Explanipedia

Liver sinusoid constraints make random search of CD8 T cells for Plasmodium parasites efficient Open

Viktor S. Zenkov, Ian A. Cockburn, Raymond Lin, Whitney N. Griffith, Michael A. Langston , et al. · 2025

A relatively small number of liver-localized CD8 T cells can provide sterilizing protection against exposure to Plasmodium sporozoites. Previously published mathematical model-based simulations of randomly searching for an infection T cell…

Influence of multi-species data on gene-disease associations in substance use disorder using random walk with restart models Open

Everest Uriel Castaneda, Sharon Moore, Jason A. Bubier, Stephen K. Grady, Michael A. Langston , et al. · 2025

A major challenge lies in discovering, emphasizing, and characterizing human gene-disease and gene-gene associations. The limitations of data on the role of human gene products in substance use disorder (SUD) makes it challenging to transi…

Anomaly Detection in Electronic Health Records Across Hospital Networks: Integrating Machine Learning With Graph Algorithms Open

Haoran Niu, Olufemi A. Omitaomu, Michael A. Langston, Stephen K. Grady, Mohammed M. Olama , et al. · 2025

In a large hospital system, a network of hospitals relies on electronic health records (EHRs) to make informed decisions regarding their patients in various clinical domains. Consequently, the dependability of the health information techno…

A graph theoretical approach to experimental prioritization in genome-scale investigations Open

Stephen K. Grady, Kevin A. Peterson, Stephen A. Murray, Erich J. Baker, Michael A. Langston , et al. · 2024

A Comparative Study of Gene Co-Expression Thresholding Algorithms Open

Carissa Bleker, Stephen K. Grady, Michael A. Langston · 2024

The thresholding problem is studied in the context of graph theoretical analysis of gene co-expression data. A number of thresholding methodologies are described, implemented, and tested over a large collection of graphs derived from real …

EHR-BERT: A BERT-based model for effective anomaly detection in electronic health records Open

Haoran Niu, Olufemi A. Omitaomu, Michael A. Langston, Mohammad Olama, Özgür Özmen , et al. · 2024

Decoding the exposome: data science methodologies and implications in exposome-wide association studies (ExWASs) Open

Ming Kei Chung, John S. House, Farida S. Akhtari, Konstantinos C. Makris, Michael A. Langston , et al. · 2024

This paper explores the exposome concept and its role in elucidating the interplay between environmental exposures and human health. We introduce two key concepts critical for exposomics research. Firstly, we discuss the joint impact of ge…

Combinatorial Algorithms and High Performance Implementations for Elucidating Complex Ecosystem Relationships from North Sea Historical Data Open

Michael A. Langston, Andy Perkins, B.E. Douglas, Peter Kershaw, James B. Reid , et al. · 2024

No abstracts are to be cited without prior reference to the author.This investigation centers on elucidating complex relationships among quantifiable variables of significance to the North Sea ecosystem. These variables encompass a huge va…

Seminar: Scalable Preprocessing Tools for Exposomic Data Analysis Open

Stephen K. Grady, Levente Dojcsak, Emily W. Harville, Maeve Wallace, Dovile Vilda , et al. · 2023

State-of-the-art technologies are described for data harmonization and to mitigate noise, which can stymie downstream interpretation, and to select key exposomic features, without which analytics may lose focus. A main task is the reductio…

Lifetime Body Weight Trajectories and Risk of Kidney Cancer: A Large US Prospective Cohort Study Open

Deng Zhang, Morteza Hajihosseini, J. R. Moore, Saira Khan, Melissa L. Bondy , et al. · 2023

Purpose: This study aimed to investigate kidney cancer risk in relation to the body mass index (BMI) trajectory and cumulative exposure to excess weight. Methods: We identified several anthropometric metrics to capture the lifetime BMI pat…

Detecting anomalous sequences in electronic health records using higher-order tensor networks Open

