cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
MATHEMATICAL MODELING IN VIRAL DYNAMICS AND DRUG CONTROL: A CASE STUDY OF HIV-1 VIRUS
Creators: name: Olabode, Damilola Omolola
Publisher: name: Washington State University
Year: 2022
Subjects: Drug resistance
HIV latency
HIV-1
Optimal control
Stochastic Processes
Termination viral loads

description: Mathematical modeling has long given insight in understanding the initiation, progression, and dynamics of diseases and infection.The primary focus of this research is to investigate cost-effective strategies for chemotherapy in HIV and the emergence of drug resistance in HIV by mathematical modeling and analysis. The optimal control problem is formulated based on an existing HIV latency model by incorporating the termination level in terms of viral loads, latently, and productively infected T cells. The necessary condition for this optimal system is derived using the Pontryagin's maximum principle. Numerical simulation is carried out using Runge-Kutta 4 method for the forward-backward sweep. Our results suggest that introducing the termination viral load into the control provides a better strategy in developing HIV chemotherapy. On the other hand, we develop a continuous-time Markov chain (CTMC) model, which is derived based on an ordinary differential equation model proposed by Kitayimbwa et al. (J Math Biol, 67:1111-1139, 2013), to study the emergence of drug resistance in HIV. An analytic estimate of the probability of disease extinction of the CTMC model near the disease-free equilibrium is obtained by a multitype branching process approximation. The analytical predictions are validated by numerical simulations. Our result shows that, unlike the deterministic dynamics where the basic reproduction number serves as a sharp threshold parameter (i.e., the disease dies out if the reproduction number is less than 1 and persists if it is greater than 1), the stochastic model indicates that there is always a positive probability of disease extinction in patients. The findings of this research provide insight into HIV therapeutic strategies, such as the importance of the size of the latent cell reservoir in the treatment of HIV.
EFFECTS OF ENVIRONMENTAL VARIATION ON POTATO PSYLLID VECTORS AND A BACTERIAL PLANT PATHOGEN
Creators: name: Cohen, Abigail Lienhard
Publisher: name: Washington State University
Year: 2022

description: Environmental context affects ecological communities across all scales, from plants to animals to microorganisms. Studying how the environment effects plant-vector-pathogen systems increases our understanding of vector and pathogen movement across landscapes and vector-host interactions. This dissertation addresses these questions within a local crop system. The first chapter is an observational study of population dynamics of an agricultural pest and pathogen vector, the potato psyllid (Bactericera cockerelli Sülc) of potatoes in the Columbia River Basin. Growers have increased pesticide use to control for outbreaks of B. cockerelli and it’s associated pathogen, Candidatus Liberibacter psyllarous, which causes the disease known as zebra chip. This study found that the population dynamics were closely tied with temperature, and that winters with extended cold periods could decrease overwintering survival and decrease population abundance in successive years. The second chapter uses sampling data for four common potato pests collected from 2007-2017: (i) potato tuberworm (Phthorimaea operculella Zeller), (ii) beet leafhopper (Circulifer tenellus Baker), (iii) green peach aphid (Myzus persicae Sulzer), and (iv) potato psyllid (Bactericera cockerelli Šulc). An interpolation model was created to map predicted weekly pest abundance across the entire sampling region and validated to quantify its efficacy. Three data transformations, five power parameters, and three nearest neighbor parameters were tested to quantify sensitivity and determine best fit for each insect. The model performs with a high degree of precision and is robust to changes in parameter, due a wider range of spatial autocorrelation than initially assumed. The third chapter tests the precision of a phenological model for B. cockerelli development against field data. This model is also precise enough for use in guiding management decision. Finally, chapter four tests the effect of water stress on pathogen transmission success, and studies potential chemical and physical mechanisms that may drive that interaction. While we found clear evidence that water stress is associated with decreased pathogen titer, more work needs to be done to untangle the overlapping chemical and physical plant responses. This dissertation has led to the creation and improvement of the potato decision aid tool and will inform future research into the B. cockerelli-Liberibacter system.
The Clifford group forms a unitary 3-design
Creators: name: Webb, Zak
Publisher: name: arXiv
Year: 2015
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Unitary $k$-designs are finite ensembles of unitary matrices that approximate the Haar distribution over unitary matrices. Several ensembles are known to be 2-designs, including the uniform distribution over the Clifford group, but no family of ensembles was previously known to form a 3-design. We prove that the Clifford group is a 3-design, showing that it is a better approximation to Haar-random unitaries than previously expected. Our proof strategy works for any distribution of unitaries satisfying a property we call Pauli 2-mixing and proceeds without the use of heavy mathematical machinery. We also show that the Clifford group does not form a 4-design, thus characterizing how well random Clifford elements approximate Haar-random unitaries. Additionally, we show that the generalized Clifford group for qudits is not a 3-design unless the dimension of the qudit is a power of 2.
description: 16 pages
Pholidoptera aptera Fabricius 1793
Creators: name: Monnerat, C.
name: Thorens, P.
name: Walter, T.
name: Gonseth, Y.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Tettigoniidae
Pholidoptera
Pholidoptera aptera

