Digital Commons Network^™

Automatic Segmentation Of Sinkholes Using A Convolutional Neural Network, Muhammad Usman Rafique, Junfeng Zhu, Nathan Jacobs

Computer Science Faculty Publications

Sinkholes are the most abundant surface features in karst areas worldwide. Understanding sinkhole occurrences and characteristics is critical for studying karst aquifers and mitigating sinkhole-related hazards. Most sinkholes appear on the land surface as depressions or cover collapses and are commonly mapped from elevation data, such as digital elevation models (DEMs). Existing methods for identifying sinkholes from DEMs often require two steps: locating surface depressions and separating sinkholes from non-sinkhole depressions. In this study, we explored deep learning to directly identify sinkholes from DEM data and aerial imagery. A key contribution of our study is an evaluation of various ways …

Feasibility Of Using Ring-Mounted Halcyon Linac For Single-Isocenter/Two-Lesion Lung Stereotactic Body Radiation Therapy, Damodar Pokhrel, Aaron Webster, Richard Mallory, Justin Visak, Mark E. Bernard, Ronald C. Mcgarry, Mahesh Kudrimoti

Radiation Medicine Faculty Publications

PURPOSE: To demonstrate the plan quality and delivery efficiency of volumetric-modulated arc therapy (VMAT) with the Halcyon Linac ring delivery system (RDS) in the treatment of single-isocenter/two-lesion lung stereotactic body radiation therapy (SBRT).

MATERIALS/METHODS: Sixteen previously treated non-coplanar VMAT single-isocenter/two-lesion lung SBRT plans delivered with SBRT-dedicated C-arm TrueBeam Linac were selected. Prescribed dose was 50 Gy to each lesion over five fractions with treatment delivery every other day and AcurosXB algorithm as the final dose calculation algorithm. TrueBeam single-isocenter plans were reoptimized for Halcyon Linac with coplanar geometry. Both TrueBeam and Halcyon plans were normalized for identical combined target coverage …

Automatic Segmentation Of Sinkholes Using A Convolutional Neural Network, Muhammad Usman Rafique, Junfeng Zhu, Nathan Jacobs

Faculty, Staff, and Affiliated Publications--KGS

Sinkholes are the most abundant surface features in karst areas worldwide. Understanding sinkhole occurrences and characteristics is critical for studying karst aquifers and mitigating sinkhole-related hazards. Most sinkholes appear on the land surface as depressions or cover collapses and are commonly mapped from elevation data, such as digital elevation models (DEMs). Existing methods for identifying sinkholes from DEMs often require two steps: locating surface depressions and separating sinkholes from non-sinkhole depressions. In this study, we explored deep learning to directly identify sinkholes from DEM data and aerial imagery. A key contribution of our study is an evaluation of various ways …

Kentucky’S Comprehensive Outreach Program For Horse Pasture Management And Education, Krista Lea, S. Ray Smith

IGC Proceedings (1977-2023)

The University of Kentucky (UK) Horse Pasture Evaluation Program began in 2005 to improve pasture quality and quantity on Kentucky horse farms. This on-farm program collects detailed data of pasture species composition, tests for tall fescue (Schedonorus arundinaceus (Schreb.) Dumort.) toxicity, and provides farm managers with comprehensive recommendations for management. Species composition is determined using the occupancy method. In 2019, the UK Horse Pasture Health Score Card was developed to provide useful, survey-level information on pastures and allow evaluators to cover far more acres in less time, requiring fewer resources. The objective of this research was to compare accuracy …

Forage News [2022-02], Department Of Plant And Soil Sciences, University Of Kentucky

Forage News

No abstract provided.

Avoidable And Unavoidable Repeat Breast Core Needle Biopsies, Xiaoqin Wang, Fara Shikoh, Mauro Hanaoka, Aurela Clark

Radiology Faculty Publications

Background: Breast core needle biopsies are not perfect and could miss cancer. The need for a repeat breast core biopsy is not uncommon and can occur for a multitude of reasons. Radiologists should carefully correlate the pathology results with imaging features after each breast biopsy and must recognize why certain core biopsies must be repeated to avoid missed or delayed cancer diagnosis. In this review, we discuss the main reasons for repeat core biopsies via case presentation with radiological images and pathological correlation. This review will help multidisciplinary breast care team recognize when to repeat a biopsy to reduce false …