Haoran Niu, Olufemi A. Omitaomu, Michael A. Langston, Mohammad Olama, Özgür Özmen , et al. · 2022

Association of diabetes and exposure to fine particulate matter (PM2.5) in the Southeastern United States Open

R. Burciaga Valdez, Mohammad Tabatabai, Mohammad Z. Al‐Hamdan, Derek Wilus, Darryl B. Hood , et al. · 2022

Fine particulate matter (PM2.5) exposure can cause premature death and harmful chronic disease such as diabetes. The U.S. Environmental Protection Agency (EPA) sets annual PM2.5 standards to reduce these negative health effects. Currently,…

Domination based classification algorithms for the controllability analysis of biological interaction networks Open

Stephen K. Grady, Faisal N. Abu-Khzam, Ronald Hagan, Hesam Shams, Michael A. Langston · 2022

The effects of air pollution, meteorological parameters, and climate change on COVID-19 comorbidity and health disparities: A systematic review Open

Paul D. Juárez, Aramandla Ramesh, Darryl B. Hood, Donald J. Alcendor, R. Burciaga Valdez , et al. · 2022

Air pollutants, especially particulate matter, and other meteorological factors serve as important carriers of infectious microbes and play a critical role in the spread of disease. However, there remains uncertainty about the relationship…

Examining the Drivers of Racial/Ethnic Disparities in Non-Adherence to Antihypertensive Medications and Mortality Due to Heart Disease and Stroke: A County-Level Analysis Open

Macarius Donneyong, Michael A. Fischer, Michael A. Langston, Joshua J. Joseph, Paul D. Juárez , et al. · 2021

Background: Prior research has identified disparities in anti-hypertensive medication (AHM) non-adherence between Black/African Americans (BAAs) and non-Hispanic Whites (nHWs) but the role of determinants of health in these gaps is unclear…

Association of Cardiovascular Disease and Long-Term Exposure to Fine Particulate Matter (PM2.5) in the Southeastern United States Open

R. Burciaga Valdez, Mohammad Z. Al‐Hamdan, Mohammad Tabatabai, Darryl B. Hood, Wansoo Im , et al. · 2021

There is a well-documented association between ambient fine particulate matter air pollution (PM2.5) and cardiovascular disease (CVD) morbidity and mortality. Exposure to PM2.5 can cause premature death and harmful and chronic health effec…

Molecular Subtyping and Outlier Detection in Human Disease Using the Paraclique Algorithm Open

Ronald Hagan, Michael A. Langston · 2021

Recent discoveries of distinct molecular subtypes have led to remarkable advances in treatment for a variety of diseases. While subtyping via unsupervised clustering has received a great deal of interest, most methods rely on basic statist…

Natural genetic variation alters Alzheimer’s‐related gene expression modules in mice Open

Ann Wells, Narayanan Raghupathy, Raymond F. Robledo, Daniel M. Gatti, Steven C. Munger , et al. · 2020

Background Understanding the genetics of Alzheimer’s disease (AD) has proven difficult in human populations. Using mouse models enables researchers to dissect the genetics of AD‐related pathways. The Diversity Outbred (DO) mice are a heter…

Structural and Social Determinants of Health Factors Associated with County-Level Variation in Non-Adherence to Antihypertensive Medication Treatment Open

Macarius Donneyong, Teng-Jen Chang, John E. Jackson, Michael A. Langston, Paul D. Juárez , et al. · 2020

Background: Non-adherence to antihypertensive medication treatment (AHM) is a complex health behavior with determinants that extend beyond the individual patient. The structural and social determinants of health (SDH) that predispose popul…

Structural and social determinants of health factors accounted for county-level variation in non-adherence to antihypertensive medication treatment Open

Macarius Donneyong, Teng‐Jen Chang, John E. Jackson, Michael A. Langston, Paul D. Juárez , et al. · 2020

Background Non-adherence to antihypertensive medication treatment (AHM) is a complex health behavior with determinants that extend beyond the individual patient. The structural and social determinants of health (SDH) that predispose popula…

