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Overcoming Resolution Attenuation During Tilted Cryo-Em Data Collection, Sriram Aiyer, Philip R Baldwin, Shi Min Tan, Zelin Shan, Juntaek Oh, Atousa Mehrani, Marianne E Bowman, Gordon Louie, Dario Oliveira Passos, Selena Đorđević-Marquardt, Mario Mietzsch, Joshua A Hull, Shuichi Hoshika, Benjamin A Barad, Danielle A Grotjahn, Robert Mckenna, Mavis Agbandje-Mckenna, Steven A Benner, Joseph A P Noel, Dong Wang, Yong Zi Tan, Dmitry Lyumkis Jan 2024

Overcoming Resolution Attenuation During Tilted Cryo-Em Data Collection, Sriram Aiyer, Philip R Baldwin, Shi Min Tan, Zelin Shan, Juntaek Oh, Atousa Mehrani, Marianne E Bowman, Gordon Louie, Dario Oliveira Passos, Selena Đorđević-Marquardt, Mario Mietzsch, Joshua A Hull, Shuichi Hoshika, Benjamin A Barad, Danielle A Grotjahn, Robert Mckenna, Mavis Agbandje-Mckenna, Steven A Benner, Joseph A P Noel, Dong Wang, Yong Zi Tan, Dmitry Lyumkis

Faculty, Staff and Students Publications

Structural biology efforts using cryogenic electron microscopy are frequently stifled by specimens adopting "preferred orientations" on grids, leading to anisotropic map resolution and impeding structure determination. Tilting the specimen stage during data collection is a generalizable solution but has historically led to substantial resolution attenuation. Here, we develop updated data collection and image processing workflows and demonstrate, using multiple specimens, that resolution attenuation is negligible or significantly reduced across tilt angles. Reconstructions with and without the stage tilted as high as 60° are virtually indistinguishable. These strategies allowed the reconstruction to 3 Å resolution of a bacterial RNA polymerase with …


Machine Learning-Based Soybean Yield Prediction And Optimizing Lidar-Mounted Uav Efficiency, Leticia Santos Jan 2024

Machine Learning-Based Soybean Yield Prediction And Optimizing Lidar-Mounted Uav Efficiency, Leticia Santos

LSU Master's Theses

The first chapter of this thesis explores the predictive capabilities of random forests algorithm on datasets obtained from field plot experiments on crop management systems in soybean. Furthermore, the chapter presents a complementary analysis of model performance according to dataset sizes and two techniques on how to impute and deal with missing data. Random forests are being compared with standard statistical techniques such as linear regression on a well-structured, information-rich agronomic experiment. The key findings of this chapter includes the best hyperparameters adjustment and the identification of the dataset threshold for optimal algorithms performance. The second chapter has a research …


Multiple Pathways For Glucose Phosphate Transport And Utilization Support Growth Of Cryptosporidium Parvum, Rui Xu, Wandy L Beatty, Valentin Greigert, William H Witola, L David Sibley Jan 2024

Multiple Pathways For Glucose Phosphate Transport And Utilization Support Growth Of Cryptosporidium Parvum, Rui Xu, Wandy L Beatty, Valentin Greigert, William H Witola, L David Sibley

2020-Current year OA Pubs

Cryptosporidium parvum is an obligate intracellular parasite with a highly reduced mitochondrion that lacks the tricarboxylic acid cycle and the ability to generate ATP, making the parasite reliant on glycolysis. Genetic ablation experiments demonstrated that neither of the two putative glucose transporters CpGT1 and CpGT2 were essential for growth. Surprisingly, hexokinase was also dispensable for parasite growth while the downstream enzyme aldolase was required, suggesting the parasite has an alternative way of obtaining phosphorylated hexose. Complementation studies in E. coli support a role for direct transport of glucose-6-phosphate from the host cell by the parasite transporters CpGT1 and CpGT2, thus …


Integrating Genetic Regulation And Single-Cell Expression With Gwas Prioritizes Causal Genes And Cell Types For Glaucoma, Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé Van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè Jan 2024

Integrating Genetic Regulation And Single-Cell Expression With Gwas Prioritizes Causal Genes And Cell Types For Glaucoma, Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé Van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè

Faculty, Staff and Students Publications

Primary open-angle glaucoma (POAG), characterized by retinal ganglion cell death, is a leading cause of irreversible blindness worldwide. However, its molecular and cellular causes are not well understood. Elevated intraocular pressure (IOP) is a major risk factor, but many patients have normal IOP. Colocalization and Mendelian randomization analysis of >240 POAG and IOP genome-wide association study (GWAS) loci and overlapping expression and splicing quantitative trait loci (e/sQTLs) in 49 GTEx tissues and retina prioritizes causal genes for 60% of loci. These genes are enriched in pathways implicated in extracellular matrix organization, cell adhesion, and vascular development. Analysis of single-nucleus RNA-seq …


The Immune System And Metabolic Products In Epilepsy And Glioma-Associated Epilepsy: Emerging Therapeutic Directions, Shashwat Tripathi, Cody L Nathan, Matthew C Tate, Craig M Horbinski, Jessica W Templer, Joshua M Rosenow, Timothy L Sita, Charles D James, Benjamin Deneen, Stephen D Miller, Amy B Heimberger Jan 2024

The Immune System And Metabolic Products In Epilepsy And Glioma-Associated Epilepsy: Emerging Therapeutic Directions, Shashwat Tripathi, Cody L Nathan, Matthew C Tate, Craig M Horbinski, Jessica W Templer, Joshua M Rosenow, Timothy L Sita, Charles D James, Benjamin Deneen, Stephen D Miller, Amy B Heimberger

Faculty, Staff and Students Publications

Epilepsy has a profound impact on quality of life. Despite the development of new antiseizure medications (ASMs), approximately one-third of affected patients have drug-refractory epilepsy and are nonresponsive to medical treatment. Nearly all currently approved ASMs target neuronal activity through ion channel modulation. Recent human and animal model studies have implicated new immunotherapeutic and metabolomic approaches that may benefit patients with epilepsy. In this Review, we detail the proinflammatory immune landscape of epilepsy and contrast this with the immunosuppressive microenvironment in patients with glioma-related epilepsy. In the tumor setting, excessive neuronal activity facilitates immunosuppression, thereby contributing to subsequent glioma progression. …


Hubungan Antara Fear Of Falling Dengan Aktivitas Fisik Pada Lansia Di Panti Jompo, Inez Deviantika, Farahdina Bachtiar, Ika Fitri Wulan Dhari, Andy Sirada Jan 2024

Hubungan Antara Fear Of Falling Dengan Aktivitas Fisik Pada Lansia Di Panti Jompo, Inez Deviantika, Farahdina Bachtiar, Ika Fitri Wulan Dhari, Andy Sirada

Jurnal Vokasi Indonesia

Pada lanjut usia (lansia), terjadinya perubahan fisik akan mempengaruhi proses aktivitas fisiknya. Salah satu faktor yang menjadi faktor terhambatnya aktivitas fisik adalah rasa takut jatuh, dimana hal ini dapat timbul dari pengalaman yang dirasakan lansia. Lansia akan menghindari aktivitas yang menimbulkan risiko jatuh bagi dirinya. Penelitian ini bertujuan untuk mengetahui hubungan antara fear of falling dan aktivitas fisik pada lansia. Penelitian ini menggunakan metode cross sectional dengan pendekatan korelasi di Panti Jompo Hajjah Andi Hasmah Noor Jakarta. Alat ukur yang digunakan dalam penelitian ini adalah Physical Activities Scale For Elderly (PASE-I) dan Modified Falls Efficacy Indonesian Scale (FES-I). Berdasarkan hasil …


Perceived Influence Of Career And Technical Student Organizations On Postsecondary Choices, Deborah K. Marshall Jan 2024

Perceived Influence Of Career And Technical Student Organizations On Postsecondary Choices, Deborah K. Marshall

Doctor of Education Program Dissertations

The purpose of this basic qualitative research study was to explore the perceptions of former career and technical student organization (CTSO) members’ postsecondary choices relative to their involvement in CTSOs in a midsize city high school. The research question that guided this qualitative study was:

How do former participants in CTSOs describe the student organization’s influence on their postsecondary choices?