Sowing Date Affects Dry Matter Yield Of Fodder Beet (Beta Vulgaris L.) Crops And Farm Profitability, Edith N. Khaembah, John M. De Ruiter, S. Maley

IGC Proceedings (1977-2023)

Fodder beet (Beta vulgaris L.) is a high yielding and high energy supplementary ruminant feed. Including the crop in a pasture system means loss in production and additional costs during crop establishment, but economic benefits may be recovered with increased seasonal productivity and feed quality. In this study, the Agricultural Production Systems sIMulator was used to estimate herbage production of a typical dairy farm in the Canterbury region of New Zealand based on using a ryegrass (Lolium perenne L.)-clover (Trifolium repens L.) pasture (“Pasture only”) or pasture in combination with fodder beet …

Metabolic Features Of Brain Function With Relevance To Clinical Features Of Alzheimer And Parkinson Diseases, David Allan Butterfield, Maria Favia, Iolanda Spera, Annalisa Campanella, Martina Lanza, Alessandra Castegna

Chemistry Faculty Publications

Brain metabolism is comprised in Alzheimer’s disease (AD) and Parkinson’s disease (PD). Since the brain primarily relies on metabolism of glucose, ketone bodies, and amino acids, aspects of these metabolic processes in these disorders—and particularly how these altered metabolic processes are related to oxidative and/or nitrosative stress and the resulting damaged targets—are reviewed in this paper. Greater understanding of the decreased functions in brain metabolism in AD and PD is posited to lead to potentially important therapeutic strategies to address both of these disorders, which cause relatively long-lasting decreased quality of life in patients.

Annual Ryegrass Pasture For Dairy Cows Receiving Total Mixed Ration, M. Civiero, L. H. Schaitz, C. P. Ferris, Henrique M. N. Ribeiro-Filho

IGC Proceedings (1977-2023)

The inclusion of herbage in the diet of medium yielding dairy cows offered a total mixed ration (TMR) may be beneficial. This study, which involved mid lactation dairy cows, examined the effect of partial replacement of a TMR with annual temperate pasture. Treatments were ad libitum TMR (TMR₁₀₀), 75% ad libitum TMR + ryegrass (Lolium multiflorum ‘Maximus’) (TMR₇₅), and 50% ad libitum TMR + ryegrass (TMR₅₀). Twelve multiparous Holstein and F1 Jersey × Holstein cows were divided into six homogeneous groups, taking account of milk production (26.6 ± 4.5 kg/day), days in milk …

Free-Enterprise Farming On Grasslands In Central Nsw, Australia, Des Green, Stuart Green, Ted Wolfe, Jo Richardson, Rob Eccles

IGC Proceedings (1977-2023)

A pathway is described in developing and improving the pastures on family-owned sheep and beef properties at sites near Blayney in central NSW. Initially, the twin approach of sowing perennial grasses, predominantly phalaris (Phalaris aquatica) with subterranean clover (Trifolium subterraneum) plus the recommended addition of superphosphate fertiliser, was closely followed but within a decade ill-thrift in pastures and livestock occurred. Once the core problem of soil acidity was recognised, steps were taken to overcome this constraint with applications of lime. However, an additional modification involving the application of gypsum with lime had to be sorted out …

A Global Survey Of Infection Control And Mitigation Measures For Combating The Transmission Of Covid-19 Pandemic In Buildings Under Facilities Management Services, Hadi Sarvari, Zhen Chen, Daniel W. M. Chan, Ellyn A. Lester, Nordin Yahaya, Hala Nassereddine, Aynaz Lotfata

Civil Engineering Faculty Publications

Facilities management along with health care are two important aspects in controlling the spread of infectious diseases with regard to controlling the outbreak of global COVID-19 pandemic. Hence, with the increasing outbreak of COVID-19 pandemic, the importance of examining the relationship between the built environment and the outbreak of infectious diseases has become more significant. The aim of the research described in this article is to develop effective infection control and mitigation measures to prevent the transmission of COVID-19 pandemic in the built environment. This study seeks to answer the question of how the facilities management industry can help reduce …

A Global Survey Of Infection Control And Mitigation Measures For Combating The Transmission Of Covid-19 Pandemic In Buildings Under Facilities Management Services, Hadi Savari, Zhen Chen, Daniel W. M. Chan, Ellyn A. Lester, Nordin Bin Yahaya, Hala Nassereddine, Aynaz Lotfata

