Physical Sciences and Mathematics Commons^™

Long-Read Sequencing Of The Zebrafish Genome Reorganizes Genomic Architecture, Yelena Chernyavskaya, Xiaofei Zhang, Jinze Liu, Jessica Blackburn

Biostatistics Publications

Background

Nanopore sequencing technology has revolutionized the field of genome biology with its ability to generate extra-long reads that can resolve regions of the genome that were previously inaccessible to short-read sequencing platforms. Over 50% of the zebrafish genome consists of difficult to map, highly repetitive, low complexity elements that pose inherent problems for short-read sequencers and assemblers.

Results

We used long-read nanopore sequencing to generate a de novo assembly of the zebrafish genome and compared our assembly to the current reference genome, GRCz11. The new assembly identified 1697 novel insertions and deletions over one kilobase in length and placed …

Cyber Whistleblowers: The Black Sheep Of Whistleblowing?, Andrew Wisniewski Jr.

Cybersecurity Undergraduate Research Showcase

From the Introduction:

Contrary to popular belief, this paper argues that cyber whistleblowing can contribute to a greater cyber security posture. However, this requires the development of clearer legal obligations and protections for cyber whistleblowers. This paper will explore the psychology behind whistleblowing, the effectiveness of whistleblowing in a cybersecurity context, how to create a safer and more transparent environment for whistleblowers and companies, and how current laws contribute to cyber whistleblowing.

Healing Earth In A Time Of Crisis: Curriculum For Integral Ecology, Caleb Steindam

Dissertations

This intrinsic multiple case study examined secondary- and university-level educators’ experiences teaching with Healing Earth, a curriculum developed by the International Jesuit Ecology Project at Loyola University Chicago, which merges scientific, social, spiritual, and ethical analyses of pressing ecological issues. Based on the conceptual framework of integral ecology, Healing Earth is a response to Pope Francis’s (2015a) call for “a new way of thinking about human beings, life, society and our relationship with nature” (§215).

This study primarily consisted of in-depth interviews with educators who have used Healing Earth in a variety of secondary and post-secondary Catholic educational contexts. A …

Rhodium-Catalyzed Decarbonylation Of Aroyl Chlorides, Wiktoria M. Koza

Dissertations

The development of efficient strategies for the synthesis of aryl–halogen bonds is highly desirable due to the prevalence of these moieties in pharmaceuticals, agrochemicals, and organic synthesis. Although there are numerous applications of aryl chlorides in chemistry, an efficient strategy for the preparation of these molecules is underdeveloped. Transition metal-catalyzed decarbonylation provides an efficient and selective approach for aryl–halogen bond formation. There has been significant progress in the development of new decarbonylation strategies, particularly involving aldehydes for the synthesis of new carbon–hydrogen (C–H) bonds or for cross-coupling reactions. However, transition metal-catalyzed decarbonylation methods for carbon–halogen (C–X) bond formation have been …

Water Current, Volume 54, No. 1, Winter 2022

Water Current Newsletter

No abstract provided.

Infrared Dielectric Functions And Brillouin Zone Center Phonons Of Α-Ga2O3 Compared To Α-Al2O3, Megan Stokey, Rafal Korlacki, Matthew J. Hilfiker, Sean Knight, Steffen Richter, Vanya Darakchieva, Riena Jinno, Yongjin Cho, Huili Grace Xing, Debdeep Jena, Yuichi Oshima, Kamruzzaman Khan, Elaheh Ahmadi, Mathias Schubert

Department of Electrical and Computer Engineering: Faculty Publications

We determine the anisotropic dielectric functions of rhombohedral α-Ga₂O₃ by far-infrared and infrared generalized spectroscopic ellipsometry and derive all transverse optical and longitudinal optical phonon mode frequencies and broadening parameters. We also determine the high-frequency and static dielectric constants. We perform density functional theory computations and determine the phonon dispersion for all branches in the Brillouin zone, and we derive all phonon mode parameters at the Brillouin zone center including Raman-active, infrared-active, and silent modes. Excellent agreement is obtained between our experimental and computation results as well as among all previously reported partial information from experiment …

Data Science Applied To Discover Ancient Minoan-Indus Valley Trade Routes Implied By Commonweight Measures, Peter Revesz

CSE Conference and Workshop Papers

This paper applies data mining of weight measures to discover possible long-distance trade routes among Bronze Age civilizations from the Mediterranean area to India. As a result, a new northern route via the Black Sea is discovered between the Minoan and the Indus Valley civilizations. This discovery enhances the growing set of evidence for a strong and vibrant connection among Bronze Age civilizations.

