Physical Sciences and Mathematics Commons^™

Machine Learning Algorithms For Molecular Signature Identification With High-Throughput Genome Sequencing Data, Jiao Sun

Electronic Theses and Dissertations, 2020-2023

Powered by the high-throughput genomic technologies, the RNA sequencing (RNA-Seq) method is capable of measuring transcriptome-wide mRNA expressions and molecular activities in cells. Elucidation of gene expressions at the isoform resolution enables the detection of better molecular signatures for phenotype prediction, and the identified biomarkers may provide insights into the functional consequences of disease. This dissertation research focuses on developing advanced machine learning algorithms for mining large-scale RNA-Seq data in cancer transcriptome analysis. A platform-integrated model for transcript quantification (IntMTQ) is developed to improve the performance of RNA-Seq on isoform expression estimation. IntMTQ provides more precise RNA-Seq-based isoform quantification, and …

Evolutionary History And Adaptation To Salinity In American Alligators, John Konvalina

Electronic Theses and Dissertations, 2020-2023

Stressful environments can commonly be found at the edge of a species range and may be a driver for adaption in suboptimal environments. Furthermore, the edge of a species' range can expand and contract over time, resulting in multiple independent invasions of the same stressful habitat. Elucidating population genetic structure and demographic history can aid in determining the which geologic factors impact range distributions and when climatic changes occurred driving genetic patterns observed in contemporary populations. Moreover, populations at the edge of the species range may adapt to the stressful environments that occur at the range edge and exhibit genetic …

2023 January - Tennessee Monthly Climate Report, Tennessee Climate Office, East Tennessee State University

Tennessee Climate Office Monthly Report

No abstract provided.

2022 - Tennessee Annual Climate Summary, Tennessee Climate Office, East Tennessee State University

Tennessee Climate Office Monthly Report

No abstract provided.

Crosshair Optimizer, Jason Torrence

All Master's Theses

Metaheuristic optimization algorithms are heuristics that are capable of creating a "good enough'' solution to a computationally complex problem. Algorithms in this area of study are focused on the process of exploration and exploitation: exploration of the solution space and exploitation of the results that have been found during that exploration, with most resources going toward the former half of the process. The novel Crosshair optimizer developed in this thesis seeks to take advantage of the latter, exploiting the best possible result as much as possible by directly searching the area around that best result with a stochastic approach. This …

Design, Evolution, And Evaluation Of A General Chemistry-Bridging Course, Scott A. Reid

Chemistry Faculty Research and Publications

General chemistry I/II courses are important gateway courses for a variety of STEM majors, as poor performance in these courses is often associated with lower rates of student success and retention. Much research has explored preparatory or remedial strategies to improve student outcomes. In this article, we report a different approach, which involved the development of a bridging or intervention course designed to capture students who are not or have not succeeded in general chemistry I and prepare them to retake the course in the following semester or summer. The course was initially developed as an eight-week module in the …

Using Superatomic Clusters And Charge Transfer Ligands To Control Electronic Characteristics Of Phosphorene Nanoribbons And Phosphorene Monolayer, Ryan Lambert

Theses and Dissertations

Phosphorene is a two-dimensional electron poor p-type semiconductor with high carrier mobility and great promise for applications in electronics and optoelectronics. As the main theme in this dissertation, the following work represents different investigations of various electronic properties associated with phosphorene. Most notable are the findings on charge transfer doping with metal-chalcogenide superatoms which displays novel control of the two most important properties of a semiconductor – the band gap energy and the nature of carriers. By tuning the width of the gap and p-/n-type character of conduction, we gain control over a material’s capacity to play a certain role …

Rainbow Turan Methods For Trees, Victoria Bednar

Theses and Dissertations

The rainbow Turan number, a natural extension of the well-studied traditional
Turan number, was introduced in 2007 by Keevash, Mubayi, Sudakov and Verstraete. The rainbow Tur ́an number of a graph F , ex*(n, F ), is the largest number of edges for an n vertex graph G that can be properly edge colored with no rainbow F subgraph. Chapter 1 of this dissertation gives relevant definitions and a brief history of extremal graph theory. Chapter 2 defines k-unique colorings and the related k-unique Turan number and provides preliminary results on this new variant. In Chapter 3, we explore the …