Civil Engineering Faculty Publications

Facilities management along with health care are two important aspects in controlling the spread of infectious diseases with regard to controlling the outbreak of global COVID-19 pandemic. Hence, with the increasing outbreak of COVID-19 pandemic, the importance of examining the relationship between the built environment and the outbreak of infectious diseases has become more significant. The aim of the research described in this article is to develop effective infection control and mitigation measures to prevent the transmission of COVID-19 pandemic in the built environment. This study seeks to answer the question of how the facilities management industry can help reduce …

Optimizing Mandibular Advancement Maneuvers During Sleep Endoscopy With A Titratable Positioner: Dise-Sam Protocol, Patricia Fernández-Sanjuán, Juan José Arrieta, Jaime Sanabria, Marta Alcaraz, Gabriela Bosco, Nuria Pérez-Martín, Adriana Pérez, Marina Carrasco-Llatas, Isabel Moreno-Hay, Marcos Ríos-Lago, Rodolfo Lugo, Carlos O’Connor-Reina, Peter Baptista, Guillermo Plaza

Oral Health Science Faculty Publications

Mandibular advancement devices (MAD) are an effective alternative treatment to CPAP. Different maneuvers were performed during drug sleep-induced endoscopy (DISE) to mimic the effect of MAD. Using the Selector Avance Mandibular (SAM) device, we aimed to identify MAD candidates during DISE using a titratable, reproducible, and measurable maneuver. This DISE-SAM protocol may help to find the relationship between the severity of the respiratory disorder and the degree of response and determine the advancement required to improve the collapsibility of the upper airway. Explorations were performed in 161 patients (132 males; 29 females) with a mean age of 46.81 (SD = …

Gut Microbial Trimethylamine Is Elevated In Alcohol-Associated Hepatitis And Contributes To Ethanol-Induced Liver Injury In Mice, Robert N. Helsley, Tatsunori Miyata, Anagha Kadam, Venkateshwari Varadharajan, Naseer Sangwan, Emily C. Huang, Rakhee Banerjee, Amanda L. Brown, Kevin K. Fung, William J. Massey, Chase Neumann, Danny Orabi, Lucas J. Osborn, Rebecca C. Schugar, Megan R. Mcmullen, Annette Bellar, Kyle L. Poulsen, Adam Kim, Vai Pathak, Marko Mrdjen

Pediatrics Faculty Publications

There is mounting evidence that microbes residing in the human intestine contribute to diverse alcohol-associated liver diseases (ALD) including the most deadly form known as alcohol-associated hepatitis (AH). However, mechanisms by which gut microbes synergize with excessive alcohol intake to promote liver injury are poorly understood. Furthermore, whether drugs that selectively target gut microbial metabolism can improve ALD has never been tested. We used liquid chromatography tandem mass spectrometry to quantify the levels of microbe and host choline co-metabolites in healthy controls and AH patients, finding elevated levels of the microbial metabolite trimethylamine (TMA) in AH. In subsequent studies, we …

Human Microrna (Mir-20b-5p) Modulates Alzheimer’S Disease Pathways And Neuronal Function, And A Specific Polymorphism Close To The Mir20b Gene Influences Alzheimer’S Biomarkers, Ruizhi Wang, Nipun Chopra, Kwangsik Nho, Bryan Maloney, Alexander G. Obukhov, Peter T. Nelson, Scott E. Counts, Debomoy K. Lahiri

Sanders-Brown Center on Aging Faculty Publications

Alzheimer’s disease (AD) is a progressive neurodegenerative disorder with loss of cognitive, executive, and other mental functions, and is the most common form of age-related dementia. Amyloid-β peptide (Aβ) contributes to the etiology and progression of the disease. Aβ is derived from the amyloid-β precursor protein (APP). Multiple microRNA (miRNA) species are also implicated in AD. We report that human hsa-miR20b-5p (miR-20b), produced from the MIR20B gene on Chromosome X, may play complex roles in AD pathogenesis, including Aβ regulation. Specifically, miR-20b-5p miRNA levels were altered in association with disease progression in three regions of the human brain: temporal neocortex, …