Thirteen former CTSO members participated in this study through semistructured individual interviews. Four themes emerged from the data: (a) use of soft skills, (b) engagement with others, (c) participation in conferences, and (d) leadership preparation. Through data analysis, the themes …


Exploring The Role Of Physical Activity Influencing Emotional Regulation And Mental Health In Adolescents, Alejandro G. Martinez, Lindsay Gietzen, Valerie F. Mcdaniel Jan 2024

Exploring The Role Of Physical Activity Influencing Emotional Regulation And Mental Health In Adolescents, Alejandro G. Martinez, Lindsay Gietzen, Valerie F. Mcdaniel

Pacific Journal of Health

This research paper explores the intricate relationship between physical activity, emotional regulation, and mental health in adolescents through an in-depth content analysis grounded in catharsis theory and the transactional theory of stress and coping. It underscores physical activity as the best practice for adolescents to manage emotions and mental health, identifying key themes that highlight its role in enhancing emotional regulation skills and reducing anger, anxiety, and depression. The catharsis theory suggests physical activity releases negative emotions, while the transactional theory explores how adolescents perceive and respond to stressors. Emphasizing the positive impact of physical activity on emotional regulation and …


A Survey Of Proximal Sensilla Associated With Denticle Subrows On Scorpion Pedipalp Fingers (Arachnida: Scorpiones), With Observations On Scorpion Fluorescence, Graeme Lowe, Victor Fet Jan 2024

A Survey Of Proximal Sensilla Associated With Denticle Subrows On Scorpion Pedipalp Fingers (Arachnida: Scorpiones), With Observations On Scorpion Fluorescence, Graeme Lowe, Victor Fet

Euscorpius

Sensilla on the dentate margins of scorpion pedipalp fingers, associated with denticle subrows or terminal denticles, were surveyed by white light, UV fluorescence and scanning electron microscopy. A total of 163 species belonging to 103 genera from 19 families were examined, representing all major phylogenetic lineages in the order. In the majority of species (141/152) with dentition organized into linear subrows of median denticles, a small socketed sensillum with a short shaft was observed at the proximal terminus of each subrow, termed a ‘subrow proximal sensilla’ (SPS). With few exceptions, SPS were non-fluorescent (‘Type N’) in buthids, and fluorescent (‘Type …


Faculty Senate Agenda January 8, 2024, Utah State University Jan 2024

Faculty Senate Agenda January 8, 2024, Utah State University

Faculty Senate & Faculty Senate Executive Committee

  • 3:00 Call to Order
  • 3:05 University Business
  • 3:20 Faculty Senate Business
  • 3:30 Information
  • 3:35 Reports

  • 4:00 Old Business

  • 4:05 New Business

  • Adjourn: 4:30


Research Update - January 2024, Office Of Research Jan 2024

Research Update - January 2024, Office Of Research

Research Update

No abstract provided.


General Education Subcommittee Minutes 12-7-2023, Utah State University Jan 2024

General Education Subcommittee Minutes 12-7-2023, Utah State University

Educational Policies Committee

  • Call to Order - Matt Sanders
  • Approval of Minutes- November2, 2023
  • Course Approvals/Removals/Syllabi Approvals
  • New Business
  • Additional Items
  • Adjourn: 9:26


Extreme Drought Impacts Have Been Underestimated In Grasslands And Shrublands Globally, Melinda D. Smith, Kate D. Wilkins, Martin C. Holdrege, Peter Wilfahrt, Scott L. Collins, Alan K. Knapp, Osvaldo E. Sala, Jeffrey S. Dukes, Richard P. Phillips, Laura Yahdjian, Laureano A. Gherardi, Timothy Ohlert, Claus Beier, Lauchlan H. Fraser, Anke Jentsch, Michael E. Loik, Fernando T. Maestre, Sally A. Power, Qiang Yu, Andrew J. Felton, Seth M. Munson, Yiqi Luo, Hamed Abdoli, Mehdi Abedi, Concepción L. Alados, Juan Alberti, Moshe Alon, Hui An, Brian Anacker, Maggie Anderson, Harald Auge, Seton Bachle, Khadijeh Bahalkeh, Michael Bahn, Amgaa Batbaatar, Taryn Bauerle, Karen H. Beard, Et. Al. Jan 2024

