Physical Sciences and Mathematics | Open Access Articles

Mgrre_Thinsections_Mgrre-23_17, Mgrre

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Mgrre_Thinsections_Mgrre-23_9, Mgrre

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Mgrre_Thinsections_Mgrre-23_18, Mgrre

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Mgrre_Thinsections_Mgrre-23_19, Mgrre

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Mgrre_Thinsections_Mgrre-23_22, Mgrre

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Mgrre_Thinsections_Mgrre-23_23, Mgrre

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Vimentin Intermediate Filaments Mediate Cell Morphology On Viscoelastic Substrates, Maxx Swoger, Sarthak Gupta, Elisabeth E. Charrier, Michael Bates, Heidi Hehnly, Alison E. Patteson

Physics - All Scholarship

The ability of cells to take and change shape is a fundamental feature underlying development, wound repair, and tissue maintenance. Central to this process is physical and signaling interactions between the three cytoskeletal polymeric networks: F-actin, microtubules, and intermediate filaments (IFs). Vimentin is an IF protein that is essential to the mechanical resilience of cells and regulates cross-talk among the cytoskeleton, but its role in how cells sense and respond to the surrounding extracellular matrix is largely unclear. To investigate vimentin’s role in substrate sensing, we designed polyacrylamide hydrogels that mimic the elastic and viscoelastic nature of in vivo tissues. …

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Mgrre_Thinsections_Mgrre-23_25, Mgrre

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Mgrre_Thinsections_Mgrre-23_7, Mgrre

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Mgrre_Thinsections_Mgrre-23_11, Mgrre

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Mgrre_Thinsections_Mgrre-23_15, Mgrre

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Mgrre_Thinsections_Mgrre-23_4, Mgrre

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Mgrre_Thinsections_Mgrre-23_21, Mgrre

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Mgrre_Thinsections_Mgrre-23_5, Mgrre

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Mgrre_Thinsections_Mgrre-23_1, Mgrre

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Mgrre_Thinsections_Mgrre-23_24, Mgrre

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Lncrnafunc: A Knowledgebase Of Lncrna Function In Human Cancer, Pora Kim, Xiaobo Zhou

Faculty, Staff and Student Publications

The long non-coding RNAs associating with other molecules can coordinate several physiological processes and their dysfunction can impact diverse human diseases. To date, systematic and intensive annotations on diverse interaction regulations of lncRNAs in human cancer were not available. Here, we built lncRNAfunc, a knowledgebase of lncRNA function in human cancer at https://ccsm.uth.edu/lncRNAfunc, aiming to provide a resource and reference for providing therapeutically targetable lncRNAs and intensive interaction regulations. To do this, we collected 15 900 lncRNAs across 33 cancer types from TCGA. For individual lncRNAs, we performed multiple interaction analyses of different biomolecules including DNA, RNA, and protein levels. …

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Fusiongdb 20: Fusion Gene Annotation Updates Aided By Deep Learning, Hyesoo Jung, Himanshu Kumar, Xiaobo Zhou

Faculty, Staff and Student Publications

A knowledgebase of the systematic functional annotation of fusion genes is critical for understanding genomic breakage context and developing therapeutic strategies. FusionGDB is a unique functional annotation database of human fusion genes and has been widely used for studies with diverse aims. In this study, we report fusion gene annotation updates aided by deep learning (FusionGDB 2.0) available at https://compbio.uth.edu/FusionGDB2/. FusionGDB 2.0 has substantial updates of contents such as up-to-date human fusion genes, fusion gene breakage tendency score with FusionAI deep learning model based on 20 kb DNA sequence around BP, investigation of overlapping between fusion breakpoints with 44 human …

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Grassland Landscape Design: Working With Land-Managers, C. J. Pearson, R. K. Mann, I. G. Mann

IGC Proceedings (1977-2023)

We are entering an era of landscape design in order to simultaneously tackle largescale issues such as salinity and rising water tables, whole-farm profitability and the maintenance or enhancement of rural communities. In Australia, an important element of landscape design will be the reintroduction or broadening of the base of perennial grasses within farm systems. The goal of this project was to accelerate awareness and adoption of perennial grasses in a large but ecologically-specific area, namely the already-cleared steep uplands in the high rainfall recharge areas of the Murray-Darling Basin. We used a participatory model, in which land-managers made monthly …

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Results With Methods For Measuring Herbage Mass In Situ, G. Nagy, I. Vinczeffy, K. Petõ

IGC Proceedings (1977-2023)

Two indirect methods for estimating herbage mass in situ were investigated in a research programme. Electric capacitance and spectral reflectance measurements were made and estimated values were compared with cut herbage mass results. Vegetation indexes (VI) measured by spectroradiometer showed a high correlation with fresh herbage mass, but there was no correlation observed between VI and dry matter results. Equations installed in electric capacitance meter were not feasible for Hungarian conditions. The change of electric capacitance in the sward (CMR) gave no correlation with cut DM yields. The investigated indirect methods are not suitable for research or production use yet.