Therapeutic Treatment With The Anti-Inflammatory Drug Candidate Mw151 May Partially Reduce Memory Impairment And Normalizes Hippocampal Metabolic Markers In A Mouse Model Of Comorbid Amyloid And Vascular Pathology, David J. Braun, David K. Powell, Christopher J. Mclouth, Saktimayee M. Roy, D. Martin Watterson, Linda J. Van Eldik

Sanders-Brown Center on Aging Faculty Publications

Alzheimer’s disease (AD) is the leading cause of dementia in the elderly, but therapeutic options are lacking. Despite long being able to effectively treat the ill-effects of pathology present in various rodent models of AD, translation of these strategies to the clinic has so far been disappointing. One potential contributor to this situation is the fact that the vast majority of AD patients have other dementia-contributing comorbid pathologies, the most common of which are vascular in nature. This situation is modeled relatively infrequently in basic AD research, and almost never in preclinical studies. As part of our efforts to develop …

A Novel Approach For Real-Time Quality Monitoring In Machining Of Aerospace Alloy Through Acoustic Emission Signal Transformation For Dnn, David Adeniji, Kyle Oligee, Julius Schoop

Mechanical Engineering Faculty Publications

Gamma titanium aluminide (γ-TiAl) is considered a high-performance, low-density replacement for nickel-based superalloys in the aerospace industry due to its high specific strength, which is retained at temperatures above 800 °C. However, low damage tolerance, i.e., brittle material behavior with a propensity to rapid crack propagation, has limited the application of γ-TiAl. Any cracks introduced during manufacturing would dramatically lower the useful (fatigue) life of γ-TiAl components, making the workpiece surface’s quality from finish machining a critical component to product quality and performance. To address this issue and enable more widespread use of γ-TiAl, this research aims to develop a …

A Novel Approach For Real-Time Quality Monitoring In Machining Of Aerospace Alloy Through Acoustic Emission Signal Transformation For Dnn, David Adeniji, Kyle Oligee, Julius Schoop

Mechanical Engineering Faculty Publications

Gamma titanium aluminide (γ-TiAl) is considered a high-performance, low-density replacement for nickel-based superalloys in the aerospace industry due to its high specific strength, which is retained at temperatures above 800◦C. However, low damage tolerance, i.e., brittle material behavior with a propensity to rapid crack propagation, has limited the application of γ-TiAl. Any cracks introduced during manufacturing would dramatically lower the useful (fatigue) life of γ-TiAl components, making the workpiece surface’s quality from finish machining a critical component to product quality and performance. To address this issue and enable more widespread use of γ-TiAl, this research aims to develop a real-time …

Iam Hiq—A Novel Pair Of Accuracy Indices For Imputed Genotypes, Albert Rosenberger, Viola Tozzi, Heike Bickeböller, Susanne M. Arnold, The Integral-Ilcco Consortium

Markey Cancer Center Faculty Publications

Background: Imputation of untyped markers is a standard tool in genome-wide association studies to close the gap between directly genotyped and other known DNA variants. However, high accuracy with which genotypes are imputed is fundamental. Several accuracy measures have been proposed and some are implemented in imputation software, unfortunately diversely across platforms. In the present paper, we introduce Iam hiQ, an independent pair of accuracy measures that can be applied to dosage files, the output of all imputation software. Iam (imputation accuracy measure) quantifies the average amount of individual-specific versus population-specific genotype information in a linear manner. …

Simple Guidelines For Deciding When Soil Variability Does – And Doesn’T – Matter For Rangeland Management And Restoration, Jeff E. Herrick, J. Maynard, B. Bestelmeyer, A. Ganguli, J. Glover, K. Johnson, D. Kimiti, J. Neff, G. Peacock, J. Peters, S. Salley, P. Shaver, K. Shepherd, Z. Stewart, R. Van Den Bosch

IGC Proceedings (1977-2023)

“Rangelands in most parts of the world are relatively homogenous and can be managed uniformly at the landscape scale” or “rangelands are extremely diverse and require different approaches even at the landscape scale.” Both statements are made frequently by rangelands scientists and managers. Both are correct. Whether or not it is worthwhile to consider soil variability when planning management and restoration at the landscape scale depends on objectives, location, and the management or restoration strategies under consideration. Together these factors determine whether outcomes are likely to be different at different locations in the landscape, and whether those outcomes can be …