Extreme Drought Impacts Have Been Underestimated In Grasslands And Shrublands Globally, Melinda D. Smith, Kate D. Wilkins, Martin C. Holdrege, Peter Wilfahrt, Scott L. Collins, Alan K. Knapp, Osvaldo E. Sala, Jeffrey S. Dukes, Richard P. Phillips, Laura Yahdjian, Laureano A. Gherardi, Timothy Ohlert, Claus Beier, Lauchlan H. Fraser, Anke Jentsch, Michael E. Loik, Fernando T. Maestre, Sally A. Power, Qiang Yu, Andrew J. Felton, Seth M. Munson, Yiqi Luo, Hamed Abdoli, Mehdi Abedi, Concepción L. Alados, Juan Alberti, Moshe Alon, Hui An, Brian Anacker, Maggie Anderson, Harald Auge, Seton Bachle, Khadijeh Bahalkeh, Michael Bahn, Amgaa Batbaatar, Taryn Bauerle, Karen H. Beard, Et. Al.

Wildland Resources Faculty Publications

Climate change is increasing the frequency and severity of short-term (~1 y) drought events—the most common duration of drought—globally. Yet the impact of this intensification of drought on ecosystem functioning remains poorly resolved. This is due in part to the widely disparate approaches ecologists have employed to study drought, variation in the severity and duration of drought studied, and differences among ecosystems in vegetation, edaphic and climatic attributes that can mediate drought impacts. To overcome these problems and better identify the factors that modulate drought responses, we used a coordinated distributed experiment to quantify the impact of short-term drought on …


One-Pot Assembly Of Drug-Eluting Silk Coatings With Applications For Nerve Regeneration, Tanner D. Fink, Jessica L. Funnell, Ryan J. Gilbert, R. Helen Zha Jan 2024

One-Pot Assembly Of Drug-Eluting Silk Coatings With Applications For Nerve Regeneration, Tanner D. Fink, Jessica L. Funnell, Ryan J. Gilbert, R. Helen Zha

Chemical and Biochemical Engineering Faculty Research & Creative Works

Clinical use of polymeric scaffolds for tissue engineering often suffers from their inability to promote strong cellular interactions. Functionalization with biomolecules may improve outcomes; however, current functionalization approaches using covalent chemistry or physical adsorption can lead to loss of biomolecule bioactivity. Here, we demonstrate a novel bottom-up approach for enhancing the bioactivity of poly (l-lactic acid) electro spun scaffolds though interfacial coassembly of protein payloads with silk fibroin into nano thin coatings. In our approach, protein payloads are first added into an aqueous solution with Bombyx mori-derived silk fibroin. Phosphate anions are then added to trigger coassembly of the payload …


Embedding Sustainability In Food Degrees: A Case-Study Of Service-Learning As A Signature Pedagogy For Developing Food Sustainability Competencies, Julie L. Dunne, Catherine Barry-Ryan, Cormac H. Macmahon Jan 2024

Embedding Sustainability In Food Degrees: A Case-Study Of Service-Learning As A Signature Pedagogy For Developing Food Sustainability Competencies, Julie L. Dunne, Catherine Barry-Ryan, Cormac H. Macmahon

Irish Journal of Academic Practice

Food production and consumption are emblematic of challenges to operate within planetary boundaries, whilst providing minimum access for all. They draw on natural and human resources and are de facto drivers of land-use. Moreover, their recognition in the United Nations Sustainable Development Goals has spurred growing awareness of food system fragility reflected in dietary orientation, waste streams and food security. Education is a key lever in transformation for food system resilience. Yet, food sustainability competencies and their signature pedagogies are in their infancy. This paper offers a reflection of their development at TU Dublin’s School of Food Science & Environmental …


Episode 7: Strange Bedfellows, Sara Gras Jan 2024

Episode 7: Strange Bedfellows, Sara Gras

Season 01

In this episode I explore the various factions who, despite their different general ideologies, have united in advocating for the exclusion of trans kids from sports. My guests and I discuss why this presents such a challenge when working to educate and advocate around this issue. I also provide some additional details on one of the largest and most powerful organizations supporting exclusion.

