Dfhic: A Dilated Full Convolution Model To Enhance The Resolution Of Hi-C Data, Bin Wang, Kun Liu, Yaohang Li, Jianxin Wang

Computer Science Faculty Publications

Motivation: Hi-C technology has been the most widely used chromosome conformation capture(3C) experiment that measures the frequency of all paired interactions in the entire genome, which is a powerful tool for studying the 3D structure of the genome. The fineness of the constructed genome structure depends on the resolution of Hi-C data. However, due to the fact that high-resolution Hi-C data require deep sequencing and thus high experimental cost, most available Hi-C data are in low-resolution. Hence, it is essential to enhance the quality of Hi-C data by developing the effective computational methods.

Results: In this work, we propose …

Effects Of Power Stations Emissions On Air Quality In Kuwait, Abdullah F.M. Al-Rukaibi, I. G. Rashed, M.M. El-Halwany, O. Hamed

Mansoura Engineering Journal

The research describes the Gaussian plume model used to estimate the concentration of pollutants emitted from power plants and dispersed in the atmosphere. The object of the research is to compare the air quality between areas which is near to source station and away from the source station. The research estimates the concentrations of pollutants released from six electric power stations in Kuwait using the Gaussian plume model. A power plant with a stack height of 100 m, stack diameter of 2 m, and an emission rate of 1 kg/s for each station is considered. The Pasquill-Gifford stability categories are …

Long-Range Aceo Phenomena In Microfluidic Channel, Diganta Dutta, Keifer Smith, Xavier Palmer

Electrical & Computer Engineering Faculty Publications

Microfluidic devices are increasingly utilized in numerous industries, including that of medicine, for their abilities to pump and mix fluid at a microscale. Within these devices, microchannels paired with microelectrodes enable the mixing and transportation of ionized fluid. The ionization process charges the microchannel and manipulates the fluid with an electric field. Although complex in operation at the microscale, microchannels within microfluidic devices are easy to produce and economical. This paper uses simulations to convey helpful insights into the analysis of electrokinetic microfluidic device phenomena. The simulations in this paper use the Navier–Stokes and Poisson Nernst–Planck equations solved using COMSOL …

Economic And Input-Use Efficiency Of Nitrogen Management Techniques In Non-Irrigated Maize Production, Katie J. Bathke

Honors Program: Senior Projects (Public)

The efficiency of nitrogen (N) management has become a main concern in agricultural cropping systems for understanding the optimal N rate to help producers improve economically and reduce the exhaustion of natural resources environmentally. Nitrogen rates vary both temporally and spatially by the interactions of the soil environment and rainfall through a growing season. Thus, a site-specific approach can further optimize this variability with the understanding of the role soil variability plays in the N rate applied to a non-irrigated field. The objective of this study was to evaluate the various nitrogen treatments for their nutrient use efficiency and economic …

A Single-Cell Atlas Of Bovine Skeletal Muscle Reveals Mechanisms Regulating Intramuscular Adipogenesis And Fibrogenesis, Leshan Wang, Peidong Gao, Chaoyang Li, Qianglin Liu, Zeyang Yao, Yuxia Li, Xujia Zhang, Jiangwen Sun, Constantine Simintiras, Matthew Welborn, Kenneth Mcmillin, Stephanie Oprescu, Shihuan Kuang, Xing Fu

Computer Science Faculty Publications

Background

Intramuscular fat (IMF) and intramuscular connective tissue (IMC) are often seen in human myopathies and are central to beef quality. The mechanisms regulating their accumulation remain poorly understood. Here, we explored the possibility of using beef cattle as a novel model for mechanistic studies of intramuscular adipogenesis and fibrogenesis.

