reasoning improves when grounded in structured, auditable, and comprehensive biomedical prior knowledge. However, biomedical knowledge is scattered across heterogeneous databases that use diverse and inconsistent nomenclature systems, making it difficult to integrate resources into a unified format for …

Role Of Households With Children In Community Spread Of Multidrug-Resistant Enterobacterales, St. Louis, Missouri, Usa, Barrett Breeze, Ahmed Babiker, Sreenivas Konda, Alaina L Robinson, Stefan J Green, Catherine C Babbs, Federico Cunha, Katherine Y Shen, India Shepherd Hammond, Stephanie A Fritz, Latania K Logan

2020-Current year OA Pubs

Community-acquired multidrug-resistant (MDR) Enterobacterales bacteria are an increasing public health concern, yet whether households play a role in community spread remains unclear. We investigated 150 households with children in St. Louis, Missouri, USA, for MDR Enterobacterales. We cultured swab specimens from household members and environmental surfaces for identification and antimicrobial susceptibility testing. We also performed whole-genome sequencing in the 53 (35%) households where >1 MDR Enterobacterales species were recovered. Enterobacter hormaechei predominated, followed by Klebsiella pneumoniae and Pantoea species. Whole-genome sequencing revealed closely related strains shared between persons and environmental surfaces, suggesting potential intra-household transmission. We identified >1 horizontal gene …

Viscoelastic And Morphologic Changes In The Lumbar Intervertebral Discs Of The 5xfad Mouse Model Of Alzheimer's Disease, C E Gonzalez, C A Schurman, K A Wilson, B Schilling, L M Ellerby, S Y Tang

2020-Current year OA Pubs

BACKGROUND: Chronic low back pain, commonly associated with intervertebral disc (IVD) degeneration, is highly prevalent in patients with Alzheimer's disease (AD), and the severity of the pain is correlated with the severity of the dementia. While incidences of both afflictions increase dramatically in the elderly population, it is unknown whether AD exacerbates the health of the IVD.

AIMS: The aim of this study is to examine how AD-related mutations affect the structure and mechanics of the IVD.

MATERIALS AND METHODS: Utilizing one-year-old male and female 5xFAD mice that constitutively express human APP and PSEN1 transgenes with five AD-linked mutations, we …

Synergistic Effects Of Diabetic Neuropathy And Kidney Function Decline On Second Metatarsal Skeletal Health And Foot Function: A Pilot Study, Victor A Cheuy, Saghi Sadoughi, Hasung Moon, Jalen Ellis, Rodney Gross, David R Sinacore, Mary K Hastings, Richard B Souza, Galateia J Kazakia

2020-Current year OA Pubs

A discouraging increase in diabetes-related nontraumatic lower-extremity amputations (NLEA) has occurred over the last decade. Individuals with diabetic neuropathy (DMPN) and CKD are at the highest risk for NLEA. Despite the critical implications, little is known about the factors that initiate the cascade of events leading to NLEA, limiting early and effective interventions. We aimed to develop and implement a technique for quantifying metatarsal bone density and microstructure using HR-pQCT. Twelve participants were enrolled:

Expanding The Omop Common Data Model To Support Extracorporeal Life Support Research, Clemens Rieder, Ahmed Said, Et Al.

2020-Current year OA Pubs

OBJECTIVE: Despite the increased availability of electronic health records, open-source standardized data collection to facilitate high-resolution data during extracorporeal life support (ECLS) is lacking. This project aimed to assess the Observational Medical Outcomes Partnership Common Data Model (OMOP CDM) for interoperability to store data sufficiently generated in the context of ECLS and to develop a custom data model expansion in case the OMOP CDM proved insufficient.

DESIGN AND SETTING: The OMOP CDM was analyzed qualitatively by expert consensus for its capability to capture data relative to ECLS as well as the presence of fitting ECLS-related concepts. Database entries necessary to …

Neuroenvironmental Footprint: Integrating Air Quality Into Neuroarchitectural Research In Educational Spaces, María Beltrán Rodríguez, Ivette Caldelas

Congresos y Conferencias

Environmental quality is widely recognised as one of the most decisive factors in public health. Its relevance is particularly critical in the case of children, as it directly affects both their physical and cognitive development. Indeed, different researches showed how the exposure to inadequate environmental conditions during early life stages may compromise health outcomes, learning capacity, and overall well-being. Consequently, improving environmental quality in educational settings is not only a matter of comfort, but an essential public health priority. In this context, the International Symposium of Environmental Quality in Educational Spaces (inSiEqES) emerges as a necessary initiative to foster dialogue, …

Microbiota Dynamics And Bacterial Pathogen Survival During Milk Kefir Fermentation And Storage, Léon Maughan, Leonard Koolman, Guerrino Macori, Christina Killian, Seamus Fanning, Paul Whyte, Declan Bolton

Research Outputs: 2025-Present

This study identified and investigated the relative abundance of bacterial and fungal (predominantly yeast) species in the milk kefir grains, during a typical fermentation (25◦C for 48 h) and subsequent chilled storage (4◦Cfor up to 30d) using Nanopore sequencing (16S and ITS amplicon). Challenge studies were also undertaken toexamine the behaviour of Listeria monocytogenes, Salmonella Senftenberg, Escherichia coli O157:H7, Staphylococcusaureus as well as non-toxigenic mesophilic and psychrophilic Clostridium spp. (Clostridium sporogenes and Clos-tridium gasigenes, respectively). Lactobacillus and Lactococcus were the predominant bacterial genera with relativeabundance of 91% and 2% in milk kefir grains, 32% and 63.7% after 24 h of …

Owning Geothermal Energy, Gabriel Eckstein

Faculty Scholarship

Geothermal energy holds vast potential for decarbonizing the U.S. energy system, yet the sector remains significantly underdeveloped, supplying only 0.4% of the nation's electricity. A principal barrier to growth is the fragmented and ambiguous legal landscape currently governing ownership of geothermal resources: thirty-three states lack any clear statutory or common-law framework identifying who owns subsurface thermal energy. This Article examines the physical characteristics of geothermal energy, recent developments in the U.S. geothermal sector, and the principal doctrinal approaches that might govern ownership of subsurface heat, including the ad coelum doctrine, common-pool and open-access frameworks, the rule of capture, and public …

Gci Diagnostics & Bioprocess Acceleration Architecture (Open‑Hardware, Conceptual Only), Michael Victor Caldwell Mr.

Defensive Publications Series

This disclosure describes an open‑hardware, physics‑based architecture for accelerating diagnostic workflows and bioprocess engineering using vortex‑acoustofluidic modules. The system integrates vortex‑induced lysis, acoustic particle isolation, micro‑lattice thermal control, and continuous‑flow kinetic refinement to reduce the time required for molecular analysis and biomolecule purification. No biological agents, reagents, or clinical claims are included. All components are conceptual and released under CERN‑OHL‑P to support global research, prototyping, and humanitarian engineering.