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Application Of Municipal Biosolids To Bahiagrass Pasture: Trace Metals In Harvested Forage, R. M. Muchovej, J. E. Rechcigl

IGC Proceedings (1977-2023)

Municipal biosolids (sewage sludge) are the by-products of wastewater treatment plants and their production, worldwide, has steadily increased over the past years. Florida is one of the fastest growing states in the USA. Biosolids are readily and increasingly available throughout the state. Pasture fertilization has been shown to increase biomass and quality of bahiagrass (Paspalum notatum Flugge) dramatically in Florida sandy soils. Nevertheless, with low cattle prices, ranchers are forced to reduce fertilizers inputs. Biosolids contain considerable amounts of nutrients, especially nitrogen (N), phosphorus (P), sulphur (S), calcium (Ca), and micronutrients, and are inexpensive when compared with commercial fertilizers. …

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Rangelands Vegetation Mapping At Species Composition Level Using The Spicla Method: SDm Based PiXel ClaSsification And Fuzzy Accuracy. A New Approach Of Map Making, A. G. Toxopeus, C. A. J. M. De Bie, E. H. Kloosterman, J. K. Mbaluka, P. K. Mwangi, L. G. J. Boerboom

IGC Proceedings (1977-2023)

Vegetation maps have been made since centuries. The vegetation cover was represented as homogeneous mapping units (polygons), representing different vegetation types, where each type consists a combination of different plant species (floristic composition). More recent, with the use of satellite imagery, the polygons have been replaced by pixels with similar content as the polygon maps. In both approaches, field-observations were linked to the mapping units (polygons or pixels) often resulting in a complex of different vegetation types per mapping unit. In our new approach field data (sample points) on presence and abundance of individual grass species are spatially extrapolated based …

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Forensic Discoverability Of Ios Vault Applications, Alissa Gilbert, Kathryn C. Seigfried-Spellar

Journal of Digital Forensics, Security and Law

Vault Applications are used to store potentially sensitive information on a smartphone; and are available on Android and iOS. The purpose of using these applications could be used to hide potential evidence or illicit photos. After comparing five different iOS photo vaults, each vault left evidence and photos behind. However, of the three forensic toolkits used, each produced different results in their scans of the phone. The media left behind was due to the photo vaults not protecting their information as claimed, and using basic obfuscation techniques in place of security controls. Future research will look at how newer security …

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Mathematically Modeling Prey-Catching Behavior Of The Tomato Frog, Conrad Tyler, Sarah Marzen, Jenna Monroy

Spora: A Journal of Biomathematics

Many microhylid frog species, such as the tomato frog, Dyscophus sp., have demonstrated the ability to aim their tongues independently of head and jaw movements. However, a trade-off between tongue-aiming and head-only aiming exists in which the former allows for crypsis but lacks speed whereas the latter is faster but less accurate and more noticeable to prey. For frogs that can move their tongues independently of their heads, under what circumstances will they utilize each strategy, and why? We derive a model, dependent on factors relevant for prey-catching, for the probability the frog will turn its head (and not …

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Adoption And Influence: Industry Evaluation Of The GrassgroTm Decision Support Tool, E. M. Salmon, A. D. Moore

IGC Proceedings (1977-2023)

The GrassGro Decision Support tool (DS tool) (Donnelly and Moore, 1999) was released for commercial use in Australia with a training package in late 1997. An assessment of its adoption was made by a survey of 53 registered users in March 1999. An evaluation of the software and training package was made at training workshops by 92 users between 1997 and December 1999. The response rates to the survey and the evaluation were 62% and 82% respectively. Seventy six percent of survey respondents had analysed at least one problem with GrassGro and 27% had applied GrassGro to five or more …

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Digestibility Estimates Based On A Grass Growth Model Are Distributed Via Internet To Finnish Farmers, Marketta Rinne, J. Nousiainen, I. Mattila, H. Nikander, P. Huhtanen

IGC Proceedings (1977-2023)

Optimising the harvesting time of grass in primary growth is difficult under Finnish climatic conditions, because the digestibility of grass decreases on average by 0.5 percentage units daily. We constructed a model based on cumulative temperature and geographical location which estimates the digestibility of grass. This model is used to produce estimates utilising real time weather information. The estimates are presented as a map, which is revised daily. Farmers have free access to the maps via Internet.