Methods

Skeletal muscle single-cell RNAseq was performed on three cattle breeds, including Wagyu (high IMF), Brahman (abundant IMC but scarce IMF), and Wagyu/Brahman cross. Sophisticated bioinformatics analyses, including clustering analysis, gene set enrichment analyses, gene regulatory network construction, RNA velocity, pseudotime analysis, and cell-cell communication analysis, were performed to elucidate …

On Evaluation Of The Indian Standard Topography Factor For Design Wind Speed On Escarpments, Abdul Haseeb Wani, Rajendra Kumar Varma, Ashok Kumar Ahuja

ASEAN Journal on Science and Technology for Development

Standards on wind loads of various countries give wind loading map of respective country in which basic wind speeds are mentioned. Design wind speeds for designing buildings and other structures are evaluated by the structural designers from these basic wind speed values by incorporating many factors. One of these factors taken into consideration is for the local topography effect such as escarpments and hills. Standards on wind loads including Indian Standard give certain recommendations for the same. However, the steps involved in evaluating relevant modification factor for local topography as given in Indian Standard on Wind Loads are many. An …

Liquid Waste Treatment For Sustainable Tapioca Industry: A Comparison Between Biogas And Liquid Sugar, Lilik Sulistyowati, Novi Andareswari, Rifqi Rahmat Hidayatullah, Nurul Amri Komarudin, Yuni Yolanda

ASEAN Journal on Science and Technology for Development

There have been many studies examining the processing of tapioca wastewater. However, most studies have only researched at a laboratory scale without considering whether the treatment is appropriate. The study's purpose is to compare the processing technology of biogas and liquid sugar using technical, environmental, social, and cost-benefit analysis criteria to determine the appropriate technology to be applied. Literature study, observation, and interviews were used to determine the characteristics of each criterion. Cost-benefit analysis is calculated using the R/C Ratio. Furthermore, priority determination is carried out using the Exponential Comparison Method (MPE) using assessments from environmental and industrial experts on …

Disintegration Evaluation Of Mudrock Fragment Through Wet-Dry Cycle By Quantitative Indices, Misbahudin Misbahudin, Dian Yesy Fatimah, Elfarino Trizani

ASEAN Journal on Science and Technology for Development

The disintegration of mudrock during moisture content change caused severe cases in several engineering works in Indonesia. One interesting site is Hambalang, Bogor Regency, West Java Province. The wetting and drying cycle is the easiest and fastest test to evaluate disintegration. After undergoing the process, samples of mudrocks disintegrate into smaller fragments. This paper evaluated the characteristics of the slaked material of mudrock by quantitative indices. The mudrock evaluated in this study underwent rapid disintegration in a short period, indicated by megascopic description and quantitative indices. In addition, evolutionary disintegration up to eight cycles has the same characteristics as the …

An Unmanned Aircraft System For Marking Live Power Lines To Prevent Bird Collisions, Mattheuns D. Pretorius, Lourens Leeuwner, Kaajial Durgapersad, Constant Hoogstad, Peter Beckedahl, Michael D. Michael, Kishaylin Chetty

Human–Wildlife Interactions

Collisions with overhead power lines represent a significant cause of mortality for a number of large bird species worldwide. Certain threatened species are severely impacted by power line collisions, particularly those for which there are no other known significant threats. In South Africa, bird collisions with overhead power line cables, including collisions with phase conductors and shield wires, contribute significantly to annual threatened bird species mortalities associated with Eskom power lines. The most practical mitigation measure is to attach bird anti-collision devices as markers on the cables. Current marking methods involve installations by hand, where linemen are hoisted up to …

Ovulation Prediction Using Random Forest Algorithm On Physiological Data, Kimberly D. Laynes

UNF Graduate Theses and Dissertations

Human infertility rates are on the rise -- studies have shown that one in every four women have trouble conceiving and every year those rates are rising [Halleran22]. This trend motivates procedures such as in-vitro fertilization (IVF) and intrauterine insemination (IUI) to produce a pregnancy. Such procedures are not only intricate and expensive but also carry potential unintended consequences for women's physical and mental well-being. A more profound comprehension of the menstrual cycle and its multiple phases, particularly detecting the ovulation period itself, promotes optimized treatment outcomes and reduces associated risks. To facilitate ovulation detection, new sensing technologies built into …

Dataset For Effects Of Single-Session Practice Structure On Motor Skill Acquisition And Alpha And Beta Eeg Oscillations, Audrey Porter, Ronald V. Croce, Wayne Smith