Innovations In Drop Shape Analysis Using Deep Learning And Solving The Young-Laplace Equation For An Axisymmetric Pendant Drop, Andres P. Hyer

Theses and Dissertations

Axisymmetric Drop Shape Analysis (ADSA) is a technique commonly used to determine surface or interfacial tension. Applications of traditional ASDA methods to process analytical technologies are limited by computational speed and image quality. Here, we address these limitations using a novel machine learning approach to analysis. With a convolutional neural network (CNN), we were able to achieve an experimental fit precision of (+/-) 0.122 mN/m in predicting the surface tension of drop images at a rate of 1.5 ms^-1 versus 7.7 s^-1, which is more than 5,000 times faster than the traditional method. The results are validated on real images …

On The Cohomology Of Solvable Leibniz Algebras, Jorg Feldvoss, Friedrich Wagemann

University Faculty and Staff Publications

This paper is a sequel to J. Feldvoss and F. Wagemann: On Leibniz cohomology, (2021), where we mainly consider semisimple Leibniz algebras. It turns out that the analogue of the Hochschild-Serre spectral sequence for Leibniz cohomology cannot be applied to many ideals, and therefore this spectral sequence seems not to be applicable for computing the cohomology of non-semi-simple Leibniz algebras. The main idea of the present paper is to use similar tools as developed by Farnsteiner for Hochschild cohomology (see R. Farnsteiner: On the cohomology of associative algebras and Lie algebras (1987) and R. Farnsteiner: On the vanishing of homology …

Face Anti-Spoofing And Deep Learning Based Unsupervised Image Recognition Systems, Enoch Solomon

Theses and Dissertations

One of the main problems of a supervised deep learning approach is that it requires large amounts of labeled training data, which are not always easily available. This PhD dissertation addresses the above-mentioned problem by using a novel unsupervised deep learning face verification system called UFace, that does not require labeled training data as it automatically, in an unsupervised way, generates training data from even a relatively small size of data. The method starts by selecting, in unsupervised way, k-most similar and k-most dissimilar images for a given face image. Moreover, this PhD dissertation proposes a new loss function to …

Minimal Sets, Union-Closed Families, And Frankl's Conjecture, Christopher S. Flippen

Theses and Dissertations

The most common statement of Frankl's conjecture is that for every finite family of sets closed under the union operation, there is some element which belongs to at least half of the sets in the family. Despite its apparent simplicity, Frankl's conjecture has remained open and highly researched since its first mention in 1979. In this paper, we begin by examining the history and previous attempts at solving the conjecture. Using these previous ideas, we introduce the concepts of minimal sets and minimally-generated families, some ideas related to viewing union-closed families as posets, and some constructions of families involving poset-defined …

Multimodal Emotion Analysis With Focused Attention, Siddhi Kiran Bajracharya

Dissertations and Theses

Emotion analysis, a subset of sentiment analysis, involves the study of a wide array of emotional indicators. In contrast to sentiment analysis, which restricts its focus to positive and negative sentiments, emotion analysis extends beyond these limitations to a diverse spectrum of emotional cues. Contemporary trends in emotion analysis lean toward multimodal approaches that leverage audiovisual and text modalities. However, implementing multimodal strategies introduces its own set of challenges, marked by a rise in model complexity and an expansion of parameters, thereby creating a need for a larger volume of data. This thesis responds to this challenge by proposing a …

Stability Properties Of A System Of Receptors In The Presence Of Attractive Domains, Basim Mohammed Al-Maliki

Graduate Theses, Dissertations, and Problem Reports

I use mathematical modeling to understand aspects of molecular processes in living cells. Specifically, we look at the first few steps in cell signaling. Signal initiation requires that receptors located on the cell membrane bind together to form dimers. Microscopic imaging of receptors on the cell membrane revealed that receptors tend to accumulate in small areas (clusters). Studies also show that the membrane has a complex landscape consisting of domains and barriers of various origin.

