Digital Commons Network^™

The Global Neurodegeneration Proteomics Consortium: Biomarker And Drug Target Discovery For Common Neurodegenerative Diseases And Aging, Farhad Imam, Muhammad Ali, Carlos Cruchaga, Chengran Yang, Et Al.

2020-Current year OA Pubs

More than 57 million people globally suffer from neurodegenerative diseases, a figure expected to double every 20 years. Despite this growing burden, there are currently no cures, and treatment options remain limited due to disease heterogeneity, prolonged preclinical and prodromal phases, poor understanding of disease mechanisms, and diagnostic challenges. Identifying novel biomarkers is crucial for improving early detection, prognosis, staging and subtyping of these conditions. High-dimensional molecular studies in biofluids ('omics') offer promise for scalable biomarker discovery, but challenges in assembling large, diverse datasets hinder progress. To address this, the Global Neurodegeneration Proteomics Consortium (GNPC)-a public-private partnership-established one of the …

Do Risk Factors For Hcc Impact The Association Of Ct/Mri Lirads Major Features With Hcc? An Individual Participant Data Meta-Analysis, Robert G Adamo, Daniel R Ludwig, Tyler J Fraum, Et Al.

2020-Current year OA Pubs

No abstract provided.

Integrative Genomic Reconstruction Reveals Heterogeneity In Carbohydrate Utilization Across Human Gut Bifidobacteria, Aleksandr A Arzamasov, Dmitry A Rodionov, Matthew C Hibberd, Janaki L Guruge, James E Kent, Marat D Kazanov, Semen A Leyn, Marinela L Elane, Kristija Sejane, Annalee Furst, Lars Bode, Michael J Barratt, Jeffrey I Gordon, Andrei L Osterman

2020-Current year OA Pubs

Bifidobacteria are beneficial saccharolytic microbes that are widely used as probiotics or in synbiotic formulations, yet individual responses to supplementation can vary with strain type, microbiota composition, diet and lifestyle, underscoring the need for strain-level insights into glycan metabolism. Here we reconstructed 68 pathways for the utilization of mono-, di-, oligo- and polysaccharides by analysing the distribution of 589 curated metabolic gene functions (catabolic enzymes, transporters and transcriptional regulators) across 3,083 non-redundant Bifidobacterium genomes of human origin. Thirty-eight predicted phenotypes were validated in vitro for 30 geographically diverse strains, supporting genomics-based predictions. Our analysis uncovered extensive inter- and intraspecies functional …

Evaluating Demand-Responsive Scheduling In Public Transportation Service Offerings To Retirement Communities, Steven D. Silver

Mineta Transportation Institute

This project addresses alternatives to fixed schedule local transportation service offerings to members of retirement communities. The project design measures the effects of the contrast between fixed schedule (Fixed) service and demand-responsive services (DRT) in retirement communities in Santa Clara County that are closely matched in demographic profiles and geographic location. The research team investigates the effects of scheduling alternatives in a diary format with a within-person variable of four recent trips. The measure of public transportation usage under the Fixed schedule and DRT service offerings is supplemented by a measure of subjective well-being (STS) for each trip—in other words, …

Roadside Asset Extraction From Mobile Lidar Point Cloud, Yushin Ahn, Riadh Munjy, Stephen Choi

Mineta Transportation Institute

Mobile LiDAR systems are powerful tools that help us map roads and their surroundings in 3D with great speed and precision. The data provided by these systems support urban planning efforts, digital mapping, transportation infrastructure maintenance, and more. This report presents a comprehensive workflow for roadside asset extraction using Mobile Terrestrial Laser Scanning (MTLS) data, focusing on road lane detection, cross-section slope analysis, and point cloud classification. Roadside asset extraction is the identification and classification of roadside features like signs and poles. The dataset, acquired using a high-resolution mobile LiDAR system, contains over 5.7 billion points (pieces of data) across …

Understanding Residential Development In A High-Quality Transit Area (Hqta): An Application Of Deep Learning, Dohyung Kim

Mineta Transportation Institute

Considerable research addresses the dynamics between land use and public transportation, including the impacts of transit systems on urban development and vice versa. However, this research has underestimated the heterogeneity of contributing factors to urban developments near transit by property type: vacant lot and occupied property. That is, what drives development in vacant lots differs from what drives development in already-occupied property. A lack of comprehensive data that differentiates development records based on the type of property is one explanation for this research gap. This project fills this research gap by employing a deep learning algorithm and separately examining the …