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Reducing Tillage Affects Long-Term Yields But Not Grain Quality Of Maize, Soybeans, Oats, And Wheat Produced In Three Contrasting Farming Systems, Kirsten Ann Pearsons, Emmanuel Chiwo Omondi, Brad J. Heins, Gladis Zinati, Andrew Smith, Yichao Rui

Agricultural and Environmental Sciences Faculty Research

Reducing tillage has been widely promoted to reduce soil erosion, maintain soil health, and sustain long-term food production. The effects of reducing tillage on crop nutritional quality in organic and conventional systems, however, has not been widely explored. One possible driver of crop nutritional quality might be the changing soil nitrogen (N) availability associated with reduced tillage in various management systems. To test how reducing tillage affects crop nutritional quality under contrasting conventional and organic farming systems with varied N inputs, we measured nutritional quality (protein, fat, starch, ash, net energy, total digestible nutrients, and concentrations of Ca, K, Mg, …

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Parameter Estimation Based On Double Ranked Set Samples With Applications To Weibull Distribution, Mohamed Abd Elhamed Sabry, Hiba Zeyada Muhammed, Mostafa Shaaban, Abd El Hady Nabih

Journal of Modern Applied Statistical Methods

In this paper, the likelihood function for parameter estimation based on double ranked set sampling (DRSS) schemes is introduced. The proposed likelihood function is used for the estimation of the Weibull distribution parameters. The maximum likelihood estimators (MLEs) are investigated and compared to the corresponding ones based on simple random sampling (SRS) and ranked set sampling (RSS) schemes. A Monte Carlo simulation is conducted and the absolute relative biases, mean square errors, and efficiencies are compared for the different schemes. It is found that, the MLEs based on DRSS is more efficient than MLE using SRS and RSS for estimating …

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Radical-Initiated Brown Carbon Formation In Sunlit Carbonyl–Amine–Ammonium Sulfate Mixtures And Aqueous Aerosol Particles, Natalie G. Jimenez, Kyle D. Sharp, Tobin Gramyk, Duncan Z. Ugland, Matthew-Khoa Tran, Antonio Rojas, Michael A. Rafla, Devoun Stewart, Melissa M. Galloway, Peng Lin, Alexander Laskin, Mathieu Cazaunau, Edouard Pangui, Jean-François Doussin, David O. De Haan

Chemistry and Biochemistry: Faculty Scholarship

Brown carbon (BrC) formed from glyoxal+ammonium sulfate (AS) and methylglyoxal+AS reactions photobleaches quickly, leading to the assumption that BrC formed overnight by Maillard reactions will be rapidly destroyed at sunrise. Here, we tested this assumption by reacting glyoxal, methylglyoxal, glycolaldehyde, or hydroxyacetone in aqueous mixtures with reduced nitrogen species at pH 4–5 in the dark and in sunlight (>350 nm) for at least 10 h. The absorption of fresh carbonyl+AS mixtures decreased when exposed to sunlight, and no BrC formed, as expected from previous work. However, the addition of amines (either methylamine or glycine) allowed BrC to form in …

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Investigating The Mechanical Performance Of Nano Additives Reinforced High-Performance Concrete, Mohamed Morsy

Nanotechnology Research Centre

It is known that nanomaterials have been broadly employed worldwide as reinforcements for the production of high-strength and high mechanical performance concrete-based structures. Hereinafter, high-performance concrete (HPC) modifed with three types of additives were synthesized: exfoliated nano clay (NC), nano-silica (NS), and hybrid particles [silica fume (SF) & limestone (LS)]. The compressive, splitting tensile and ﬂexural strengths, were investigated at 28 days of hydration. The exfoliated NC was simply prepared via exfoliating the thermally activated ordinary clay with the aid of organic ammonium chloride. The results revealed that all types of the employed additives provided an augmentation in the mechanical …