The Effects of Social, Personal, and Behavioral Risk Factors and PM2.5 on Cardio-Metabolic Disparities in a Cohort of Community Health Center Patients Open

Paul D. Juárez, Mohammad Tabatabai, R. Burciaga Valdez, Darryl B. Hood, Wansoo Im , et al. · 2020

(1) Background: Cardio-metabolic diseases (CMD), including cardiovascular disease, stroke, and diabetes, have numerous common individual and environmental risk factors. Yet, few studies to date have considered how these multiple risk facto…

Finding human gene-disease associations using a Network Enhanced Similarity Search (NESS) of multi-species heterogeneous functional genomics data Open

Timothy Reynolds, Jason A. Bubier, Michael A. Langston, Elissa J. Chesler, Erich J. Baker · 2020

Disease diagnosis and treatment is challenging in part due to the misalignment of diagnostic categories with the underlying biology of disease. The evaluation of large-scale genomic experimental datasets is a compelling approach to refinin…

Clique Selection and its Effect on Paraclique Enrichment: An Experimental Study Open

Yuping Lu, Charles Phillips, Elissa J. Chesler, Michael A. Langston · 2020

The paraclique algorithm provides an effective means for biological data clustering. It satisfies the mathematical quest for density, while fulfilling the pragmatic need for noise abatement on real data. Given a finite, simple, edge-weight…

MicroRNA Profiling in Adipose Before and After Weight Loss Highlights the Role of miR‐223‐3p and the NLRP3 Inflammasome Open

Donia Macartney‐Coxson, Kirsty Danielson, Jane Clapham, Miles C. Benton, A.C. Johnstone , et al. · 2020

Objective Adipose tissue plays a key role in obesity‐related metabolic dysfunction. MicroRNA (miRNA) are gene regulatory molecules involved in intercellular and inter‐organ communication. It was hypothesized that miRNA levels in adipose ti…

Biclique: an R package for maximal biclique enumeration in bipartite graphs Open

Yuping Lu, Charles Phillips, Michael A. Langston · 2020

Objective Bipartite graphs are widely used to model relationships between pairs of heterogeneous data types. Maximal bicliques are foundational structures in such graphs, and their enumeration is an important task in systems biology, epide…

Biclique: An R package for Maximal Biclique Enumeration in Bipartite Graphs Open

Yuping Lu, Charles A. Phillips, Michael A. Langston · 2020

Objective Bipartite graphs are widely used to model relationships between pairs of heterogeneous data types. Maximal bicliques are foundational structures in such graphs, and their enumeration is an important task in systems biology, epide…

A robustness metric for biological data clustering algorithms Open

Yuping Lu, Charles Phillips, Michael A. Langston · 2019

Biclique: An R package for Maximal Biclique Enumeration in Bipartite Graphs Open

Yuping Lu, Charles A. Phillips, Michael A. Langston · 2019

Objective Bipartite graphs are widely used to model relationships between pairs of heterogeneous data types. Maximal bicliques are foundational structures in such graphs, and their enumeration is an important task in systems biology, epide…

Integration of heterogeneous functional genomics data in gerontology research to find genes and pathway underlying aging across species Open

Jason A. Bubier, George L. Sutphin, Timothy Reynolds, Ron Korstanje, Axis Fuksman-Kumpa , et al. · 2019

Understanding the biological mechanisms behind aging, lifespan and healthspan is becoming increasingly important as the proportion of the world's population over the age of 65 grows, along with the cost and complexity of their care. BigDat…

On Finding and Enumerating Maximal and Maximum k-Partite Cliques in k-Partite Graphs Open

Charles A. Phillips, Kai Wang, Erich J. Baker, Jason A. Bubier, Elissa J. Chesler , et al. · 2019

Let k denote an integer greater than 2, let G denote a k-partite graph, and let S denote the set of all maximal k-partite cliques in G. Several open questions concerning the computation of S are resolved. A straightforward and highly-scala…

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