A Muscle Cell-Macrophage Axis Involving Matrix Metalloproteinase 14 Facilitates Extracellular Matrix Remodeling With Mechanical Loading, Bailey D. Peck, Kevin A. Murach, R. Grace Walton, Alexander J. Simmons, Douglas E. Long, Kate Kosmac, Cory M. Dungan, Philip A. Kern, Marcas M. Bamman, Charlotte A. Peterson

Center for Muscle Biology Faculty Publications

The extracellular matrix (ECM) in skeletal muscle plays an integral role in tissue development, structural support, and force transmission. For successful adaptation to mechanical loading, remodeling processes must occur. In a large cohort of older adults, transcriptomics revealed that genes involved in ECM remodeling, including matrix metalloproteinase 14 (MMP14), were the most upregulated following 14 weeks of progressive resistance exercise training (PRT). Using single-cell RNA-seq, we identified macrophages as a source of Mmp14 in muscle following a hypertrophic exercise stimulus in mice. In vitro contractile activity in myotubes revealed that the gene encoding cytokine leukemia inhibitory factor ( …

A Muscle Cell-Macrophage Axis Involving Matrix Metalloproteinase 14 Facilitates Extracellular Matrix Remodeling With Mechanical Loading, Bailey D. Peck, Kevin A. Murach, R. Grace Walton, Alexander J. Simmons, Douglas E. Long, Kate Kosmac, Cory M. Dungan, Philip A. Kern, Marcas M. Bamman, Charlotte A. Peterson

Center for Muscle Biology Faculty Publications

The extracellular matrix (ECM) in skeletal muscle plays an integral role in tissue development, structural support, and force transmission. For successful adaptation to mechanical loading, remodeling processes must occur. In a large cohort of older adults, transcriptomics revealed that genes involved in ECM remodeling, including matrix metalloproteinase 14 (MMP14), were the most upregulated following 14 weeks of progressive resistance exercise training (PRT). Using single-cell RNA-seq, we identified macrophages as a source of Mmp14 in muscle following a hypertrophic exercise stimulus in mice. In vitro contractile activity in myotubes revealed that the gene encoding cytokine leukemia inhibitory factor ( …

Diversity And Taxonomic Identity Of Rumen Bacterial Community In Cattle Fed Different Diets, B. K. Korir, J. K. N. Kuria, D. M. Mwangi, M. M. M. Wanyoike

IGC Proceedings (1977-2023)

In this study, the identity of rumen bacterial community and their taxonomic classification in Zebu heifers (n=24) fed 4 different diets (range grasses, Bracharia MulatoII, Azolla and Cassava leaf meal) was surveyed using metagenomics sequencing of the 16SrRNA gene. Rumen liquor samples were collected from the heifers from which a total of 192 DNA samples were amplified and the resulting 16S rRNA sequences compared to the existing sequences at the National Centre for Biotechnology Information (NCBI) BLAST database through the MetagenAssist . Bioinformatics analyses indicated that 17 operational taxonomic units (OTUs) were present at the phylum level. Of these, 43.3% …

Reactive Oxygen Species (Ros) And Antioxidants As Immunomodulators In Exercise: Implications For Heme Oxygenase And Bilirubin, David Travis Thomas, Nicholas R. Delcimmuto, Kyle D. Flack, David E. Stec, Terry D. Hinds Jr.

Athletic Training and Clinical Nutrition Faculty Publications

Exercise is commonly prescribed as a lifestyle treatment for chronic metabolic diseases as it functions as an insulin sensitizer, cardio-protectant, and essential lifestyle tool for effective weight maintenance. Exercise boosts the production of reactive oxygen species (ROS) and subsequent transient oxidative damage, which also upregulates counterbalancing endogenous antioxidants to protect from ROS-induced damage and inflammation. Exercise elevates heme oxygenase-1 (HO-1) and biliverdin reductase A (BVRA) expression as built-in protective mechanisms, which produce the most potent antioxidant, bilirubin. Together, these mitigate inflammation and adiposity. Moderately raising plasma bilirubin protects in two ways: (1) via its antioxidant capacity to reduce ROS and …

Impact Of Grazing Management On Productivity Of Tropical Grasslands, Moacyr Corsi, Geraldo B. Martha Jr., Domício Do Nascimento Jr., Marco A. A. Balsalobre