Erin Buzuvis (Faculty Profile)
Associate Dean for Academic Affairs and Professor of Law, Western New England School of Law

Kurt Weaver
Executive Director, You Can Play Project

Shira Berkowitz (Organizational Bio)
Senior Director …


Development Of An Anisotropic Hyperelastic Material Model For Porcine Colorectal Tissues, Youssef Fahmy, Mohamed B. Trabia, Brian Ward, Lucas Gallup, Mary Froehlich Jan 2024

Development Of An Anisotropic Hyperelastic Material Model For Porcine Colorectal Tissues, Youssef Fahmy, Mohamed B. Trabia, Brian Ward, Lucas Gallup, Mary Froehlich

Mechanical Engineering Faculty Research

Many colonic surgeries include colorectal anastomoses whose leaks may be life-threatening, affecting thousands of patients annually. Various studies propose that mechanical interaction between the staples and neighboring tissues may play an important role in anastomotic leakage. Therefore, understanding the mechanical behavior of colorectal tissue is essential to characterizing the reasons for this type of failure. So far, experimental data characterizing the mechanical properties of colorectal tissue have been few and inconsistent, which has significantly limited understanding their behavior. This research proposes an approach to developing an anisotropic hyperelastic material model for colorectal tissues based on uniaxial testing of freshly harvested …


Personal Persistence And Post-Mortem Survival, Harriet Baber Jan 2024

Personal Persistence And Post-Mortem Survival, Harriet Baber

Philosophy: Faculty Scholarship

Can a materialist look for the resurrection of the dead and the life of the world to come? Dean Zimmerman’s Falling Elevator Model is a speculative account of how persons, understood as material beings, might survive in a post-mortem resurrected state—a just-so story. It assumes endurantism, the doctrine that persons and other ordinary objects are three-dimensional beings which are wholly present at every time they exist. I argue that neither endurantism, nor purdurantism, according to which persons are four-dimensional ‘worms’ who have proper temporal parts at every time that they exist, provides a plausible account of personal survival. If you …


A Cyclin D1 Intrinsically Disordered Domain Accesses Modified Histone Motifs To Govern Gene Transcription, Xuanmao Jiao, Gabriele Di Sante, Mathew Casimiro, Agnes Tantos, Anthony Ashton, Zhiping Li, Yen Quach, Dharmendra Bhargava, Agnese Di Rocco, Claudia Pupo, Marco Crosariol, Tamas Lazar, Peter Tompa, Chenguang Wang, Zuoren Yu, Zhao Zhang, Kawthar Aldaaysi, Ratna Vadlamudi, Monica Mann, Emmanuel Skordalakes, Andrew Kossenkov, Yanming Du, Richard Pestell Jan 2024

A Cyclin D1 Intrinsically Disordered Domain Accesses Modified Histone Motifs To Govern Gene Transcription, Xuanmao Jiao, Gabriele Di Sante, Mathew Casimiro, Agnes Tantos, Anthony Ashton, Zhiping Li, Yen Quach, Dharmendra Bhargava, Agnese Di Rocco, Claudia Pupo, Marco Crosariol, Tamas Lazar, Peter Tompa, Chenguang Wang, Zuoren Yu, Zhao Zhang, Kawthar Aldaaysi, Ratna Vadlamudi, Monica Mann, Emmanuel Skordalakes, Andrew Kossenkov, Yanming Du, Richard Pestell

Department of Pharmacology, Physiology, and Cancer Biology Faculty Papers

The essential G1-cyclin, CCND1, is frequently overexpressed in cancer, contributing to tumorigenesis by driving cell-cycle progression. D-type cyclins are rate-limiting regulators of G1-S progression in mammalian cells via their ability to bind and activate CDK4 and CDK6. In addition, cyclin D1 conveys kinase-independent transcriptional functions of cyclin D1. Here we report that cyclin D1 associates with H2BS14 via an intrinsically disordered domain (IDD). The same region of cyclin D1 was necessary for the induction of aneuploidy, induction of the DNA damage response, cyclin D1-mediated recruitment into chromatin, and CIN gene transcription. In response to …


Biotic Interactions Vary Across Species' Ranges And Are Likely Conserved Through Geological Time, Iulian Gherghel, Ryan Andrew Martin Jan 2024

