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Genomics And Bioinformatics Student Companion Workbook (First Edition), Na Xu, Tina Hu

Open Educational Resources

This Genomics and Bioinformatics Student Companion Workbook provides an integrated, hands-on introduction to the principles and applications of modern genomics and bioinformatics. Designed for undergraduate students, the workbook guides learners from foundational concepts of genome structure and sequencing technologies to advanced topics including variant analysis, comparative genomics, and multi-omics integration. Emphasizing the interplay between experimental biology and computational analysis, it introduces key analytical tools and biological databases that support genome interpretation and data-driven discovery.

Through a structured progression of chapters, students explore genome organization across diverse biological systems, from prokaryotes and viruses to complex eukaryotic genomes, and examine how genomic …

The Extraction And Chemical Characterization Of The Avian Pigments Turacin And Turacoverdin, Sarah R. Bekkali

Honors Scholar Theses

Bird coloration is a trait that extends beyond mere aesthetics as it has an extensive range of biological significance. Plumage patterns and hues can influence camouflage, mate choice, social dominance, and physiological performance. Bird fitness, their ability to survive and reproduce, is greatly dependent on color. Melanins, carotenoids, and pterins are well-studied pigment systems that are commonly found across many avian species’. Alternatively, porphyrin-based pigments are rare and less-studied as they only found in turacos a sub-Saharan African bird belonging to the family Musophagidae. This thesis focuses on two pigments of interest: turacin, the deep crimson-red pigment found in …

The Development And Evaluation Of An Automated Tactical Tillage Tool To Identify And Control Weeds In Row-Crop Production Systems Using Vision-Based Machine Learning., Clara Anne Cobb

Theses and Dissertations

Controlling in-field weeds in row-crop production systems is vital to the success of the operation. To control weeds, most producers use combinations of weed control strategies, including tillage and herbicide applications. Cotton production operations across the country have been trending toward conservation tillage practices in an effort to minimize soil disruption and maintain crop residues on the soil surface. This practice, in addition to the adoption of herbicide-tolerant cotton varieties, has encouraged more use of chemical herbicides. The overuse of these herbicides has resulted in an increase in herbicide-resistant weeds, making weed control difficult for farmers. This research aimed to …

Unknowing Sacrifices: Public Health And Radiation Illness In New Mexico And Nevada, 1940s-1960s, Beatriz Avila-Marquez

UNLV Theses, Dissertations, Professional Papers, and Capstones

The detonation of the first atomic bomb in the early morning of July 16, 1945, in New Mexico welcomed the atomic age that forever changed the world. After that day, thousands of lives were lost due to nuclear weapons, and hundreds of thousands more continued to suffer from the effects of atomic testing. The Atomic Energy Commission, fueled by the arms race of the Cold War, chose Nevada to continue the United States’ nuclear weapons testing. Knowledge of the dangers of radiation exposure, the effects of radiation, and techniques to prevent exposure are now available in part due to the …

Interpretable Deep Learning Models For Trustworthy Prediction Of Enzyme Functions, Louis Dumontet

UNLV Theses, Dissertations, Professional Papers, and Capstones

Trustworthy prediction of enzyme function from protein sequences remains a central challenge in computational biology, particularly when annotated data are limited, imbalanced, or incomplete. This dissertation develops interpretable deep learning methods for enzyme discovery and enzyme function prediction from amino acid sequences. First, it introduces PEPIC, an interpretable convolutional neural network for substrate-level prediction of hydrolytic plastic-degrading enzymes. Using curated and expanded sequence datasets, PEPIC improved predictive performance over benchmark methods, identified sequence regions aligned with catalytic and substrate-binding residues, and supported the discovery and experimental validation of a previously uncharacterized PET-degrading enzyme. Second, this dissertation investigates the integration of …

Methylation-Dependent Regulatory Pathway That Governs The Stability Of The Sox Family Proteins And Related Developmental Regulators, Keshari Gayathri Rajawasam

UNLV Theses, Dissertations, Professional Papers, and Capstones

The SRY (Sex-determining Region Y) protein is a transcription factor encoded on the Y chromosome and is the key regulator responsible for initiating male sex determination in mammals. During early embryonic development, SRY activates the genetic program that leads to testis formation by promoting the expression of downstream genes involved in male gonadal differentiation. Mutations or dysregulation of SRY can lead to disorders of sex development such as male-to-female sex conversion and hermaphroditism, highlighting its critical role in sex determination.