description: Pholidoptera aptera (Fabricius, 1793) Alpen-Strauchschrecke LC
description: Published as part of Monnerat C., Thorens P., Walter T. & Gonseth Y., 2007, Rote Liste der Heuschrecken der Schweiz, pp. 1-62 in Umwelt-Vollzug 7 (19) on page 34, DOI: 10.5281/zenodo.270238
EMOTION REGULATION FLEXIBILITY AS A PROTECTIVE FACTOR AGAINST IMMIGRATION-SPECIFIC SOCIOCULTURAL RISK
Creators: name: Lee, SuYeon
Publisher: name: Washington State University
Year: 2022
Subjects: college students
emotion
health

description: Mental health concerns in college are often accompanied by somatic, social, academic, and substance use problems. At the same time, college students from immigrant backgrounds account for 28% of the student population. It is beneficial to clarify the protective factors that mitigate and risk factors that impede health outcomes among immigrant college students. One potential protective factor is emotion regulation flexibility (ERF); immigrants, who often live across cultural contexts, may benefit from the ability to flexibly regulate their emotions in different contexts. We tested the buffering effect of ERF against the detrimental effect of sociocultural risk on mental and physical health outcomes in a sample of first- and second-generation immigrants. A total of 295 college students participated. About forty percent of the sample were first-generation immigrants who lived 10.31 years in the U.S. (SD = 8.71) on average; the remaining students were second-generation immigrants. Participants self-reported demographic information, acculturative stress, experiences of racial discrimination, depression, anxiety, physical symptoms, sleep difficulties, emotion regulation flexibility, social support and ethnic identity in an online survey. A moderation analysis in an SEM framework was conducted with the lavaan package in R to examine the moderating effect of ERF on the association between sociocultural risk, mental and physical health. Gender and length of time in the U.S were included as covariates. Mental and Physical health problems were significantly predicted by the interaction between sociocultural risk and ERF. These findings suggest ERF protects immigrants against the negative health consequences of sociocultural risk. Future efforts to support immigrants’ well-being might investigate how to best support the development of ERF.
A PARADIGM SHIFT IN BREEDING: FROM GENOMICS TO PHENOMICS
Creators: name: Chen, Chun-Peng
Publisher: name: Washington State University
Year: 2022

