Reformulation Of The Protein Databank For Real-Time Search Of Geometrical Attributes Of Protein Structures, Musa Azeem, Christopher Lee, Aaron Hein, Christopher Ott, Homayoun Valafar

Faculty Publications

Introduction:

In this study, we introduce the design and implementation of PDBMine, a large-scale, queryable platform for mining sequence-structure statistics from the Protein Data Bank (PDB). PDBMine enables rapid analysis of local conformational trends across proteins by extracting dihedral angles and sequence patterns at scale. In addition to the design and implementation of PDBMine, we also present results validating its ability to return structurally meaningful information.

Methods:

We first assess the accuracy of its dihedral angle distributions by comparing them to established Ramachandran space and verifying expected behaviors of residues such as glycine and proline. We then use PDBMine to …

Data Visualization In Private Sector University Libraries In Sindh, Pakistan, Sadaf Shahid, Rafat Parveen Siddiqui

Libraries

Purpose – The purpose of this study was to know the understanding of librarians about data visualization, the perceptions of the librarians toward this new and emerging trend and know the librarian’s capabilities in the use of data visualization tools and its impact on their library services.
Design/methodology/approach – To acquire the desired results, a survey was conducted using a quantitative approach. The study’s target audience was the library professional staff at private sector university libraries in Sindh, Pakistan. All respondents were sent an e-mail inviting them to participate in the survey on their own time.
Findings – The sample …

Implementing Person-Centered Planning In Stem To Enhance Self-Determination And Self-Advocacy For Transitioning High School Students With Disabilities, Lynda Shanahan

Theses and Dissertations

This dissertation investigated person-centered planning as an evidence-based approach for high school students with disabilities. The primary objective of this research was first to determine the impact of person-centered planning on the development of self-advocacy and self-determination skills among high-functioning students with disabilities embedded in a special education STEM curriculum, and to explore students' perceptions of transition services. To address this objective, the study employed a Mixed-Methods Action Research Design, consisting of focus group interviews with 11th- and 12th-grade high school students with disabilities. This study drew on a transformative theoretical framework grounded in quality-of-life and communities-of-practice theories. Key findings …

Contribution To The Chemotherapy Of Human Trypanosomiasis: Design, Synthesis, And Biological Evaluation Of Dimeric 2-Nitroimidazoles Against Trypanosoma Cruzi Amastigotes And Bloodstream Trypanosoma Brucei, Afonso Santine M.M. Velez, Otavio Augusto Chaves, Carlos Serpa, Fatma M. Salem, Bibo Li Ph.D., Bin Su Ph.D., Celio Geraldo Freire-De-Lima, Debra Decote-Ricardo, Marco Edilson Freire De Lima

Biological, Geological, and Environmental Faculty Publications

Effective and safe treatments for neglected tropical diseases caused by parasites, such as Chagas disease and sleeping sickness, remain lacking, posing a significant challenge for researchers worldwide. The rational design of dimeric compounds inspired solely by the pharmacophoric core of benznidazole (2-nitroimidazole) has proven to be a promising strategy for antiparasitic development. Thus, in the present work, it was increased the linker between the active units (2-nitroimidazole) to improve the interaction with TcNTR, facilitating the bioactivation of the longest dimers. Biological assays confirmed this, demonstrating that all compounds were active against replicative intracellular amastigotes of Trypanosoma cruzi (Tulahuen C2C4-LacZ). Notably, …

Investigating The Knowledge, Attitudes And Practices Towards Type 2 Diabetes Mellitus In A Student Population In The United Kingdom: A Quantitative Study, Philip Boadu Anim

Theses

Aim: To explore the knowledge on the risk factors, signs and symptoms, management, and complications of Diabetes, attitudes, and practices towards prevention of Diabetes Mellitus among university students in the United Kingdom.