Ultrafast Dynamics Of Nitro−Nitrite Rearrangement And Dissociation In Nitromethane Cation, Mi'kayla D. Word, Hugo Andres Lopez Pena, Derrick Ampadu Boateng, Shane L. Mcpherson, Gennady L. Gutsev, Lavrenty Gutsev, Ka Un Lao, Katharine M. Tibbetts

Chemistry Publications

We report new insights into the ultrafast rearrange- ment and dissociation dynamics of nitromethane cation (NM+) using pump−probe measurements, electronic structure calculations, and ab initio molecular dynamics simulations. The “roaming” nitro−nitrite rearrangement (NNR) pathway involving large- amplitude atomic motion, which has been previously described for neutral nitromethane, is demonstrated for NM+. Excess energy resulting from initial population of the electronically excited D2 state of NM+ upon strong-field ionization provides the necessary energy to initiate NNR and subsequent dissociation into NO+. Both pump−probe measurements and molecular dynamics simulations are consistent with the completion of NNR within 500 fs of ionization with …

Generation Of Nanomaterials By Reactive Laser Synthesis In Liquid, Laysa M. Frias Batista, Ashish B. Nag, Victoria K. Meader, Katharine M. Tibbetts

Chemistry Publications

Nanomaterials with tailored structures and surface chemistry are in high demand, as these materials play increasingly important roles in biology, catalysis, energy storage, and manu- facturing. Their heightened demand has attracted attention towards the development of syn- thesis routes, particularly, laser-synthesis techniques. These efforts drove the refinement of laser ablation in liquid (LAL) and related methods over the past two decades, and have led to the emergence of reactive laser-synthesis techniques that exploit these methods’ character- istic, non-equilibrium conditions. Reactive laser-synthesis approaches foster unique chemical reactions that enable the formation of composite products like multimetallic nanoparticles, supported nanostructures, and complex …

A Modulated Structure Derived From The Xa-Type Mn2Rusn Heusler Compound, Xingzhong Li, Wen-Yong Zhang, Ralph Skomski, David J. Sellmyer

Nebraska Center for Materials and Nanoscience: Faculty Publications

A modulated structure derived from the inverse Heusler phase (the XA-type and the disordered variant L2₁B-type) has been observed in rapidly quenched Mn2RuSn ribbons. The powder X-ray diffraction pattern of the quenched ribbons can be indexed as an L2₁B-type structure. Electron diffraction patterns of the new structure mostly resemble those of the XA-type (and the disordered variant L2₁B-type) structure and additional reflections with denser spacing indicate a long periodicity. Orthogonal domains of the modulated structure were revealed by a selected-area electron diffraction pattern and the corresponding dark-field transmission electron microscopy images. The structure was …

Localization Effects And Anomalous Hall Conductivity In A Disordered 3d Ferromagnet, Paul M. Shand, Y. Moua, G. Baker, Shah R. Valloppilly, Pavel V. Lukashev, Parashu Kharel

Nebraska Center for Materials and Nanoscience: Faculty Publications

We have prepared the Heusler alloy CoFeV_0.5Mn_0.5Si in bulk form via arc melting. CoFeV_0.5Mn_0.5Si is ferromagnetic with a Curie temperature of 657 K. The longitudinal resistivity exhibits a minimum at 150 K, which is attributable to competition between quantum interference corrections at low temperatures and inelastic scattering at higher temperatures. The magnetoresistance (MR) is positive and nearly linear at low temperatures and becomes negative at temperatures close to room temperature. The positive MR in the quantum correction regime is evidence of the presence of the enhanced electron interaction as a contributor to …

The “Office Of The Ciso”: A Framework For Chief Information Security Officers, Yael Nagler, Christophe Veltsos

Computer Information Science Department Publications

As we enter 2022, cybersecurity continues to challenge corporations and their CISOs. The sophistication of cyberthreats coupled with an evolving digital landscape has resulted in increased complexity and expanded responsibilities for the CISO. Simply put, there is greater scrutiny, greater regulation, greater complexity, and greater scope than ever before. To respond to these changes, CISOs must organize their “Office of the CISO” to meet the expectations and deliver for their organizations. Whether the CISO has a staff of three or thirty and whether they are prepared or not, these elements are being increasingly expected of CISOs. You can think of …

Increased Caribbean Seismicity And Volcanism During Minima In Earth's Rotation Rate: Search For A Physical Mechanism And A 2030 Forecast, Roger Bilham, Walter Szeliga, David Mencin, Rebecca Bendick

Geological Sciences Faculty Scholarship

Three quarters of all Mw ≥ 6.6 earthquakes and volcanic eruptions surrounding the Caribbean plate occur preferentially during periods of decadal minima in Earth’s angular spin velocity. This correlation is revealed most clearly as a 4–6 years phase lag following the first derivative of the length of the day (LOD), Earth’s angular deceleration. We show that local strains and displacements resulting from oblateness changes, or plate boundary stresses associated with changes in tropical rotation rates are orders of magnitude lower than those typically associated with earthquake or volcano triggering. Notwithstanding the absence of a satisfactory causal physical mechanism, the relationship …

Understanding California's 2022 Energy Code: Blog 1, Gabriella Medina, Darbi Berry

San Diego Regional Climate Collaborative

When thinking about the built environment, it is easy to overlook the influence structures have on our communities' quality of life. Buildings are relics of the past or symbols of modernity. They are tangible evidence of our society's investment in people's health, the environment and a resilient economy. Buildings play a crucial role over energy usage, urban heat impacts, and overall greenhouse gas emissions.