Biotic Interactions Vary Across Species' Ranges And Are Likely Conserved Through Geological Time, Iulian Gherghel, Ryan Andrew Martin

Faculty Scholarship

Aim: The evolutionary interactions between western spadefoot toads (genus Spea) represent a textbook example of character displacement, facilitated by dietary specialization of one Spea species on fairy shrimp (Anostraca) when all three co-occur. The aim of this study is to understand the covariation between predator (Spea) and prey (Anostraca) range shifts in response to climate change oscillations, and whether biotic interactions can be used to project species distribution models on different time scales when studying species with dietary specialization. Taxon: Amphibia: Spea spp. and Crustacea: Anostraca. Location: North America. Methods: Using multiple modelling techniques, we first estimated the potential distribution …


Modeling Methyl-Sensitive Transcription Factor Motifs With An Expanded Epigenetic Alphabet, Coby Viner, Charles A Ishak, James Johnson, Nicolas J Walker, Hui Shi, Marcela K Sjöberg-Herrera, Shu Yi Shen, Santana M Lardo, David J Adams, Anne C Ferguson-Smith, Daniel D De Carvalho, Sarah J Hainer, Timothy L Bailey, Michael M Hoffman Jan 2024

Modeling Methyl-Sensitive Transcription Factor Motifs With An Expanded Epigenetic Alphabet, Coby Viner, Charles A Ishak, James Johnson, Nicolas J Walker, Hui Shi, Marcela K Sjöberg-Herrera, Shu Yi Shen, Santana M Lardo, David J Adams, Anne C Ferguson-Smith, Daniel D De Carvalho, Sarah J Hainer, Timothy L Bailey, Michael M Hoffman

Faculty, Staff and Student Publications

BACKGROUND: Transcription factors bind DNA in specific sequence contexts. In addition to distinguishing one nucleobase from another, some transcription factors can distinguish between unmodified and modified bases. Current models of transcription factor binding tend not to take DNA modifications into account, while the recent few that do often have limitations. This makes a comprehensive and accurate profiling of transcription factor affinities difficult.

RESULTS: Here, we develop methods to identify transcription factor binding sites in modified DNA. Our models expand the standard A/C/G/T DNA alphabet to include cytosine modifications. We develop Cytomod to create modified genomic sequences and we also enhance …


Naturally Derived Phenethyl Isothiocyanate Modulates Induction Of Oxidative Stress Via Its N-Acetylated Cysteine Conjugated Form In Malignant Melanoma, Sotiris Kyriakou, Nikoletta Demosthenous, Tom Amery, Kyle J. Stewart, Paul G. Winyard, Rodrigo Franco, Aglaia Pappa, Mihalis I. Panayiotidis Jan 2024

Naturally Derived Phenethyl Isothiocyanate Modulates Induction Of Oxidative Stress Via Its N-Acetylated Cysteine Conjugated Form In Malignant Melanoma, Sotiris Kyriakou, Nikoletta Demosthenous, Tom Amery, Kyle J. Stewart, Paul G. Winyard, Rodrigo Franco, Aglaia Pappa, Mihalis I. Panayiotidis

School of Veterinary and Biomedical Sciences: Faculty Publications

Phenethyl isothiocyanate (PEITC) is a secondary metabolic product yielded upon the hydrolysis of gluconasturtiin and it is highly accumulated in the flowers of watercress. The aim of the current study was to assess the role of a naturally derived PEITC-enriched extract in the induction of oxidative stress and to evaluate its anti-melanoma potency through the regulation of its metabolism with the concurrent production of the N-acetyl cysteine conjugated by-product. For this purpose, an in vitro melanoma model was utilized consisting of human primary (A375) cells as well as metastatic (COLO-679) malignant melanoma cells together with non-tumorigenic immortalized keratinocytes (HaCaT). …


Enhancing Estimation Of Cover Crop Biomass Using Field-Based High-Throughput Phenotyping And Machine Learning Models, Geng Bai, Katja Koehler-Cole, David Scoby, Vesh R. Thapa, Andrea D. Basche, Yufeng Ge Jan 2024