IGC Proceedings (1977-2023)

Beef and dairy cattle enterprises from tropical pasture-based systems are notoriously of low productivity. The low soil fertility, the exploitation of native grasslands, the low genetic potential of the animals and the poor management of soil, pasture and animal components are all arguments used to explain these “low-productivity systems”. In fact, research has consistently indicated up to 50% increase in calving rate when animals grazing unfertilized pastures were supplemented with trace-mineralized salt (Table 1) but unfortunately less than 90% of Brazilian farmers use this management strategy (Tosi, 1997). However, a recent survey conducted by São Paulo State government showed that …

Highly-Individualized Physical Therapy Instruction Beyond The Clinic Using Wearable Inertial Sensors, Samir A. Rawashdeh, Ella Reimann, Timothy L. Uhl

Physical Therapy Faculty Publications

Musculoskeletal conditions, often requiring rehabilitation, affect one-third of the U.S. population annually. This paper presents rehabilitation assistive technology that includes body-worn motion sensors and a mobile application that extends the reach of a physical rehabilitation specialist beyond the clinic to ensure that home exercises are performed with the same precision as under clinical supervision. Assisted by a specialist in the clinic, the wearable sensors and user interface developed allow the capture of individualized exercises unique to the patient’s physical abilities. Beyond the clinical setting, the system can assist patients by providing real-time corrective feedback to repeat these exercises through a …

Choice Bundling Increases Valuation Of Delayed Losses More Than Gains In Cigarette Smokers, Jeffrey S. Stein, Jeremiah M. Brown, Allison N. Tegge, Roberta Freitas-Lemos, Mikhail N. Koffarnus, Warren K. Bickel, Gregory J. Madden

Family and Community Medicine Faculty Publications

Choice bundling, in which a single choice produces a series of repeating consequences over time, increases valuation of delayed monetary and non-monetary gains. Interventions derived from this manipulation may be an effective method for mitigating the elevated delay discounting rates observed in cigarette smokers. No prior work, however, has investigated whether the effects of choice bundling generalize to reward losses. In the present study, an online panel of cigarette smokers (N = 302), recruited using survey firms Ipsos and InnovateMR, completed assessments for either monetary gains or losses (randomly assigned). In Step 1, participants completed a delay-discounting task to …

Associations Between Feeding Behaviors Collected From An Automated Milk Feeder And Neonatal Calf Diarrhea In Group Housed Dairy Calves: A Case-Control Study, Meridith H. Conboy, Charlotte B. Winder, Melissa C. Cantor, Joao H. C. Costa, Michael A. Steele, Catalina Medrano-Galarza, Taika E. Von Konigslow, Amanda Kerr, Dave L. Renaud

Animal and Food Sciences Faculty Publications

The objective of this case-control study was to determine if feeding behavior data collected from an automated milk feeder (AMF) could be used to predict neonatal calf diarrhea (NCD) in the days surrounding diagnosis in pre-weaned group housed dairy calves. Data were collected from two research farms in Ontario between 2017 and 2020 where calves fed using an AMF were health scored daily and feeding behavior data (milk intake (mL/d), drinking speed (mL/min), number of rewarded or unrewarded visits) was collected. Calves with NCD were pair matched to healthy controls (31 pairs) by farm, gender, and age at case diagnosis …

Cloud Computing Solution For Monitoring Arid Rangeland Dynamics: Case Of Moroccan Highlands And Southern Acacia Ecosystems, Said Lahssini, Said Moukrim, H. Mharzi-Alaoui, N. Rifai, L. El Mansouri, F. El Wahidi

IGC Proceedings (1977-2023)

The wide availability of free satellite imagery, the recent development of cloud platforms dedicated to big spatial data (Big Data) that integrates both image archives from different providers, processing algorithms, distributed processing capabilities as well as an application programming interface (API) that facilitate scripting and automation process opened new perspectives for the use of vegetation observation time series over long timestamps and over large spatial scales (almost planetary).

This work aims at harnessing these technologies and building up an automated solution to monitor rangeland rehabilitation dynamics in arid lands and to assess the effectiveness of stakeholder’s management strategies. Such solution …

Feature Papers In Horticulturae, Douglas D. Archbold

Horticulture Faculty Publications

No abstract provided.