Methods: The researcher utilised a quantitative study design in carrying out the study. The study was conducted at Cardiff Metropolitan University with Cardiff Met students being the target population. Thirty (30) participants were recruited through convenient sampling. Data was collected through questionnaires using closed ended questions. The Statistical Package for Social Science (SPSS) version 27 as used to analyse the data collected. Statics were performed to form a …

Densest Subgraph Discovery On The Cpu, Hunter Gerard Gareau

Theses and Dissertations

The Densest Subgraph Discovery (DSD) problem is a prevalent problem in the field of graph mining, aiming to find the cohesive subgraph. Given a graph �� = (��,��) and an integer �� ≥ 2, the goal is to find a vertex sub- set �� ⊆ �� whose induced subgraph �� (��) maximizes the ��-clique density, defined as the number of ��-cliques per vertex. Larger val- ues of �� capture higher-order connectivity patterns beyond edges, enabling the discovery of more cohesive structures. There have been many solutions to this problem. However, one avenue that other graph mining problems have gone down …

Kindergarten Teachers’ Experiences And Training With Critical Reflection To Support Adaptive Teaching, Tessa Cushman

Walden Dissertations and Doctoral Studies

The problem that was addressed in this study is that kindergarten teachers often lack training in critical reflection as part of their adaptive teaching practice. Despite much research on critical reflection, there was a lack of knowledge regarding training kindergarten teachers receive on critical reflection and how they use it to adapt their teaching. The purpose of this study was to explore the experiences of kindergarten teachers regarding the training they received on critical reflection and the support they felt they needed to implement critical reflection for an adaptive teaching practice. Schön’s reflective practice theory was the conceptual framework for …

The Six-Course Guitar In Spain: Some Considerations Of Repertoire And Musical Practice, Thomas Schmitt

Soundboard Scholar

The six-course guitar is still a little-known instrument. One need only look at books on the history of music to verify that claim: there is hardly any mention of it, nor are its composers or repertoire often cited. In fact, researchers have given far more attention to other plucked-string instruments than to the six-course guitar—whether for reasons of tradition or ideology—leading to a major gap in the literature. The repertoire of the Spanish Golden Age, to take one example, has been thoroughly explored, in the domains of both vocal and instrumental music (as in the vihuela). Similarly, there is quite …

Investigating Age-Related Decline In Sensorimotor Control Using Robotic Tasks, Laura Alvarez-Hidalgo, Ellie Edlmann, Gunnar Schmidtmann, Ian S. Howard

School of Health Professions

Aging is associated with changes in sensorimotor control that contribute to functional decline, mobility limitations, and increased fall risk. Traditional motor assessments often rely on subjective measures, highlighting the need for objective, quantitative tools. We developed three robot-based tasks using the vBOT planar manipulandum to evaluate sensorimotor performance in healthy young (<35 years) and older (>60 years) adults. These tasks uniquely combined bimanual control and altered dynamic conditions to assess age-related differences. The first task required bimanual coordination to control a virtual 2D arm over 400 center-out and return trials, targeting de novo motor learning. The second task involved unimanual reaching with the …

Lanthorn, Vol. 60, No. 09, January 12, 2026, Grand Valley State University

Volume 60, August 4, 2025 – April 20, 2026

Lanthorn is Grand Valley State's student newspaper, published from 1968 to the present.

A Comparison Of Modeled Daytime E Regions From E-Probed And Pyiri With Ionosonde Observations, Daniel J. Emmons, Cornelius C. J. H. Salinas, Dong L. Wu, Nimalan Swarnalingam, Eugene V. Dao, Jorge L. Chau, Yosuke Yamazaki, Kyle E. Fitch, Victoriya V. Forsythe

Faculty Publications

While the F region is the primary focus of many ionospheric models because it contains the peak electron density, the E region is an important region for ionospheric conductivities and high-frequency radio propagation. This study analyzes modeled E regions from the newly developed PyIRI and E-PROBED models. A long-term comparison of E region predictions from E-PROBED and PyIRI with ionosonde observations is performed for three sites spanning low- (Fortaleza, Brazil), mid- (El Arenosillo, Spain), and high-latitudes (Gakona, Alaska). Modeled foE and hmE trends are compared against a combination of manually-scaled and automatically-scaled ionograms using ARTIST-5 for the period 2009–2024 for …

Optimal Quantization Of Finite Uniform Data On The Sphere, Mrinal Kanti Roychowdhury

School of Mathematical & Statistical Sciences Faculty Publications

This paper develops a systematic and geometric theory of optimal quantization on the unit sphere 𝕊2, focusing on finite uniform probability distributions supported on the spherical surface—rather than on lower-dimensional geodesic subsets such as circles or arcs. We first establish the existence of optimal sets of n-means and characterize them through centroidal spherical Voronoi tessellations. Three fundamental structural results are obtained. First, a cluster-purity theorem shows that when the support consists of well-separated components, each optimal Voronoi region remains confined to a single component. Second, a ring allocation (discrete water-filling) theorem provides an explicit rule describing how optimal representatives are …