Here we study the way receptor dimerization is influenced by domains on the cell membrane. Our underlying hypothesis is that the physical and chemical properties …

Natural Fracture Evolution: Investigations Into The Middle Devonian Marcellus Shale, Appalachian Basin, Usa, Natalie Abigail Mitchell

Graduate Theses, Dissertations, and Problem Reports

Optimizing recovery from unconventional shale reservoirs has generated considerable research into optimal recovery methods through hydraulic fracturing design and shale reservoir characterization in the development of long-term hydrocarbon producers. Permeability at multiple scales from nanometer-scale pore sizes and nano-darcy permeability to completion-induced fractures defining a 100’s of meter stimulated reservoir volume plays a significant role in hydrocarbon flow during production in shale reservoirs. Preexisting cemented fractures in unconventional shale reservoirs are abundant and preferentially reactivate during induced hydraulic fracturing treatment to create necessary large-scale permeability. While previous investigations have significantly improved our knowledge of shale reservoirs, it has also highlighted …

Novel Technique In Production Of Pb (Ii)- Imprinted Polymers, Ehab Mohammed, Mostafa M. Elsheikh, Adham A. El-Zomrawy, Farag A. Ahmed

Al-Azhar Bulletin of Science

Ion imprinting techniques were used to produce ion imprinted polymer (IIP) particles for the selective removal of Pb2+ from aqueous environments. As the Templating monomers, acrylic acid, acrylic amine ligand, and Methylene Bisacrylamide crosslinker were chosen. The imprinted polymer was prepared by free radical polymerization. By leaching with 0.1 M HCl, the (Pb2+) ion was removed from the template. The polymer particles were characterized by IR spectroscopy, Thermal analysis and potentiometric analysis. The produced polymer was mechanically crushed into fine particles, assembled into a sensor probe, and linked to a bare HB graphite pencil electrode (GPE). The sensor has a …

Enhanced Adsorption Of Anionic Dyes Using Sr-Doped Zno Nanoparticles: Nonlinear Kinetics And Isotherm Studies, Mostafa H. Mohamed, Taha M. Elmorsi, H. M. Abdelbary

Al-Azhar Bulletin of Science

Using a co-precipitation process, sr-doped ZnO was prepared and demonstrated to be effective in the removal of anionic congo red dye, since its surface positive charge was increased to 17.3 mV. To investigate the surface morphology and physicochemical characteristics of Sr-doped ZnO, FTIR spectroscopy, scanning electron microscopy (SEM), elemental analysis, and point of zero charges (pHPZC) were employed. We conducted batch adsorption experiments to investigate the effects of contact time (180 minutes), pH (3.5–11), adsorbent dosage (0.5–3.0 g L−1), and temperature (288–328 K). The kinetic study was modeled using several equations, including pseudo-firstorder (PFO), pseudo-second-order (PSO), Elovich, and intra-particle diffusion …

Investigation Of Role Of Tungsten Ions On Structural And Optical Properties Of Sodium Borosilicate Germanate Glass For Optoelectronic Applications, Mohamed Mundher, Mohammed A. Farag, Ayman A. Bendary, Mohamed Y. Hassaan, Abu Bakr El-Bediwi

Al-Azhar Bulletin of Science

In the current work, the role of tungsten ions on the structural and optical properties of sodium borosilicate germinate glass with the composition [70 Na 2B4O7e15 SiO2e(15-x) (Ge2O3) e x (WO3) while, x ¼ 0,2,4, 6, 8 mol %] were studied. Fast quenching method were used to prepare the glass samples. Experimental and empirical density results confirm the amorphous nature of the prepared samples. Fourier transform infrared, FTIR, results showed N4 decreases as WO3 increases. These results suggest that the decreasing in non-bridging oxygen (NBO), back conversion BO4 to BO3, occur by the increase of WO3. Optical band gap show …

Greenhouse Gas Emissions Reduction Options For Western Australian Agriculture, Department Of Primary Industries And Regional Development, Western Australia

Climate Science Published Reports

The Western Australian (WA) Government is committed to building the climate resilience of the agriculture industry. The WA Climate Change Policy underscores this commitment to adapting to climate change and working with all sectors of the economy to achieve net zero emissions by 2050.

Achieving climate resilience requires both adaptation and the mitigation of greenhouse gas (GHG) emissions which accelerate climate change.