description: Breeding for quantitative traits is studied by genomics and phenomics. In past decades, trait improvements have been mainly driven by genomics studies. Breeders broadly apply statistical approaches of Genome-Wide Association Studies (GWAS) and Genomic Selection (GS) to identify causal alleles and to evaluate breeding values, respectively. However, the implementations are usually limited to command-line environments and are not friendly to users. More research groups can participate in the studies if there's a user-friendly tool freeing researchers from learning multiple methods from scratch. In addition to genetic variation, how individuals respond to environments is another critical factor improving quantitative traits. The problems are investigated by phenomics studies and they usually require intensive efforts on collecting phenotypes over multiple environments. The advance of unmanned aerial vehicles (UAV) technology makes it possible to evaluate traits of interest on a large scale. However, challenges arise when interpreting raw reads into meaningful information. The works involve multiple computational methods and require considerable manual effort. Strong demand for an integrated segmentation tool emerges when phenomics studies get more attention. Besides the macroscope of phenomics driven by UAV, popularized hyperspectral scanners have stimulated phenomics
description: research in the scope of single plants or seeds. One example in wheat is the evaluation of falling numbers (FN), which was believed to be correlated with the end-use quality. Low FNs are known to be contributed by two major causes: Preharvest sprouting (PHS) and late maturity α-amylase (LMA). Yet it's recently found that only PHS will lead to poor end-use quality, and this finding shows the need to differentiate PHS and LMA instantly before samples are priced.We cover three described problems in this thesis. The literature review is presented in the first chapter, and the second chapter demonstrates how the solution, intelligent prediction, and association tools (iPat), integrate GWAS and GS models into a graphical interface. In the macroscope of phenomics, we show that the tool, greenfield imagery decoder (GRID), can segment aerial images into subplots precisely with little human effort. Lastly, we address the micro-scope phenomics by showing the potential of spectroscopy in identifying low FN kernels from PHS or LMA samples. Overall, incorporating both genomics and phenomics can drive the breeding process more effectively.
Molecular barriers to direct cardiac reprogramming
Creators: name: Vaseghi, Haley
name: Qian, Li
name: Liu, Jiandong
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2017

description: Abstract Myocardial infarction afflicts close to three quarters of a million Americans annually, resulting in reduced heart function, arrhythmia, and frequently death. Cardiomyocyte death reduces the heart’s pump capacity while the deposition of a non-conductive scar incurs the risk of arrhythmia. Direct cardiac reprogramming emerged as a novel technology to simultaneously reduce scar tissue and generate new cardiomyocytes to restore cardiac function. This technology converts endogenous cardiac fibroblasts directly into induced cardiomyocyte-like cells using a variety of cocktails including transcription factors, microRNAs, and small molecules. Although promising, direct cardiac reprogramming is still in its fledging phase, and numerous barriers have to be overcome prior to its clinical application. This review discusses current findings to optimize reprogramming efficiency, including reprogramming factor cocktails and stoichiometry, epigenetic barriers to cell fate reprogramming, incomplete conversion and residual fibroblast identity, requisite growth factors, and environmental cues. Finally, we address the current challenges and future directions for the field.
title: Ein Delphi-Verfahren mit Psoriasis-Experten zur Entwicklung eines Standarddatensatzes für die Dokumentation von Psoriasis
Creators: name: Otten, Marina
name: Radtke, Marc Alexander
name: Augustin, Matthias
Publisher: name: German Medical Science GMS Publishing House
Year: 2019
Subjects: subject: 610 Medical sciences; Medicine

description: Hintergrund/Fragestellung: In der modernen Behandlung von Psoriasis ist die Messung von Outcomes ein Hauptbestandteil. Elektronisches Monitoring und elektronische Dokumentationssysteme sind allerdings immer noch selten. Das vorliegende Projekt verfolgt in einem ersten Schritt das Ziel einen Standarddatensatz[zum vollständigen Text gelangen Sie über die oben angegebene URL]
description: EbM und Digitale Transformation in der Medizin; 20. Jahrestagung des Deutschen Netzwerks Evidenzbasierte Medizin
title: Dokumentation von Patientendaten für einen Standarddatensatz in der Versorgung von Psoriasis aus Patientensicht: Fokusgruppen
Creators: name: Otten, Marina
name: Augustin, Matthias
Publisher: name: German Medical Science GMS Publishing House
Year: 2019
Subjects: subject: 610 Medical sciences; Medicine