SRY belongs to the SOX (SRY-related HMG-box) family of transcription factors, which includes the proteins SOX1, SOX2 and SOX3. These …

Accuracy Of Parameter Estimation For A Simple Gene Regulatory Network Model Is Sensitive To Network Motif, Number Of Parameters Estimated, And Magnitude And Direction Of Regulatory Relationships, Nikki C. Chun, Kam Dahlquist

Honors Thesis

A gene regulatory network (GRN) is a set of transcription factors that regulate the expression of genes encoding other transcription factors. The dynamics of a GRN explain how gene expression changes over time. GRNmap is a MATLAB software package that uses ordinary differential equations to model dynamics of small-scale GRNs. We used the program to estimate production rates, expression thresholds, and regulatory weights for each transcription factor in three related literature-derived GRNs based on yeast cold shock microarray data previously collected in the Dahlquist Lab. We noticed large differences in estimated weight values when 1-2% of the expression values were …

From Flight To Hatching: Adult Sexual Dimorphism, Life History, And Egg-Stage Ecology Of Pseudocotalpa Giulianii, Mandylene Mountain

UNLV Theses, Dissertations, Professional Papers, and Capstones

The Nevada endemic dune beetle Pseudocotalpa giulianii is currently known only from two dune systems in Amargosa Valley, Nevada, yet much of its life cycle occurs below the sand surface and remains poorly documented. This thesis addresses key gaps in adult-stage biology and egg-stage development that are relevant to understanding reproduction, vulnerability, and habitat requirements in this dunerestricted species.

To characterize adult sexual dimorphism and life history, I quantified morphological differences between males and females and measured sex-specific adult survival under laboratory conditions relative to the aboveground flight season. Males and females overlapped broadly in external body size, but tarsal …

Skin Of Frog And Scale Of Dragon: Nutritional Cues, Life Cycle Kinetics, And Secretome Dynamics In Batrachochytrium Dendrobatidis, Naomi C. Okada

UNLV Theses, Dissertations, Professional Papers, and Capstones

Nearly 50% of amphibian species are at risk of extinction, making them the most threatened group of vertebrates on the planet. A major driver of these declines is the pathogenic chytrid fungus Batrachochytrium dendrobatidis (Bd), which causes the fatal skin disease chytridiomycosis. Since its discovery in the late 1990s, Bd has been directly implicated in the extinction of 90 species of amphibians and the declines of hundreds more. Despite this devastating ecological impact, relatively little is known about its basic cellular biology.

Bd has a multi-stage asexual life cycle consisting of a motile and infectious zoospore, which encysts (into a …

Thermal Physiological Ecology Of The Relict Leopard Frog At Hot And Cold Springs, Robert P. Pelletier Iii

UNLV Theses, Dissertations, Professional Papers, and Capstones

The relict leopard frog (Rana onca) once ranged across drainages in southern Nevada, northwestern Arizona, and southwestern Utah. Following a decline, the species only persisted in a few geothermally influenced hot springs, which led to the perspective that hot springs were high-quality habitat. Rana onca has been under intensive, multiagency management and the species has been translocated to establish additional populations, including at cold-water sites. Three research studies are presented into the thermal physiological ecology of R. onca with the aim of informing conservation strategy. The research was focused at a thermally influenced hot spring and a cold-water spring to …

Community Development Professionals’ Perceptions Of Agritourism In Mississippi, Emma Jane Berry

Theses and Dissertations

Agritourism has emerged as a strategy for supporting rural economies, strengthening community identity, and increasing agricultural literacy. Although prior research has examined agritourism operators and visitors, limited attention has been given to the perceptions of community development professionals who influence local planning and program support. The purpose of this qualitative exploratory study was to examine community development professionals’ perceptions of agritourism’s role in community development, economic growth, and agricultural literacy in Mississippi. Guided by Social Exchange Theory, data were collected through two semi-structured virtual focus groups with 12 professionals representing Extension, tourism, economic development, and Main Street organizations. Data were …

Determining Agricultural Literacy Proficiency Of Extension Professionals And Primary Volunteers In Mississippi, Molly Campbell

Theses and Dissertations

The development of agricultural literacy is a lifelong process, moving from gaining agricultural knowledge to communicating with others to applying to societal issues, and extends beyond the formal classroom. The Mississippi State University Extension Service has the ability to reach various audiences through educational programming, making them a potential catalyst for change in increasing agricultural literacy across the state. The study aims to determine the agricultural literacy levels of Extension professionals and primary volunteers in Mississippi and the factors potentially influencing these levels. Twenty-nine Extension professionals and eleven primary volunteers completed a survey of demographic questions and the Judd-Murray Agricultural …