Enhancing Estimation Of Cover Crop Biomass Using Field-Based High-Throughput Phenotyping And Machine Learning Models, Geng Bai, Katja Koehler-Cole, David Scoby, Vesh R. Thapa, Andrea D. Basche, Yufeng Ge

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Incorporating cover crops into cropping systems offers numerous potential benefits, including the reduction of soil erosion, suppression of weeds, decreased nitrogen requirements for subsequent crops, and increased carbon sequestration. The aboveground biomass (AGB) of cover crops strongly influences their performance in delivering these benefits. Despite the significance of AGB, a comprehensive field-based high-throughput phenotyping study to quantify AGB of multiple cover crops in the U.S. Midwest has not been found. This study presents a two-year field experiment carried out in Eastern Nebraska, USA, to estimate AGB of five different cover crop species [canola (Brassica napus L.), rye (Secale …


Mobile Augmented Reality Framework In Stem Education: A Systematic Literature Review, Danakorn Nincarean Eh Phon, Nur Fatin Razlieya Binti Mohd Razali Jan 2024

Mobile Augmented Reality Framework In Stem Education: A Systematic Literature Review, Danakorn Nincarean Eh Phon, Nur Fatin Razlieya Binti Mohd Razali

Iraqi Journal for Computer Science and Mathematics

There is a growing concern with preparing a sufficient numberof highly qualified professional in areas of Science, Technology, Engineering and Mathematics (STEM). However, the number of students to reach proficiency and pursue in STEM majors seems to be decreasing. Augmented Reality (AR) is one of the evolving technologies that have potential and effect on learning, especially in STEM education. The aim of this paper is to review and analyzeexisting works that are related to AR in STEM Education. In this study, the common design elements, components or features fordesigning educational AR framework in STEM education were analyzed. This paper determined …


Automatic Temperature Control System Using African Vultures Optimization Algorithm, Mostafa Abdulghafoor Mohammed, Muntadher Khamees, Dina Hassan Abbas Jan 2024

Automatic Temperature Control System Using African Vultures Optimization Algorithm, Mostafa Abdulghafoor Mohammed, Muntadher Khamees, Dina Hassan Abbas

Iraqi Journal for Computer Science and Mathematics

One of the most important tasks in control engineering is tuning a PID controller for maximum efficiency. However, without a great deal of practice, manual adjustment of PID settings might result in erroneous results. Using met heuristic algorithms is one method for tweaking the PID controller. These algorithms, which are inspired bythe laws of nature, can effectively find the sweet spot for the PID settings. Therefore, instead of manually tweaking the PID controller, using met heuristic methods can greatly enhance the system's performance while decreasing the related expenses. A reliable temperature control system is crucial to the production of a …


Enhanced Cancer Subclassification Using Multi-Omics Clustering And Quantum Cat Swarm Optimization, Mazin Abed Mohammed, Ali Mahmoud Ali Jan 2024

Enhanced Cancer Subclassification Using Multi-Omics Clustering And Quantum Cat Swarm Optimization, Mazin Abed Mohammed, Ali Mahmoud Ali

Iraqi Journal for Computer Science and Mathematics

Integrating multiple omics data can significantly improve the accuracy of cancer subclassification, a challenging task due to the high dimensionality and limited sample sizes. The integration of these data sets can enhance model performance. This study addresses these challenges by employing Quantum Cat Swarm Optimization (QCSO) for feature selection, along with K-means clustering and Support Vector Machine (SVM) for classification. Using QCSO, the most significant features were identified, resulting in an increase in accuracy from 81% to100%. Performance was evaluated using accuracy, F1-score, precision, recall, ROC, and the silhouette metric, all of which confirmed the effectiveness of the feature selection …


Low-Level Resource Partitioning Supports Coexistence Among Functionally Redundant Bacteria During Successional Dynamics, Xiaoqian Annie Yu, Craig Mclean, Jan-Hendrik Hehemann, David Angeles-Albores, Fuqing Wu, Artur Muszyński, Christopher H Corzett, Parastoo Azadi, Elizabeth B Kujawinski, Eric J Alm, Martin F Polz Jan 2024