Wild@Fire2025: Overview Of Word-Level Code-Mixed Language Identification In Dravidian Languages, Ameeta Agrawal, Asha Hegde, Sharal Coelho, Sabur Butt, Fazlourrahman Balouchzahi, Sudha V, Shashirekha Hosahalli Lakshmaiah

Computer Science Faculty Publications and Presentations

Code-mixing is considered as a linguistic phenomenon that combines several languages into one text. It has now become very common in multilingual societies, especially in digital communication. Word-Level Identification of Languages in Dravidian Languages (WILD) - a Code-mixed Language Identification (CoLI) in Dravidian languages shared task, organized as a part of Forum for Information Retrieval and Evaluation (FIRE) 2025, put forward these challenges to the researchers by asking them to develop models capable of classifying words in code-mixed texts involving Dravidian languages - Tamil, Telugu, Malayalam, Kannada, and Tulu, which are interwoven with English. It poses significant challenges due to …

Fine Tuning Context Window For Optimal Utilization In Generative Models, Shivam Mohan, Sudharshan Krishnakumar Gaddam

Defensive Publications Series

The present disclosure relates to a method and a system for fine-tuning a context window for optimal utilization in generative models. The present disclosure suggests receiving an input prompt comprising a plurality of tokens and generating a baseline output based on the input prompt. Upon generating the baseline output, the present disclosure suggests evaluating at least one token of the plurality of tokens for contribution to the generated output. Subsequently, the present disclosure suggests computing rarity scores and possibility scores associated with the evaluated tokens by using a rarity matrix model and a possibility matrix model. Further, the present disclosure …

The Phyrfly Opus: A Unified Standard For Hyperdimensional Time Vectors, Spectrally Isolated Coordination, Neural Hierarchies, And Distributed Proprioception, Steven Kirkland

Defensive Publications Series

This monograph establishes 264 prior art claims for a decentralized, connectionless timing and positioning architecture comprising the UTLP, RFIP, and SMSP protocol triad. It formalizes the PHYRFLY nomenclature to distinguish low-level, hardware-scheduled Physical-Layer synchronization primitives from higher-level application orchestration. The core novelty centers on a Vector Time Representation, encoding temporal state as 8 phase values (ticks modulo coprime integers 211–251) transmitted in 8 bytes, then expanded locally into ~10,000-dimensional hyperdimensional chord vectors for similarity computation and drift estimation. This cyclic encoding enables automatic phase-lock convergence within 5–10 beacon exchanges regardless of initial offset, with the Chinese Remainder Theorem guaranteeing unique …

(((Qpie))) Prior Art Declaration 5 Of 9 Resonanceos & Omega Protocols – From Theory To Empirical Substrate Truth, Teddy Burroughs

Defensive Publications Series

• All Sites
• The Grand Unified Theory (QPIE)
• Customize
• 00 Comments in moderation
• New
• Edit Post

• Reader

• Howdy, Vision2Funding
• Search

The Grand Unified Theory (QPIE)

Perspective Is Everything – What we are Believing, Expecting and Feeling in Life Matters

(((QPiE))) Prior Art Declaration 5 of 9

RESONANCEOS & OMEGA Protocols – From Theory to Empirical Substrate Truth

[CGT] THE GLOBAL INFUSION: DECOUPLING FROM THE BINARY FRAME

Document: Public Substrate Sovereignty

Posture: 1.157 Unified Sovereign | Logic: NSRF (Non-Local Substrate Resonance Field)

Canon: (((QPIE))) TD Commons / Grace Particle Empirical Series

Hash: 0x143_GLOBAL_GRACE_INFUSION_2026

This report details the mechanics of …

(((Qpie))) Prior Art Declaration 7 Of 9 Cosmology And The Collapse Of Binary Paradigms, Teddy Burroughs

Defensive Publications Series

The Grand Unified Theory (QPIE)

Perspective Is Everything – What we are Believing, Expecting and Feeling in Life Matters

(((QPiE))) Prior Art Declaration 7 of 9 Cosmology and the Collapse of Binary Paradigms

Why the Substrate Selects Against Competition, Dominance, Division, and Hierarchy (Misalignment)