description: Hintergrund/Fragestellung: In der modernen Behandlung von Psoriasis ist die Messung von Outcomes ein Hauptbestandteil. Elektronisches Monitoring und elektronische Dokumentationssysteme sind allerdings immer noch selten. Das vorliegende Projekt verfolgt das Ziel die Relevanz unterschiedlicher Patientendaten[zum vollständigen Text gelangen Sie über die oben angegebene URL]
description: EbM und Digitale Transformation in der Medizin; 20. Jahrestagung des Deutschen Netzwerks Evidenzbasierte Medizin
$κ$-Minkowski star product in any dimension from symplectic realization
Creators: name: Pachol, Anna
name: Vitale, Patrizia
Publisher: name: arXiv
Year: 2015
Subjects: subject: Mathematical Physics (math-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We derive an explicit expression for the star product reproducing the $κ$-Minkowski Lie algebra in any dimension $n$. The result is obtained by suitably reducing the Wick-Voros star product defined on $\mathbb{C}^{d}_θ$ with $n=d+1$. It is thus shown that the new star product can be obtained from a Jordanian twist.
description: published version
Cyber risk analysis and threat mitigation strategies against Distributed Energy Resources and Internet of Things infrastructure attacks
Creators: name: Sebastian Cardenas, David Jonathan
Publisher: name: Washington State University
Year: 2022
Subjects: Cyber Physical Systems
Cybersecurity
Distributed Consensus
Distributed Energy Resources

description: Distributed Energy Resources penetration levels continue to increase across distribution networks, producing a wide variety of challenges for system operators. Creating among others, the need for new or improved methods that can manage their output characteristics. This has led to regulatory amendments that are expected to facilitate secure grid operations while continuing to enable increasing levels of Distributed Energy Resources penetration. However, it is still unclear if these systems will behave as intended in the presence of a cyber attack. To address this fundamental question, this work presents a detailed cybersecurity analysis on Distributed Energy Resources and Internet of Things infrastructure, covering a wide variety of angles from assessing device-level vulnerabilities to proposing methods/metrics that can quantify risk at the system-level. In addition, this work introduces two, fully-virtualized cyber-physical testbeds that have been envisioned for cyber-security researchers. It is expected that these software-based tools can aid to develop better, more secure Internet of Things and Distributed Energy Resource-based deployments. Furthermore, methods for ensuring correct operation at the device-level and distribution system-level are presented. In specific, a Trusted Execution Environment solution, which relies on hardware-level process isolation has been developed to provide digital-attestation services on analog inputs. The final contribution of this work is the development of a distributed fail-safe method for managing Volt-Var operations. The proposed method combines local voltage information (from independent agents) and simplified network models to determine the expected voltage output before actually executing the command using consensus-voting techniques. The underlying distributed consensus methods and power models work together to ensure that a final decision not only satisfies traditional power system constraints such as security (correctness) and dependability but also availability and partition tolerance under distributed systems theory.
Metal pad instabilities in liquid metal batteries
Creators: name: Zikanov, Oleg
Publisher: name: arXiv
Year: 2015
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences

description: A mechanical analogy is used to analyze the interaction between the magnetic field, electric current and deformation of interfaces in liquid metal batteries. It is found that, during charging or discharging, a sufficiently large battery is prone to instabilities of two types. One is similar to the metal pad instability known for aluminum reduction cells. Another type is new. It is related to the destabilizing effect of the Lorentz force formed by the azimuthal magnetic field induced by the base current and the current perturbations caused by the local variations of the thickness of the electrolyte layer.
title: The ethical oversight of health care improvement activities in Switzerland: a qualitative study
Creators: name: McLennan, Stuart
Publisher: name: German Medical Science GMS Publishing House
Year: 2019
Subjects: subject: 610 Medical sciences; Medicine

description: Background/research question: The Swiss health care system is increasingly looking to derive knowledge from clinical practice and use this knowledge to drive the cycle of continuous health care improvement. However, blurring of the sharp distinction made by ethical oversight systems between clinical[for full text, please go to the a.m. URL]
description: EbM und Digitale Transformation in der Medizin; 20. Jahrestagung des Deutschen Netzwerks Evidenzbasierte Medizin
Pholidoptera fallax Fischer 1853
Creators: name: Monnerat, C.
name: Thorens, P.
name: Walter, T.
name: Gonseth, Y.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Tettigoniidae
Pholidoptera
Pholidoptera fallax