Quick Guide To The 2022 Energy Code: Blog 2, Gabriella Medina, Darbi Berry

San Diego Regional Climate Collaborative

There are a wide range of updates to the 2022 Energy Code; however, there are four categories of top priority for industry professionals and end-use stakeholders as California strengthens compliance standards: electric heat pump technology, electric-ready requirements, solar photovoltaic systems and battery storage standards, and strong ventilation standards.

Sustainability & (Em)Powering Community Based Action In Chula Vista, Gabriella Medina, Darbi Berry

San Diego Regional Climate Collaborative

The City of Chula Vista (Chula Vista / the City) has already begun to experience the localized impacts of climate change through record-breaking heat waves, droughts, and wildfires. In response to the impacts of climate change posing a threat to Chula Vista residents’ quality of life, the City declared a climate emergency in March 2022. This declaration advanced the City’s commitment to update its Greenhouse Gas (GHG) reduction goals, strengthen existing efforts like the City Operations Sustainability Plan, and encourage new City-wide and voluntary actions by residents and businesses. The Chula Vista DIY Sustainable Home Toolkit (Toolkit) is a best …

Understanding The Intersections Of The Lgbtq+ Community & Climate Change, Annabel Gong, Darbi Berry

San Diego Regional Climate Collaborative

In this blog, we will explore these LGBTQ+ community relationships as they relate to environmental justice, relationships and access to the outdoors, and community representation in the environmental science field.

Laying The Groundwork For Equity-First Climate Adaptation, Michelle Robidas, Darbi Berry

San Diego Regional Climate Collaborative

SDRCC is excited to share the first post of our 2-part Climate Adaptation Blog Series "Laying the Groundwork for Equity-First Climate Adaptation." This blog post gives a high-level introduction to SDRCC and SANDAG's Equity-First Approach to Climate Adaptation guidance document. Readers will learn strategies to identify social equity communities, build community capacity, and link adaptation planning efforts to the four dimensions of equity.

Approaches And Strategies To Integrate Equity Into Adaptation Planning, Michelle Robidas, Darbi Berry

San Diego Regional Climate Collaborative

SDRCC is excited to share the second post of our 2-part Climate Adaptation Blog Series "Approaches and Strategies to Integrate Equity into Adaptation Planning." Building off of our first adaptation blog, readers will learn about equitable stakeholder engagement, identifying starting point vulnerabilities, how to conduct a vulnerability assessment, and opportunities to integrate equity into all phases of climate adaptation projects.

Electrifying Encinitas, Gabriella Medina, Darbi Berry

San Diego Regional Climate Collaborative

Advancing the San Diego region’s resilience to climate change impacts within the nexus of social, environmental, and economic prosperity is a top priority for local planning and efforts. As the region continues to face impacts on quality of life from climate change, the City of Encinitas is taking action to respond by leading efforts of energy resilience with their recently passed Green Building Ordinance (Ordinance). The Ordinance requires all new residential and non-residential buildings constructed in Encinitas to be “all-electric” unless an exception applies. As the San Diego region moves towards decarbonizing, Encinitas is the first city to mandate building …

Understanding The Inflation Reduction Act, Michelle Robidas, Darbi Berry

San Diego Regional Climate Collaborative

In this blog, readers will learn what the Inflation Reduction Act is, the major categories of its climate funding, and why its passing into law was a historical moment for the U.S.

Revolutionizing The Integration Of Sustainability & Zero Net Energy In The San Diego Region, Gabriella Medina, Darbi Berry

San Diego Regional Climate Collaborative

The San Diego County Regional Airport Airport Authority (Airport Authority) manages the day-to-day operations of the San Diego International Airport (SAN) and addresses the region’s long-term air transportation needs. SAN is also the busiest single-run commercial airport in the United States. To lessen SAN’s greenhouse gas emissions impact on local climate change vulnerabilities from the airport’s operations (i.e. minimizing energy usage), the Airport Authority has integrated sustainability across its social, environmental, and economic functions. In their commitment to sustainability, the Airport Authority is using the New Terminal 1 (New T1) project and zero-net energy (ZNE) Airline Support Facilities (ASF) as …