Faculty Publications

Although it is known that practicing a motor skill updates the associated internal model, it is still unclear as to how cortical oscillations linked with the motor skill change under differing practice schedules. The current study investigated α- and β-power changes associated with motor skill acquisition. Firstly, we investigated the behavioral effects of practice on motor learning and retention during repetitive (RP) and variable (VP) practice schedules on an anticipation timing task. Secondly, we investigated changes in cortical α (10-13 HZ) and β (15-30 Hz) event-related synchronization and dyssynchronization (ERS/ERD) under RP and VP during early (EP) and late …

Development Of A Framework To Support Community-Scale Nutrient Recovery For Local Crop Fertilization And Production, Scott A. Lopez

Graduate Theses, Dissertations, and Problem Reports (ETD)

Nutrient and resource recovery (NRR) has become increasingly crucial as regions face deteriorating sanitation infrastructures, limited support, and growing environmental challenges. Implementing region-specific NRR technologies and systems could provide effective circular economy insights into addressing these challenges. Because of the multidisciplinary challenges associated with the design and implementation of NRR strategies, various government and local decision-makers need to collaborate effectively in the decision-making process. Structured decision-making (SDM) methodologies are practical when determining the most appropriate NRR strategy for nutrient-rich waste streams. However, applications of computational SDM limited because of the vast amounts of data that are needed to analyze the …

Computational Mechanisms Of Face Perception, Jinge Wang

Graduate Theses, Dissertations, and Problem Reports (ETD)

The intertwined history of artificial intelligence and neuroscience has significantly impacted their development, with AI arising from and evolving alongside neuroscience. The remarkable performance of deep learning has inspired neuroscientists to investigate and utilize artificial neural networks as computational models to address biological issues. Studying the brain and its operational mechanisms can greatly enhance our understanding of neural networks, which has crucial implications for developing efficient AI algorithms. Many of the advanced perceptual and cognitive skills of biological systems are now possible to achieve through artificial intelligence systems, which is transforming our knowledge of brain function. Thus, the need for …

Optimizing Sample Collection And Data Interpretation For Effective Wastewater-Based Epidemiology In Combined Sewer Systems, Christopher Allen Anderson

Graduate Theses, Dissertations, and Problem Reports (ETD)

COVID-19 has spurred growth in the science surrounding wastewater-based epidemiology (WBE) pertaining to the detection of severe acute respiratory virus 2 (SARS-CoV-2) in waste streams as an early warning signal for public health. However, the highly variable wastewater environment has made it difficult to standardize an approach for sampling and analysis, especially in locations using combined sewer infrastructure. This study addresses knowledge gaps of WBE via three specific aims: (1) to compare diurnal fluctuations of SARS-CoV-2 and the human fecal indicator, pepper mild mottle virus (PMMoV) in wastewater treatment plant (WWTP) influent samples collected during dry versus wet weather conditions; …

Energy Content Of Grasshoppers (Orthoptera: Acrididae) In The Diet Of Scaled Quail (Callipepla Squamata) In Southeastern New Mexico, J.L. Hunt, M.E. Grilliot, T.L. Best, C.M. Wilkerson, A.F. Huitt

Journal of the Arkansas Academy of Science

Grasshoppers (Orthoptera: Acrididae) are common insects that are important food items for many kinds of wildlife, including many species of upland game birds such as scaled quail (Callipepla squamata). We analyzed the energy content of grasshoppers obtained from the crops of scaled quail collected from plainsmesa sand-scrub in Lea and Eddy counties, New Mexico. Grasshoppers were removed from crops and dried for 48 hours at 60°C to remove moisture and standardize masses. Grasshoppers were then pulverized and analyzed for gross caloric value (i.e., energy content) in an oxygen bomb calorimeter. Energy content of grasshoppers from New Mexico averaged 19.2 J/kg …

Bioaccumulation Of Polychlorinated Biphenyl Compounds And Mercury In A Mining Impacted Aquatic Ecosystem, Michelle Bollini