Developing An Integrated Risk Assessment Framework To Quantify The Resilience Of Critical Railway Infrastructure: Characterization Of Risks And Hazards To The U.S. Rail Network Through Empirical Data And Past Events, Haizhong Wang, Brian M. Staes, Benyamin Ghoreishi

Mineta Transportation Institute

To improve understanding of the impact of natural hazards on the U.S. railway system, this project developed a comprehensive, geospatially precise dataset that maps historical hazard events to specific rail segments. The project provides insight into when, where, and how much damage natural hazards have inflicted on rail infrastructure across the country. While a rail-specific hazard database did not previously exist, this research combines data from the Geological Survey (USGS) Flood Events Database, Hydrologic Unit Codes (HUC), the National Centers for Environmental Information (NCEI) from the National Oceanic and Atmospheric Administration (NOAA), and the National Weather Service (NWS) forecast zones. …

Germline Genetic Variation Impacts Clonal Hematopoiesis Landscape And Progression To Malignancy, Jie Liu, Duc Tran, Brian J Wiley, Irenaeus C C Chan, Indraniel Das, Li Ding, Yin Cao, Matthew J Walter, Daniel C Link, Kelly L Bolton, Et Al.

2020-Current year OA Pubs

With age, clonal expansions occur pervasively across normal tissues yet only in rare instances lead to cancer, despite being driven by well-established cancer drivers. Characterization of the factors that influence clonal progression is needed to inform interventional approaches. Germline genetic variation influences cancer risk and shapes tumor mutational profile, but its influence on the mutational landscape of normal tissues is not well known. Here we studied the impact of germline genetic variation on clonal hematopoiesis (CH) in 731,835 individuals. We identified 22 new CH-predisposition genes, most of which predispose to CH driven by specific mutational events. CH-predisposition genes contribute to …

Longer Scans Boost Prediction And Cut Costs In Brain-Wide Association Studies, Leon Qi Rong Ooi, Scott Marek, Nico U F Dosenbach, Timothy O Laumann, Evan M Gordon, Et Al.

2020-Current year OA Pubs

A pervasive dilemma in brain-wide association studies

Comparing Machine Learning Techniques For Neonatal Mortality Prediction: Insights From A Modeling Competition, Brynne A Sullivan, Alvaro G Moreira, Ryan M Mcadams, Lindsey A Knake, Ameena Husain, Jiaxing Qiu, Avinash Mudireddy, Abrar Majeedi, Wissam Shalish, Douglas E Lake, Zachary A Vesoulis

2020-Current year OA Pubs

BACKGROUND: Predicting mortality risk in neonatal intensive care units (NICUs) is challenging due to complex, variable clinical and physiological data. Machine learning (ML) offers potential for more accurate risk stratification.

OBJECTIVE: To compare the performance of various ML models in predicting NICU mortality using a team-based modeling competition.

METHODS: We conducted a modeling competition with five neonatologist-led teams applying ML techniques-logistic regression, CatBoost, neural networks, random forest, and XGBoost-to a shared dataset from over 6,000 NICU admissions. The dataset included static demographic and clinical variables, alongside daily samples of heart rate and oxygen saturation. Each team developed models to predict …

Autism And Intellectual Disability Due To A Novel Gain-Of-Function Mutation In Ube3a, Anna M Gunelson, Kwang-Soo Kim, Connolly G Steigerwald, Devorah Segal, Nicolas J Abreu, Jason J Yi

2020-Current year OA Pubs

The loss of maternal UBE3A causes Angelman syndrome whereas its duplication is associated with a heterogeneous neurodevelopmental disorder. Here, we describe two affected brothers who possess a novel UBE3A

A Measurement Science Framework To Optimize Cds For Opioid Use Disorder Treatment In The Ed, Mark S. Iscoe, Carolina Diniz Hooper, Deborah R. Levy, John Lutz, Hyung Paek, Christian Rose, Thomas Kannampallil, Daniella Meeker, James D. Dziura, Edward R. Melnick

2020-Current year OA Pubs

In the emergency department-initiated buprenorphine for opioid use disorder (EMBED) trial, a clinical decision support (CDS) tool had no effect on rates of buprenorphine initiation in emergency department (ED) patients with opioid use disorder. The Agency for Healthcare Research and Quality (AHRQ) recently released a CDS Performance Measure Inventory to guide data-driven CDS development and evaluation. Through partner co-design, we tailored AHRQ inventory measures to evaluate EMBED CDS performance and drive improvements.Relevant AHRQ inventory measures were selected and adapted using a partner co-design approach grounded in consensus methodology, with three iterative, multidisciplinary partner working group sessions involving stakeholders from various …