The Sectoral Emissions Reduction Strategies (SERS) are a core commitment of the Western Australian Climate Policy. These will provide robust and credible emissions reduction pathways across sectors for the whole of WA. Development of the SERS, announced in …

A Type-2 Fuzzy Rule-Based Model For Diagnosis Of Covid-19, İhsan Şahi̇n, Erhan Akdoğan, Mehmet Emi̇n Aktan

Turkish Journal of Electrical Engineering and Computer Sciences

In this study, a type-2 fuzzy logic-based decision support system comprising clinical examination and blood test results that health professionals can use in addition to existing methods in the diagnosis of COVID-19 has been developed. The developed system consists of three fuzzy units. The first fuzzy unit produces COVID-19 positivity as a percentage according to the respiratory rate, loss of smell, and body temperature values, and the second fuzzy unit according to the C-reactive protein, lymphocyte, and D-dimer values obtained as a result of the blood tests. In the third fuzzy unit, the COVID-19 positivity risks according to the clinical …

Transmission Network Planning For Realistic Egyptian Systems Via Encircling Prey Based Algorithms, Abdullah M. Shaheen, Ragab Elsehiemy, Mohammed Kharrich, Salah Kamel

Turkish Journal of Electrical Engineering and Computer Sciences

Transmission network planning problem (TNPP) is one of the pertinent issues of the planning activities in power systems. It aims to optimally pick out the routs, types, and number of the new installed lines to confront the expected future loading conditions. In this line, this study proposes a new economic model to the TNPP. The aim of the model is to find the optimal transmission routes at least investment and operating costs. Three recent algorithms called grey wolf optimization algorithm (GWOA), spotted hyena optimization algorithm (SHOA) and whale optimization algorithm (WOA) are developed to solve the TNPP. The concept of …

Two New Mathematical Models For Two Level Electricity Network Design With Distributed Generation, Burçi̇n Çakir Erdener, Berna Dengi̇z, Zülal Güngör, İmdat Kara

Turkish Journal of Electrical Engineering and Computer Sciences

In the new millennium, traditional electrical power systems have undergone a significant change driven by a set of requirements arising from evolving and changing technology. Thus, fundamental changes have occurred in the way electrical energy is produced, transmitted, and distributed. This situation has revealed the need to expand existing networks or to establish new networks. The available literature revealed that particular attention to the latter one is still limited due to the complexity of the power system. The purpose of this study is to contribute to the body of literature that tries to address the gap at overall design of …

Basismap: Sequence-Based Similarity Search For Geomagnetic Positioning, Tevfi̇k Kadioğlu, Burcu Erkmen

Turkish Journal of Electrical Engineering and Computer Sciences

Indoor localization has become a popular topic with the development of location-based services (LBS) and indoor navigation systems. Beside these circumstances indoor positioning has been the focus of attention for researchers as the most important component of these applications. Many signals are used as distinguishable features for indoor positioning. RF-based Wi-Fi and BLE systems are the most popular ones and these have been preferred because of their high distinguishable feature. The use of geomagnetism, a natural signal found all over the world, has also been of interest to many researchers. Geomagnetic signals being distorted in the indoor area due to …

Lvq Treatment For Zero-Shot Learning, Firat İsmai̇loğlu

Turkish Journal of Electrical Engineering and Computer Sciences

In image classification, there are no labeled training instances for some classes, which are therefore called unseen classes or test classes. To classify these classes, zero-shot learning (ZSL) was developed, which typically attempts to learn a mapping from the (visual) feature space to the semantic space in which the classes are represented by a list of semantically meaningful attributes. However, the fact that this mapping is learned without using instances of the test classes affects the performance of ZSL, which is known as the domain shift problem. In this study, we propose to apply the learning vector quantization (LVQ) algorithm …

Pro-Environmental Diversification Of Pasture-Based Dairy And Beef Production In Ireland, The United Kingdom And New Zealand: A Scoping Review Of Impacts And Challenges, Maria Markiewicz-Keszycka, Aileen Carter, Donal O'Brien, Maeve Henchion, Simon Mooney, Paul Hynds

Articles

Grass-fed dairy and beef products are valued by consumers for their unique nutrient profile, enhanced animal welfare and lower environmental footprint compared to conventional produce derived from animals reared indoors on higher volumes of concentrate feeds (O'Callaghan et al., Reference O'Callaghan, Vázquez-Fresno, Serra-Cayuela, Dong, Mandal, Hennessy, McAuliffe, Dillon, Wishart, Stanton and Ross2018; Moscovici Joubran et al., Reference Moscovici Joubran, Pierce, Garvey, Shalloo and O'Callaghan2021). For the current study, pasture-based production of dairy and beef is defined as a system within which cattle graze freely outdoors on green pasture for ≥6 months per year, using grazed grass as the primary feed …