Dissertations, Master's Theses and Master's Reports

The Keweenaw area continues to be influenced by the century of copper mining that ended nearly 50 years ago. This project is focused on Torch Lake, an aquatic ecosystem that has been heavily impacted by mining waste disposal. The watershed has been impaired by mine discharge and tailings, smelter and smokestack plumes, and poor waste disposal practices. The lake is listed as a Great Lakes Area of Concern with beneficial use impairments of restrictions on fish consumption and a degraded benthic community. Polychlorinated biphenyl compounds (PCBs) and methylmercury (MeHg) are persistent, bioaccumulative, and toxic substances (PBTs). These contaminants pose threats …

Eutrophication On Twin Lakes: Applying A Phosphorus Budget And Shoreline Surveys To Assess Current & Historical Lake Health, Tyler K. Lemahieu

Dissertations, Master's Theses and Master's Reports

The Twin Lakes system, a series of lakes including Lake Gerald and Lake Roland, was historically categorized as oligotrophic but is now mesotrophic having experienced cultural eutrophication. A mass balance phosphorus budget model was constructed for the Twin Lakes system in Houghton, Co. Michigan for the 2022 stratified season. Additional spatial insights were gleaned through a survey of shoreline water quality, which corroborated the model results. The lakes currently experience substantial depletion of hypolimnetic dissolved oxygen during late summer stratification. A budget reveals approximately 22% (6.6 kg) of the current 29.5 kg total phosphorus inputs to Twin Lakes (during the …

Winter Dynamics Of Storm Water Management Ponds And Winter Tolerance In Three Aquatic Plant Species, Patrick Strzalkowski

Theses and Dissertations (Comprehensive)

The vast majority of the research into the performance of stormwater management ponds (SWMPs) has been performed in warm regions or during the warmer seasons in temperate regions. It is presumed that SWMPs are inactive in the winter as any potential stormwater is trapped in snow and ice. The main goal of this thesis was to test this presumption and to study the dynamics and performance of three SWMPs during the winter. Remote water level loggers were installed into the three SWMPs and daily grab samples from the influents and effluents were taken and analyzed for total phosphorus (TP), chloride, …

Food Waste Storage Gaseous Emissions Detection And Quantification Using Infrared Spectroscopy, Ryley A. Burton-Tauzer

Cal Poly Humboldt theses and projects

A growing interest in sustainable waste management and the implementation of new policies have prompted a shift towards alternative resource recovery methods for organic waste, including food waste. To effectively assess alternative food waste treatment scenarios, it is important to evaluate the life cycle impacts associated with each scenario. The storage phase of food waste, encompassing its accumulation in kitchens, and storage in bins for collection and transportation, has been overlooked as a source of greenhouse gases in previous studies. This investigation aimed to identify the greenhouse gases emitted during the initial five-day period of low-oxygen storage. An open dynamic …

Improving The Stimulation Selectivity In The Human Cochlea By Strategic Selection Of The Current Return Electrode, Ozan Cakmak

Dissertations

The hearing quality provided by cochlear implants are poorly predicted by computer simulations. A realistic cochlear anatomy is crucial for the accuracy of predictions. In this study, the standard multipolar stimulation paradigms are revisited and Rattay’s Activating Function is evaluated in a finite element model of a realistic cochlear geometry that is based on µ-CT images and a commercial lead. The stimulation thresholds across the cochlear fibers were investigated for monopolar, bipolar, tripolar, and a novel (distant) bipolar electrode configuration using an active compartmental nerve model based on Schwartz-Eikhof-Frijns membrane dynamics. The results suggest that skipping of the stimulation point …

Ex-Ante Cost-Benefit Analysis Of High-End And Low-Cost Wireless Sensor Network (Wsn) Technology Packages For Efficient Irrigation Water Management In The Philippines, Marielle Q. Aringo, Victor B. Ella, Camille G. Martinez, Gamiello S. Pereira