Impact Of Transcatheter Aortic Valve Replacement Use Ratio On Outcomes In Patients With Aortic Valve Disease, Theodore Marghitu, Sophia H Roberts, June He, Nicholas Kouchoukos, Puja Kachroo, Harold Roberts, Ralph Damiano, Alan Zajarias, Marc Sintek, John Lasala, Alexander A Brescia, Tsuyoshi Kaneko

2020-Current year OA Pubs

OBJECTIVE: Use of the Heart Team has been the standard of care for the treatment of aortic valve disease; however, its efficacy has not been evaluated. We sought to analyze its impact using the transcatheter aortic valve replacement (TAVR) use ratio (number of TAVR/total aortic valve replacement [AVR] volume) on TAVR, surgical aortic valve replacement (SAVR), and overall AVR outcomes.

METHODS: We analyzed all TAVRs and SAVRs sampled by the National Readmissions Database between 2016 and 2020. Hospitals were stratified into quartiles on the basis of their TAVR/AVR ratio. Centers with a ratio below the first quartile were considered "low …

Medicaid Accessibility For Ophthalmologists And Optometrists In Florida: A Pilot Study, Darby D Miller, Isabella V. Wagner, Michael W. Stewart, Abhimanyu S. Ahuja, Syril Dorairaj, Richard D. Ten Hulzen, Aaron Y. Lee

2020-Current year OA Pubs

OBJECTIVE AND METHODS: This study aimed to evaluate Medicaid accessibility for ophthalmologists and optometrists in Florida. A cross-sectional telephone survey was conducted between February and March 2018 using a geographically uniform sample of 22 ophthalmologists and 80 optometrists registered with Medicaid. Providers were asked whether they accepted new Medicaid patients (adult and/or pediatric) and for the earliest available appointment. Categorical variables were compared using Fisher's exact test, and time to next appointment was analyzed using the Wilcoxon rank-sum test (α = 0.05).

RESULTS: Across all age groups, a greater proportion of ophthalmologists (95.4%) accepted some form of Medicaid compared to …

Association Between Nt-Probnp Changes And Clinical Outcomes In Paediatric Patients With Heart Failure: Insights From Panorama-Hf And Paradigm-Hf, Robert Shaddy, Charles Canter, Et Al.

2020-Current year OA Pubs

AIMS: The PANORAMA-HF trial demonstrated significant N-terminal pro-B-type natriuretic peptide (NT-proBNP) reductions in paediatric patients with left ventricular systolic dysfunction with sacubitril/valsartan or enalapril treatment over 52 weeks. This post hoc analysis aims to correlate changes in NT-proBNP levels with clinical outcomes in PANORAMA-HF patients receiving either sacubitril/valsartan or enalapril. Additionally, NT-proBNP reductions in the paediatric population were compared with a subset of adult heart failure with reduced ejection fraction (HFrEF) patients from the PARADIGM-HF trial.

METHODS AND RESULTS: This post hoc analysis utilized data from Part 2 of the PANORAMA-HF trial. Associations between baseline NT-proBNP levels, changes post-baseline and …

Implementation Of Link Workers In Primary Care: Synopsis Of Findings From A Realist Evaluation, Stephanie Tierney, Geoff Wong, Debra Westlake, Amadea Turk, Steven Markham, Jordan Gorenberg, Joanne Reeve, Caroline Mitchell, Kerryn Husk, Sabi Redwood, Tony Meacock, Catherine Pope, Beccy Baird, Kamal R. Mahtani

Peninsula Medical School

Background: Social prescribing link workers formed part of the Additional Roles Reimbursement Scheme introduced into primary care in England from 2019. Link workers assist patients experiencing issues affecting their health and well-being that are 'non-medical' (e.g. lack of social connections, financial difficulties and housing problems). They give patients space to consider these non-medical issues and, when relevant, connect them to support, often within the voluntary-community-social-enterprise sector. We conducted an earlier realist review on the link worker role in primary care. We then carried out a realist evaluation, described in this report, to address the question: When implementing link workers in …

The Role Of Expansion Joints In Long Concrete Buildings, Salah Salem, Mohamed E. El Madawy, Basem S. Abdelwahed, Mohamed E. El-Zoughiby