Low-Level Resource Partitioning Supports Coexistence Among Functionally Redundant Bacteria During Successional Dynamics, Xiaoqian Annie Yu, Craig Mclean, Jan-Hendrik Hehemann, David Angeles-Albores, Fuqing Wu, Artur Muszyński, Christopher H Corzett, Parastoo Azadi, Elizabeth B Kujawinski, Eric J Alm, Martin F Polz

Faculty, Staff and Student Publications

Members of microbial communities can substantially overlap in substrate use. However, what enables functionally redundant microorganisms to coassemble or even stably coexist remains poorly understood. Here, we show that during unstable successional dynamics on complex, natural organic matter, functionally redundant bacteria can coexist by partitioning low-concentration substrates even though they compete for one simple, dominant substrate. We allowed ocean microbial communities to self-assemble on leachates of the brown seaweed Fucus vesiculosus and then analyzed the competition among 10 taxonomically diverse isolates representing two distinct stages of the succession. All, but two isolates, exhibited an average of 90% ± 6% pairwise …


Effects Of Centella Asiatica (L) Urb. On Cognitive Function In Hypothyroid Mice Offspring, Miski A. Khairinisa, Mohammed Alfaqeeh, Vinda M. Patricia Jan 2024

Effects Of Centella Asiatica (L) Urb. On Cognitive Function In Hypothyroid Mice Offspring, Miski A. Khairinisa, Mohammed Alfaqeeh, Vinda M. Patricia

Pharmacology and Clinical Pharmacy Research

Centella asiatica (C. asiatica) is widely used in traditional medicine due to its numerous health benefits. Among its reputed advantages are improved memory, intelligence, and neural protection. Impairment of cognitive function as a center for memory processing occurs due to perinatal hypothyroidism. Although several studies have shown that C. asiatica extract may improve memory function, the effectiveness of its extract as a memory enhancer for patients with perinatal hypothyroid is less unknown. Therefore, this study aimed to determine the effects of ethanol extract of C. asiatica (EEC) leaf as a memory enhancer in perinatal hypothyroid mice model. C. asiatica leaves …


Kratom (Mitragyna Speciosa) Leaf Ethanol Extract Showed In Vivo Analgesic Activity, Rahmad A. Prasetya, Tri P. L Sidarwati Jan 2024

Kratom (Mitragyna Speciosa) Leaf Ethanol Extract Showed In Vivo Analgesic Activity, Rahmad A. Prasetya, Tri P. L Sidarwati

Pharmacology and Clinical Pharmacy Research

Analgesic drugs like morphine and other opioids exhibit several harmful effects. Thus, the exploration of a new and safer analgesic drug is necessary. Utilizing Indonesia's biodiversity richness, medicinal plants can serve as an alternative source of novel analgesic drugs. Here, we show the analgesic activity of Kratom (Mitragyna speciosa) leaf ethanol extract (KE) in formaldehyde-induced rat (Rattus norvegicus) models. The effect of KE was examined by observing the duration of spontaneous nociceptive behavior such as paw licking or limp leg. The result showed that rats treated with 70 mg/kg KE demonstrated significantly (p<0.01) decreased nociceptive behavior compared to those receiving vehicles. However, a higher KE dose (210 mg/kg) failed to increase the analgesic effect and showed a slight reduction (not significant) compared to the control group. These findings proved that kratom leaf ethanol extract has the potential to alleviate painful conditions.


Usability Of Mhealth In Patient With Type 1 And Type 2 Diabetes Mellitus: A Review, Andhara M. Belinda, Tiana Milanda Jan 2024

Usability Of Mhealth In Patient With Type 1 And Type 2 Diabetes Mellitus: A Review, Andhara M. Belinda, Tiana Milanda

Pharmacology and Clinical Pharmacy Research

Diabetes mellitus (DM) is a group of metabolic illnesses identified by elevated blood glucose levels. The glycated hemoglobin (HbA1C) test is used to evaluate a person’s control of their blood glucose levels. According to a recent study, mHealth interventions may be particularly helpful for assisting patients with diabetes mellitus to self-monitor their status on their HbA1c level. Therefore, this systematic review aims to provide an overview of how mHealth affects individuals with diabetes mellitus, concentrating on HbA1c evaluation. A systematic review was conducted by reviewing the PubMed, Google Scholar, and Mendeley databases for randomized control trials published between February 2017 …