Journal of Economics, Management and Agricultural Development

Four wireless sensor network (WSN) technology packages developed for efficient irrigation water management in the Philippines were subjected to ex-ante cost-benefit analysis (CBA) to assess their financial viability. The WSN technologies include high-end and low-cost wireless sensors for upland crop production with drip irrigation system and lowland crop production with alternate wetting and drying (AWD). Results showed that the high-end WSN technology packages are only viable for high-value crops such as red onion, bell pepper, and hot pepper. The low-cost WSN technology packages are viable for all selected crops except sweet corn. Minimum areas were also generated for each crop …

Angiogenic Supports For Microvascular Engineering, Zain Siddiqui

Dissertations

Ischemic tissue disease is caused by a lack of circulation / blood supply to tissue. This can be treated by introducing a number of angiogenic (pro-blood vessel forming) factors into the tissue. This work presents strategies for ischemic tissue treatment utilizing a novel proangiogenic self-assembling peptide hydrogel platform. To demonstrate the utility of this platform, its use alone as an angiogenic therapeutic (both alone as a self-assembling hydrogel and with two-component systems), and its ability to vascularize implants is explored. Due to these angiogenic scaffolds demonstrating efficacy to regenerate microvasculature, this work evaluates diseases that can be treated by the …

Urban Farming: Empowerment To Increase Economic, Education, And Nutritional Benefit For The Sub-Urban Community, Nasruddin Nasruddin, Yusuf Donner Dwiyantama, Banu Muhammad, Anom Bowalaksono, Dian Ayubi, Sarah Islamiati Pertiwi

ASEAN Journal of Community Engagement

This article discusses the urban farming program at Sekolah Master in Beji, Depok, Indonesia, which aims to provide the community with broader benefits, such as economy, education, and increased nutritional value. The project involves planting method that was introduced to this school community. The program itself consists of several stages, starting from the preparation—dissemination of the program and designing a plan for the greenhouse, the implementation—constructing the greenhouse and installing the automatic water system, planting the vegetation, and monitoring and evaluation of the program. Eventually, an evaluation of the successful program is required to determine whether the program can be …

Isolation And Characterization Of Cellulose Degrading Microorganisms Generating Electricity Using Microbial Fuel Cell, Lama Fayad, Rania Amer, Ahmad Abd El Nabi, Ali Hammoud, Hoda Yusef

BAU Journal - Science and Technology

Global warming and the accumulation of organic waste constitute a serious environmental problem. Therefore, microbial fuel cells (MFC) are an eco-friendly device that have significant capability for the production of electricity using biodegradable waste as fuel. Microorganisms used as catalysts in the anode compartment, execute a principal function in operating MFCs. The present study was conducted to isolate and to screen potential bioelectricity generating microorganisms from dumpsite soil samples and also to construct a domestic dual-chambered microbial fuel cell (MFC). Streptomyces fimicarius was found to be the best isolate for the degradation of cellulose and the production of bioelectricity. The …

Multipolymer Microsphere Delivery Of Sars-Cov-2 Antigens, Farah Shahjin, Milankumar Patel, Jatin Machhi, Jacob D. Cohen, Mohammad Ullah Nayan, Pravin Yeapuri, Chen Zhang, Emiko Waight, Mahmudul Hasan, Mai Mohamed Abdelmoaty, Prasanta K. Dash, You Zhou, Irene Andreu, Howard E. Gendelman, Bhavesh D. Kevadiya

Nebraska Center for Biotechnology: Faculty and Staff Publications

Effective antigen delivery facilitates antiviral vaccine success defined by effective immune protective re- sponses against viral exposures. To improve severe acute respiratory syndrome coronavirus-2 (SARS-CoV- 2) antigen delivery, a controlled biodegradable, stable, biocompatible, and nontoxic polymeric micro- sphere system was developed for chemically inactivated viral proteins. SARS-CoV-2 proteins encapsulated in polymeric microspheres induced robust antiviral immunity. The viral antigen-loaded microsphere sys- tem can preclude the need for repeat administrations, highlighting its potential as an effective vaccine.