Mansoura Engineering Journal

The use of expansion joints in lengthy concrete buildings aims to mitigate forces induced by temperature changes and is often derived through empirical methods. These methods lack the depth needed for universal application in any building. On the other hand, adopting a no-joint strategy necessitates a thorough thermal analysis of temperature changes, a subject that has not been extensively explored in existing literature. There are no methodologies available, and the current guidelines rely on approximate calculations; thus, there is a need for clear directives on these two matters. This paper produces a procedure for performing thermal analyses of long concrete …

Interlace: A Journal Of Mathematics And Fiber Arts, Carolyn Yackel, Sarah-Marie Belcastro

Journal of Humanistic Mathematics

Interlace: A journal of mathematics and fiber arts is a peer-reviewed, open-access completely free journal devoted to publishing high-quality original research at the intersection of mathematics and fiber arts. The journal is now accepting submissions.

Sudoku Grids, David Sheskin

Journal of Humanistic Mathematics

Ten images depicting numerical grids of the mathematical logic puzzle Sudoku are presented. The digit values in each puzzle are represented on either domino tiles, postage stamps, mah-jong tiles, or playing cards.

The Unending Constant, Christopher Banyas

Journal of Humanistic Mathematics

No abstract provided.

Totality Fractal, Heather L. Cook

Journal of Humanistic Mathematics

This fractal was inspired by the Total Solar Eclipse on April 8, 2024. Here, the sun and the moon are represented when in totality.

Euclidean Vision (A Poem), Joseph Chaney

Journal of Humanistic Mathematics

"Euclidean Vision" is a short poem that evaluates geometry from a humanistic perspective, focusing partly on its pleasures. Geometry gives us the pleasing assurance of certainty. It does this through the radical abstraction of space and form, which makes possible a completeness of mathematical vision based on axioms. It's this purity that guarantees a knowledge that "can go on forever." In the end, the poem points to the wonderful freedom that geometry and other mathematical disciplines give us in the midst of difficult and confusing lives. In its beauty and universality, geometry stands as an eternal aspect of the human …

Dream Series, Jim Wolper

Journal of Humanistic Mathematics

Dream Series converge to numbers we cannot analyze. They exist, like dreams, but resist attempts to put them into order.

Solving For..., Jan B. Shafer

Journal of Humanistic Mathematics

This poem is about an appreciation of mathematics and its relationships to people and nature.

When I Was One-In-Twenty, Daniel Kowalczyk

Journal of Humanistic Mathematics

A poem by A.E. Housman inspired the engineer John R. Pierce to feel awe in the technological progress of telecommunications. Tangentially, Housman also evoked a strong emotion in me when making use of statistical p-values.

Found Poem By Abraham De Moivre, Richard Delaware

Journal of Humanistic Mathematics

No abstract provided.

Mathiverse - A Potpourri Of Mathematical Stanzas, Vijay Fafat

Journal of Humanistic Mathematics

A collection of very short verses, mathematical in nature.

Book Review: Zero's Whisper By Tom Petsinis, Sarah Glaz

Journal of Humanistic Mathematics

Tom Petsinis is an internationally acclaimed Australian novelist, playwright, and poet. He also holds a Ph.D. degree in mathematics and works as a mathematical adviser at Deakin University, Melbourne. Zero’s Whisper, Petsinis’ tenth poetry collection, offers a rich blend of the literary and the mathematical. The collection, comprising of over one hundred fourteen-line poems, is divided into nine sections, each of which considers a different aspect of a world steeped in mathematics and poetry. This review aims to provide a taste of the poetry and the themes included in the book. To discover all its hidden delights, one needs to …

Compare Problems: Complexity In Content And Language, Gladys Krause

Journal of Humanistic Mathematics

When learning to teach mathematics in elementary school, pre-service teachers (PSTs) spend considerable time studying word problems. Here I present a resource I have created for my mathematics methods course in order to engage PSTs in learning about these problems and to support them in identifying these problem types.

Let’S Teach More Accurate And Inclusive History! The Case Of Islamic Contributions To Mathematics And Science, Nuh Aydin

Journal of Humanistic Mathematics

Schools commonly teach a history of mathematics and science that is Eurocentric. This selective version of the history of science, called Classical Narrative by some, is rooted in colonial times and mindset, and has reinforced certain negative opinions about other cultures. It ignores or downplays contributions to mathematics and sciences from non-western civilizations, and falsely attributes many scientific discoveries to European scholars. Medieval Islamic Civilization, which had strong connections to Renaissance Europe, serves as a clear example of how this narrative is distorted. Based on research on primary sources since the middle of the 20th century, we now know that …