Mathematics For Liberal Arts (Ma301), Lecture Notes, Lyubomir I. Boyadzhiev

Open Educational Resources

These lecture notes are designed to provide the students majoring in the liberal arts with an understanding and appreciation of mathematics as a lively, interesting, and surprisingly rich human activity with many fascinating applications. The text, emphasizing strongly intuitive thinking and visualization, is a collection of topics chosen to show the open-minded readers that:

• The connection between the mathematics presented in the course and down-to-earth, concrete real-life problems is transparent and immediate.
• Modern mathematical discoveries do not have to be the exclusive province of professional mathematicians.
• There is an important aesthetic component in mathematics, and just as in art and …

Testing Effects Of Lorentz Invariance Violation In The Propagation Of Astroparticles With The Pierre Auger Observatory, P. Abreu, M. Aglietta, J. M. Albury, I. Allekotte, K. Almeida Cheminant

Faculty Publications

Lorentz invariance violation (LIV) is often described by dispersion relations of the form E-i(2) = m(i)(2) + p(i)(2) + delta E-i,n(2+ n) with delta different based on particle type i, with energy E, momentum p and rest mass m. Kinematics and energy thresholds of interactions are modified once the LIV terms become comparable to the squared masses of the particles involved. Thus, the strongest constraints on the LIV coefficients delta(i,n) tend to come from the highest energies. At sufficiently high energies, photons produced by cosmic ray interactions as they propagate through the Universe could be subluminal and unattenuated over cosmological …

2022 Hampton Roads Station Tide Prediction Calendars, Virginia Institute Of Marine Science

Miscellaneous

No abstract provided.

Investigating Synthetic Methods For Tio2-Nayf4 Hybrid Nanocrystals, Nurul Muttakin

Dissertations and Theses

The capacity to develop and expand the utility of a single nanostructure is one of the major issues in the field of hybrid nanocrystals. Major advancements in the fabrication of materials with multiple functionalities by combining many materials into a single nanoparticle entity are intriguing, but they still pose obstacles that must be addressed. This trend has been spurred by significant progressions in the wet-chemical synthesis of durable and easily programmable nanocrystals with various morphologies. The extent of the structural complexity of solution-based nanocrystals looks to be one of the inevitable avenues along which nanoscience will increasingly focus. We have …

Co-Producing A Shared Characterization Of Depredation In The Gulf Of Mexico Reef Fish Fishery: Comprehensive Report, James M. Drymon, Ana Osowski, Amanda Jargowsky, Matthew Ajemian, Angela Collins, Bryan Fluech, Steven Gray, Julie Lively, Steven Scyphers

Coastal Research and Extension Center Publications

Depredation, defined as the partial or complete removal of a hooked fish by a non-target species, is a cryptic form of mortality that can affect the accuracy of stock assessments and species management efforts. Accounting for depredation is crucial to minimize uncertainty in stock assessment models and to obtain accurate and reliable fisheries catch data. If these interactions are frequent, failure to properly quantify this form of mortality can lead to the underestimation of reef fish population removals, inappropriate harvest recommendations, and stakeholder unrest. In recent years, depredation has escalated in the Gulf of Mexico (GoM) reef fish fishery. Although …

Fidget Spinner Generator System For Mi-Star Unit 7.1, Douglas Oppliger

Mi-STAR

This simple system is an integral and important part of this unit. It allows students to see, feel, and experience how kinetic energy can be transformed to another kind of energy. It is an effective learning tool in the unit because it is reasonably easy to make, has just a few simple and visible components, and reliably transforms enough energy to light an LED (light emitting diode). The LED provides a satisfying light output which is easy to observe.

Building An Understanding Of Human Activities In First Person Video Using Fuzzy Inference, Bradley A. Schneider

Browse all Theses and Dissertations

Activities of Daily Living (ADL’s) are the activities that people perform every day in their home as part of their typical routine. The in-home, automated monitoring of ADL’s has broad utility for intelligent systems that enable independent living for the elderly and mentally or physically disabled individuals. With rising interest in electronic health (e-Health) and mobile health (m-Health) technology, opportunities abound for the integration of activity monitoring systems into these newer forms of healthcare. In this dissertation we propose a novel system for describing ’s based on video collected from a wearable camera. Most in-home activities are naturally defined by …

Error Handling Approaches In Programming Languages, Joey Aldrin Rees-Hill

Honors Papers

Error handling is a part of nearly every computer program, but it is rarely the main focus of a program's developers. Nevertheless, correct error handling is important because it can enable a program to recover from abnormal circumstances and continue to function and serve its purpose. Programming languages offer a variety of tools and approaches for programs to detect and handle errors. I investigated the different approaches to error handling in contemporary programming languages. I found three general paradigms of error handling approaches. One paradigm was Special Return Value, in which certain return values of a function signify that an …