A Review On Nanomaterials And Nanohybrids Based Bio-Nanocomposites For Food Packaging, Kalpani Y. Perera, Amit K. Jaiswal, Swarna Jaiswal

Articles

With an increasing demand for a novel, eco-friendly, high-performance packaging material “bio-nanocomposites” has attracted great attention in recent years. The review article aims at to evaluating recent innovation in bio-nanocomposites for food packaging applications. The current trends and research over the last three years of the various bio-nanocomposites including inorganic, organic nanomaterials, and nanohybrids, which are suitable as food packaging materials due to their advanced properties such as high mechanical, thermal, barrier, antimicrobial, and antioxidant are described in detail. In addition, the legislation, migration studies, and SWOT analysis on bio-nanocomposite film have been discussed. It has been observed that the …

Weakly-Supervised Learning Method For The Recognition Of Potato Leaf Diseases, Junde Chen, Xiaofang Deng, Yuxin Wen, Weirong Chen, Adnan Zeb, Defu Zhang

Engineering Faculty Articles and Research

As a crucial food crop, potatoes are highly consumed worldwide, while they are also susceptible to being infected by diverse diseases. Early detection and diagnosis can prevent the epidemic of plant diseases and raise crop yields. To this end, this study proposed a weakly-supervised learning approach for the identification of potato plant diseases. The foundation network was applied with the lightweight MobileNet V2, and to enhance the learning ability for minute lesion features, we modified the existing MobileNet-V2 architecture using the fine-tuning approach conducted by transfer learning. Then, the atrous convolution along with the SPP module was embedded into the …

Chitosan Oligosaccharides As A Nanomaterial Platform: Biological Properties And Applications In The Biomedical And Pharmaceutical Fields, Muhamad Alif Razi

Makara Journal of Science

Chitosan oligosaccharides (COS) have been introduced as marine-derived biomaterials with potential health benefits and good water solubility properties. This study presents an overview of the promising nanomaterial platform for biomedical and pharmaceutical applications of COS. The health benefits of COS, primarily their antioxidant and protective effects, anti-inflammatory activity, antidiabetic properties, and cholesterol-lowering effects are discussed. Furthermore, the promising recent articles on specific topics such as drug delivery systems and nanobiomaterials, are highlighted

Aplikasi Kalium Klorida Pada Dosis Yang Berbeda Secara Fertigasi Tetes Untuk Meningkatkan Pertumbuhan Dan Hasil Bawang Merah, Alfu Laila, Nur Iman Muztahidin, Dwiki Radinal, Andi Apriany Fatmawaty, Nuniek Hermita

Jurnal Kultivasi

Budidaya bawang merah (Allium cepa L.) di Provinsi Banten terhambat oleh masalah kekurangan air karena diusahakan di lahan kering. Oleh karena hal tersebut, kami mengevaluasi pengaruh pemberian kalium klorida (KCl) melalui fertigasi tetes untuk efisiensi penggunaan air dan nutrisi pada budidaya bawang merah di lahan kering Banten. Penelitian polybag dilaksanakan dengan rancangan acak kelompok lengkap (RAKL) dengan 4 ulangan sebagai blok. Perlakuan terdiri dari dosis KCl dengan system fertigasi tetes yakni 50, 75, 100, 125 dan 150% dari dosis rekomendasi KCl untuk Provinsi Banten dan aplikasi KCl dengan sistem irigasi konvensional sesuai dosis rekomendasi sebagai kontrol. Hasil penelitian menunjukkan bahwa …

Indicadores De Sustentabilidad Vba Mesmis, Geovanny Andres Martinez Jimenez

Ciencias Administrativas, Económicas y Contables

El presente libro se ha diseñado con el propósito de que el lector tenga una experiencia satisfactoria al momento de emplear los indicadores VBA MESMIS. Por tanto, el documento se estructura de manera minuciosa en dos apartados; el primero que trata acerca de los criterios de diagnóstico, en el que se plantea un ejemplo con información de tres unidades productivas, con el fin de i) desarrollar los indicadores correspondientes a los criterios; ii) conocer el nivel de desempeño de los indicadores; iii) realizar un análisis general y proponer recomendaciones para el fortalecimiento de la sustentabilidad de las unidades productivas; en …