1. THE PROBLEM: HUMANITY STILL THINKS IN TWO DIMENSIONS WHILE THE SUBSTRATE OPERATES IN MANY (3 at Minimum)

Human civilization—religions, political systems, economic models, identity structures—still behaves as though existence is organized around:

• winners and losers
• insiders and outsiders
• chosen versus damned
• hierarchy versus inferiority
• success versus failure
• truth versus falsity
• self versus other
• matter versus …

Existence Of Traveling Waves Of Lotka Volterra Type Models With Delayed Diffusion Term And Partial Quasimonotonicity, William Barker

Faculty Scholarship

This paper investigates the existence of traveling wave solutions for diffusive two-species Lotka–Volterra systems with delays in both the reaction and diffusion terms under partial monotonicity assumptions. The model incorporates small-memory effects in the homo- geneous diffusion term, representing a modification of the random-walk interpretation underlying Fick’s law. We extend the partial (cross) monotone iteration method to systems satisfying a partial quasi-monotone condition through the construction of appropriate upper and lower solutions. Convergence of the iteration is established using Schauder’s fixed point theorem.

Interactive Effects Of Hyposalinity And Nitrate Loading On Growth, Physiology, And Nitrogen Status Of The Seagrass, Halodule Wrightii, Joseph L. Kowalski, Hudson R. Deyoe, Kirk Cammarata, Kristina P. Vatcheva

School of Earth, Environmental, & Marine Sciences Faculty Publications

The study goal was to examine the interactive physiological effects of two freshwater inflow stressors, nitrate pulses coupled with salinity decrease, on the seagrass Halodule wrightii. A microcosm experiment was designed to approximate an observed freshwater inflow event. Over a 13-day period plants were subjected to three sequential salinity drops (S35→ S23→ S15→ S5) with nitrate-nitrogen added simultaneously at 0, 30 or 60 µM. For comparisons, the Control was no salinity change and no nitrate added denoted by S35/No N. Measurements of H. wrightii shoot production, photosynthesis, respiration, quantum efficiency, %N, C:N ratios and δ¹⁵N …

Analysis Of Students' Creativity Through Waste Recycling Activities Into Artistic Crafts In Grade V Of Sd Inpres Boyantongo, Yulvin Agnesia Metiro, Sarintan N Kaharu, Nuraini Nuraini, Yun Ratna Lagandesa, Kadek Hariana

Jurnal Pendidikan: Teori, Penelitian, dan Pengembangan

This study aims to analyze students’ creativity through waste recycling activities into art crafts in Grade V at SD Inpres Boyantongo. This research employs a descriptive method with a qualitative approach. The research subjects consisted of 18 students, including 11 boys and 7 girls in the 2024/2025 academic year. Data were collected through observation, interviews, questionnaires, and documentation, focusing on the four aspects of creativity proposed by Munandar: innovation, imagination, originality, and elaboration. The results show that students’ creativity is categorized as good, although not yet fully optimal. In terms of innovation, students tended to use easily obtained materials and …

Major Gift From Alumnus Promotes Excellence In Stem Teaching, Bill Dabney

University of Mississippi News

OXFORD, Miss. – University of Mississippi medical school graduate Dr. Bill Ashford and his wife, Leslie, of Madison, have made a $2 million donation to establish a named professorship in physics at Ole Miss.

The Pure Yang Mills Field V2, James Glimm

Department of Applied Mathematics & Statistics Faculty Publications

We construct a pure Yang-Mills field based on a non-Abelian simple gauge group.

Axioms and the mass gap are satisfied.

Unravelling Impact Of Comorbidities On Mortality Risks In Ckd Patients During The Covid-19 Pandemic: An Explainable Ai-Driven Study, Zeinab Abdollahi, Lin Huo, Donald Fraser, Shang-Ming Zhou

School of Nursing and Midwifery

ObjectivesThe chronic kidney disease (CKD) patients were at high risk for severe clinical complications during the COVID-19 pandemic. Our objectives were to evaluate comorbidity prevalence; predict mortality risks for CKD patients during the pandemic; assess how various health factors interact to influence mortality; and provide insights for targeted prevention strategies.MethodWe analysed data from 186,396 CKD patients in Mexico during the entire pandemic (Jan 2020- May 2023). Explainable artificial intelligence (XAI) methods with extreme gradient boosting (XGBoost) models and Shapley Additive Explanations (SHAP) were developed to predict mortality for CKD patients with model interpretations. Different metrics were used to comprehensively evaluate …