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Mgrre_Thinsections_Mgrre-23_17, Mgrre

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Mgrre_Thinsections_Mgrre-23_9, Mgrre

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Mgrre_Thinsections_Mgrre-23_18, Mgrre

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Mgrre_Thinsections_Mgrre-23_19, Mgrre

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Mgrre_Thinsections_Mgrre-23_22, Mgrre

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Mgrre_Thinsections_Mgrre-23_23, Mgrre

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Vimentin Intermediate Filaments Mediate Cell Morphology On Viscoelastic Substrates, Maxx Swoger, Sarthak Gupta, Elisabeth E. Charrier, Michael Bates, Heidi Hehnly, Alison E. Patteson

Physics - All Scholarship

Mgrre_Thinsections_Mgrre-23_25, Mgrre

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Mgrre_Thinsections_Mgrre-23_7, Mgrre

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Mgrre_Thinsections_Mgrre-23_11, Mgrre

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Mgrre_Thinsections_Mgrre-23_15, Mgrre

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Mgrre_Thinsections_Mgrre-23_4, Mgrre

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Mgrre_Thinsections_Mgrre-23_21, Mgrre

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Mgrre_Thinsections_Mgrre-23_5, Mgrre

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Mgrre_Thinsections_Mgrre-23_1, Mgrre

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Mgrre_Thinsections_Mgrre-23_24, Mgrre

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Lncrnafunc: A Knowledgebase Of Lncrna Function In Human Cancer, Pora Kim, Xiaobo Zhou

Faculty, Staff and Student Publications

Fusiongdb 20: Fusion Gene Annotation Updates Aided By Deep Learning, Hyesoo Jung, Himanshu Kumar, Xiaobo Zhou

Faculty, Staff and Student Publications

Grassland Landscape Design: Working With Land-Managers, C. J. Pearson, R. K. Mann, I. G. Mann

IGC Proceedings (1977-2023)

Results With Methods For Measuring Herbage Mass In Situ, G. Nagy, I. Vinczeffy, K. Petõ

IGC Proceedings (1977-2023)

Application Of Municipal Biosolids To Bahiagrass Pasture: Trace Metals In Harvested Forage, R. M. Muchovej, J. E. Rechcigl

IGC Proceedings (1977-2023)

Rangelands Vegetation Mapping At Species Composition Level Using The Spicla Method: SDm Based PiXel ClaSsification And Fuzzy Accuracy. A New Approach Of Map Making, A. G. Toxopeus, C. A. J. M. De Bie, E. H. Kloosterman, J. K. Mbaluka, P. K. Mwangi, L. G. J. Boerboom

IGC Proceedings (1977-2023)

Forensic Discoverability Of Ios Vault Applications, Alissa Gilbert, Kathryn C. Seigfried-Spellar

Journal of Digital Forensics, Security and Law

Mathematically Modeling Prey-Catching Behavior Of The Tomato Frog, Conrad Tyler, Sarah Marzen, Jenna Monroy

Spora: A Journal of Biomathematics

Adoption And Influence: Industry Evaluation Of The GrassgroTm Decision Support Tool, E. M. Salmon, A. D. Moore

IGC Proceedings (1977-2023)

Digestibility Estimates Based On A Grass Growth Model Are Distributed Via Internet To Finnish Farmers, Marketta Rinne, J. Nousiainen, I. Mattila, H. Nikander, P. Huhtanen

IGC Proceedings (1977-2023)

Reducing Tillage Affects Long-Term Yields But Not Grain Quality Of Maize, Soybeans, Oats, And Wheat Produced In Three Contrasting Farming Systems, Kirsten Ann Pearsons, Emmanuel Chiwo Omondi, Brad J. Heins, Gladis Zinati, Andrew Smith, Yichao Rui

Agricultural and Environmental Sciences Faculty Research

Parameter Estimation Based On Double Ranked Set Samples With Applications To Weibull Distribution, Mohamed Abd Elhamed Sabry, Hiba Zeyada Muhammed, Mostafa Shaaban, Abd El Hady Nabih

Journal of Modern Applied Statistical Methods

Chemistry and Biochemistry: Faculty Scholarship

Investigating The Mechanical Performance Of Nano Additives Reinforced High-Performance Concrete, Mohamed Morsy

Nanotechnology Research Centre