Selection And Characterization Of Bacteriocinogenic Lactic Acid Bacteria From The Intestine Of Gilthead Seabream (Sparus Aurata) And Whiting Fish (Merlangius Merlangus): Promising Strains For Aquaculture Probiotic And Food Bio-Preservation, Sarah Cheriet, Sana Lenglitz, Amel Romdhani, Paul Hynds, Mohamed Salah Abbassi, Taofik Ghrairi

Articles

This study sought to evaluate the probiotic properties and the food preservation ability of lactic acid bacteria isolates collected from the intestines of wild marine fishes (gilthead seabream (Sparus aurata) (n = 60) and whiting fish (Merlangius merlangus) (n = 40)) from the Mediterranean sea in the area of Mostaganem city, Algeria. Forty-two isolates were identified as: Enterococcus durans (n = 19), Enterococcus faecium (n = 15), Enterococcus faecalis (n = 4), Lactococcus lactis subp. lactis (n = 3), and Lactobacillus plantarum (n = 1). All isolates showed inhibition to at least one indicator strain, especially against Listeria monocytogenes, Staphylococcus …

Sustainable Utilisation And Management Of Food Waste For High-Value Products, Amit Jaiswal

Articles

Welcome to the Special Issue on “Sustainable Utilisation and Management of Food Waste for High-Value Products”. This Special Issue focuses on one of the most critical challenges facing our world today—the efficient management and utilisation of food waste. It presents a variety of scientific investigations from renowned scholars and researchers worldwide to address this challenge, covering an array of topics ranging from fundamental research to real-world applications. Food waste is a global dilemma that requires urgent attention. According to the Food and Agriculture Organization (FAO), approximately one-third of food produced for human consumption worldwide, or around 1.3 billion tons, is …

Autodesc: Facilitating Convenient Perusal Of Web Data Items For Blind Users, Yash Prakash, Mohan Sunkara, Hae-Na Lee, Sampath Jayarathna, Vikas Ashok

Computer Science Faculty Publications

Web data items such as shopping products, classifieds, and job listings are indispensable components of most e-commerce websites. The information on the data items are typically distributed over two or more webpages, e.g., a ‘Query-Results’ page showing the summaries of the items, and ‘Details’ pages containing full information about the items. While this organization of data mitigates information overload and visual cluttering for sighted users, it however increases the interaction overhead and effort for blind users, as back-and-forth navigation between webpages using screen reader assistive technology is tedious and cumbersome. Existing usability-enhancing solutions are unable to provide adequate support in …

Intergenic Transcription In In Vivo Developed Bovine Oocytes And Pre-Implantation Embryos, Saurav Ranjitkar, Mohammad Shiri, Jiangwen Sun, Xiuchun Tian

Computer Science Faculty Publications

Background

Intergenic transcription, either failure to terminate at the transcription end site (TES), or transcription initiation at other intergenic regions, is present in cultured cells and enhanced in the presence of stressors such as viral infection. Transcription termination failure has not been characterized in natural biological samples such as pre-implantation embryos which express more than 10,000 genes and undergo drastic changes in DNA methylation.

Results

Using Automatic Readthrough Transcription Detection (ARTDeco) and data of in vivo developed bovine oocytes and embryos, we found abundant intergenic transcripts that we termed as read-outs (transcribed from 5 to 15 kb after TES) and …

Sleepmore: Inferring Sleep Duration At Scale Via Multi-Device Wifi Sensing, Camellia Zakaria, Gizem Yilmaz, Priyanka Mammen, Michael Chee, Prashant Shenoy, Rajesh Krishna Balan

Research Collection School Of Computing and Information Systems

The availability of commercial wearable trackers equipped with features to monitor sleep duration and quality has enabled more useful sleep health monitoring applications and analyses. However, much research has reported the challenge of long-term user retention in sleep monitoring through these modalities. Since modern Internet users own multiple mobile devices, our work explores the possibility of employing ubiquitous mobile devices and passive WiFi sensing techniques to predict sleep duration as the fundamental measure for complementing long-term sleep monitoring initiatives. In this paper, we propose SleepMore, an accurate and easy-to-deploy sleep-tracking approach based on machine learning over the user's WiFi network …