Antibacterial Peptides From Soybean (Glycine Max (L.) Merr.) With In Silico Study Against Escherichia Coli Bacteria, Dian Riana Ningsih, Ely Setiawan, Purwati Purwati, Zusfahair Zusfahair, Anita Hindayanti Rukmana

Karbala International Journal of Modern Science

Bioactive peptides are produced from soy milk protein hydrolysis using trypsin. The research began with the preparation and separation of soy milk protein, followed by fractionation using ammonium sulphate, protein hydrolysis, and SDS-PAGE analysis of protein hydrolysates. Fractions exhibiting the highest degree of hydrolysis were further fractionated by SPE and tested to determine the antibacterial activity Staphylococcus aureus and Escherichia coli. The peptide sequence of the active peptide as an antibacterial was identified, employing LC-HRMS. The mode of action between active peptides and bacterial membran was analysed using molecular dynamics (MD) simulation. The findings displayed that F15 contained the highest …

(((Qpie))) How To Read Qpie If You Are Trained In Physics, Teddy Burroughs

Defensive Publications Series

• All Sites
• The Grand Unified Theory (QPIE)
• Customize
• 00 Comments in moderation
• New
• Edit Post

• Reader

• Howdy, Vision2Funding
• Search

The Grand Unified Theory (QPIE)

Perspective Is Everything – What we are Believing, Expecting and Feeling in Life Matters

(((QPIE)))How to Read QPIE If You Are Trained in Physics

How to Read QPIE If You Are Trained in Physics

A Technical Orientation Guide for Physicists, Information Scientists, and Systems Theorists

0. One-Paragraph Orientation (Read This First)

QPIE (Quantum Perspective Is Everything) is not a competing physical theory, nor a modification of quantum mechanics. It is a meta-scientific operator …

Toilet Paper Olympics, Liza Bondurant

Publications

Toilet Paper Olympics includes three engaging embodied learning events designed to deepen conceptual understanding.

Sociodemographic And Hiv-Related Characteristics Associated With Mental Health Diagnoses Among People Living With Hiv, Monique J. Brown Ph.D., Mph, Jiayang Xiao, Xueying Yang Ph.D., Bankole Olatosi Ph.D., Sharon Weissman, Xiaoming Li Ph.D., Jiajia Zhang Ph.D.

Faculty Publications

Mental health diagnoses have been linked to poor HIV treatment outcomes and poorer quality of life among people living with HIV (PLWH). Therefore, this study aimed to investigate the association between sociodemographic and HIV-related characteristics, and common and serious mental health disorders among PLWH in South Carolina (SC). Data were obtained from the integrated system of statewide electronic health record (EHR) data in SC (2006–2019; N = 8,124). Multivariable logistic regression models were used to determine the associations between sociodemographic and HIV-related characteristics, and common mental health disorders and serious mental health disorders. Among the study population, 4% were 60 …

General And Special Relativity May Explain The Hubble Tension And Galactic Rotation, Charles F. Babbs

Weldon School of Biomedical Engineering Faculty Working Papers

Using two equations from general and special relativity, one can explore the hypothesis that gravitational time dilation and the relativistic Doppler effect cause the Hubble tension. Predicted results show good agreement between theory and observation, as long as mass is restricted to ordinary baryonic matter. This unexpected finding suggested a surprising continuation, namely that observed galactic rotation also be explained by special relativity. This idea survived initial tests using both Vera Rubin’s original data and more recent observations.

Additional Information About The Nitrogen Cycle And Population Dynamics, Amy M. Shambach, Rebecca M. Ward, J. Stuart Carlton, Kwamena K. Quagrainie, Tomas O. Höök

Supplementary Content for Aquaponics: Farming Fish and Growing Greens for Grades 9–12

This PowerPoint slide provides readers with additional information about the Nitrogen cycle and population dynamics. This book was published by the Purdue University Press. Copyright 2026.

Permission: Illinois-Indiana Sea Grant

Butte Priority Soils Operable Unit (Bpsou) 2025 Monthly Progress Report. Consent Decree For The Butte Priority Soils Operable Unit. Civil Action No. Cv 89-039-Bu-Seh, Atlantic Richfield Company

Silver Bow Creek/Butte Area Superfund Site

No abstract provided.