Evaluating The Spray Patterns Of Boomless Spray Nozzles At Increasing Application Speeds, Thomas Hayden Duncan

Theses and Dissertations

Boomless nozzles have been largely ignored in spray studies, resulting in limited understanding of their spray patterns and how they are affected by operating parameters. A study was conducted to evaluate the effect of application speed on the performance of four boomless nozzles. Dyed water was applied to Kromekote® paper to assess spray distribution based on coverage data at three speeds, and MSMA was applied to a mixed turf stand to evaluate the effect of speed on performance. Overlap simulations were done to evaluate how uniformity could be improved, and nozzle performance was compared to manufacturer claims. Spray patterns of …

Multiscale Modeling Of Chemoattractant-Guided Collective Cell Migration In The Drosophila Egg Chamber, Lara Scott, Bradford E. Peercy, Meghan Kwon, Michelle Starz-Gaiano

Biology and Medicine Through Mathematics Conference

No abstract provided.

Impact Of Innate, Adaptive, And Cellular Immunity On Viral Reproductive Cycle: A Stochastic Extinction Analysis, Rahnuma Islam, David Swigon

Biology and Medicine Through Mathematics Conference

No abstract provided.

Phase-Preserving Machine Learning Forecasting Of Nonlinear Predator–Prey Dynamics, Saira Batool, Muhammad Imran, Brett Mckinney

Biology and Medicine Through Mathematics Conference

No abstract provided.

Modeling Epidemic Dynamics With Renewal Processes And General Lifetime Distributions, Divine Wanduku, Divine Wanduku

Biology and Medicine Through Mathematics Conference

No abstract provided.

Remote Sensing To Detect Crop Damage By An Invasive Species, Cole Butler

Biology and Medicine Through Mathematics Conference

No abstract provided.

A New Framework For Studying Transient Reactivity In Two-Dimensional Linear Systems., Mary Lou Zeeman, Alanna Haslam-Hyde, James Broda

Biology and Medicine Through Mathematics Conference

No abstract provided.

Dynamic Homeostasis In Relaxation And Bursting Oscillations, Christopher J. Ryzowicz

Biology and Medicine Through Mathematics Conference

No abstract provided.

How Human Behavior Shapes Epidemic Dynamics, Leah Lejeune, Navid Ghaffarzadegan, Lauren M. Childs, Omar Saucedo

Biology and Medicine Through Mathematics Conference

No abstract provided.

Dynamics For Complex Quadratic Networks, Templates And Mutations, Anca R. Radulescu, Eva Kaslik, Alexander Fikl, Sarah Muldoon, Johan Nakuci, Mark Comerford

Biology and Medicine Through Mathematics Conference

No abstract provided.

Delineating Differences In Firing Rate Estimates Of Healthy And Parkinsonian Single-Unit Basal Ganglia Recordings, Richard R. Foster, Cheng Ly

Biology and Medicine Through Mathematics Conference

No abstract provided.

A Size-Structured Approach For Modeling Coral-Algal Dynamics, Anayse Miller, Julie C. Blackwood, Lauren M. Childs

Biology and Medicine Through Mathematics Conference

No abstract provided.

The Dynamics Of Synchrony On Replicating Biological Populations, Montse Torres Garcia, Kevin Mcgoff, Francis Motta, Breschine Cummins, Steve Haase

Biology and Medicine Through Mathematics Conference

No abstract provided.

Computation Models Of The Primary Auditory Cortex, Jonathan Gonzalez Martinez, Quynh-Anh Nguyen

Biology and Medicine Through Mathematics Conference

No abstract provided.

Computational Fluid Dynamics Model For Assessing Surgical Strategies For Liver Shunt Closure In Dogs, Schuyler Brennan, Nathan Nelson, Mette Olufsen

Biology and Medicine Through Mathematics Conference

No abstract provided.

Modeling The Effects Of Chronic Stress On Type 2 Diabetes, Kris Mae Pasia

Biology and Medicine Through Mathematics Conference

No abstract provided.

A Mechanistic Model Of Adhesion, Inflammation, Sleep, And Pain In Sickle Cell Patients, Milan Marsh, Rebecca Segal

Biology and Medicine Through Mathematics Conference

No abstract provided.

Positive Affect And Sleep Quality As Predictors Of Pain Onset In Pediatric Sickle Cell Patients, Eunice Clark, Reginald Mcgee, Cecelia Valrie, Rebecca Segal, Angela Reynolds

Biology and Medicine Through Mathematics Conference

No abstract provided.