description: Pholidoptera fallax (Fischer, 1853) Südliche Strauchschrecke NT
description: Published as part of Monnerat C., Thorens P., Walter T. & Gonseth Y., 2007, Rote Liste der Heuschrecken der Schweiz, pp. 1-62 in Umwelt-Vollzug 7 (19) on page 34, DOI: 10.5281/zenodo.270238
Probing the minimal determinants of zinc binding with computational protein design
Creators: name: Guffy, Sharon L.
name: Kuhlman, Brian
name: Der, Bryan S.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2016

description: Structure-based protein design tests our understanding of the minimal determinants of protein structure and function. Previous studies have demonstrated that placing zinc binding amino acids (His, Glu, Asp or Cys) near each other in a folded protein in an arrangement predicted to be tetrahedral is often sufficient to achieve binding to zinc. However, few designs have been characterized with high-resolution structures. Here, we use X-ray crystallography, binding studies and mutation analysis to evaluate three alternative strategies for designing zinc binding sites with the molecular modeling program Rosetta. While several of the designs were observed to bind zinc, crystal structures of two designs reveal binding configurations that differ from the design model. In both cases, the modeling did not accurately capture the presence or absence of second-shell hydrogen bonds critical in determining binding-site structure. Efforts to more explicitly design second-shell hydrogen bonds were largely unsuccessful as evidenced by mutation analysis and low expression of proteins engineered with extensive primary and secondary networks. Our results suggest that improved methods for designing interaction networks will be needed for creating metal binding sites with high accuracy.
PodcastMining_1498
Creators: name: Pojoni, Mircea
Publisher: name: Zenodo
Year: 2023
Subjects: Text Mining
Podcast
Lex Fridman
Argument Mining
Transcription
Text Data
Audio Data
Speech Recognition
Dialogue
OpenAI

description: The PodcastMining_1498 dataset is a rich and diverse collection of 1498 podcast transcriptions, purpose-built for research in argument mining. It spans multiple podcasts, covering a wide range of topics from economics and politics to science, education, and personal development. A distinctive feature of this dataset is that the transcriptions have been performed with one of OpenAI's Whisper transcription models (small.en) and no post-processing has been performed. Consequently, elements such as timestamps and speaker identification labels are not present. This design decision underpins our belief that argument mining in podcasts hinges not primarily on these metadata, but rather on the contextual understanding and semantic interpretation of the content itself. By removing these identifiers, the dataset is streamlined to focus purely on the transcribed text, promoting research that prioritizes contextual understanding over structural dependencies. This approach aligns seamlessly with the strengths of the GPT-4 language model, known for its capability in grasping and generating human-like text based with contextual cues. In using this dataset, we request users to appropriately attribute the original podcasts and respect any relevant copyright laws.
title: Developing a conceptual framework for patient and public involvement in biomedical research
Creators: name: Klingler, Corinna
name: Strech, Daniel
Publisher: name: German Medical Science GMS Publishing House
Year: 2019
Subjects: subject: 610 Medical sciences; Medicine

description: Background/research question: Involving patients as partners in the planning, conduction and evaluation of biomedical research projects has been recognized as issue of high importance internationally. Many countries have founded institutions (like INVOLVE in the UK or PCORI in the US) that explicitly[for full text, please go to the a.m. URL]
description: EbM und Digitale Transformation in der Medizin; 20. Jahrestagung des Deutschen Netzwerks Evidenzbasierte Medizin
Pholidoptera griseoaptera De Geer 1773
Creators: name: Monnerat, C.
name: Thorens, P.
name: Walter, T.
name: Gonseth, Y.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Tettigoniidae
Pholidoptera
Pholidoptera griseoaptera

description: Pholidoptera griseoaptera (De Geer, 1773) Gewöhnliche Strauchschrecke LC
description: Published as part of Monnerat C., Thorens P., Walter T. & Gonseth Y., 2007, Rote Liste der Heuschrecken der Schweiz, pp. 1-62 in Umwelt-Vollzug 7 (19) on page 34, DOI: 10.5281/zenodo.270238
title: To disclose or not to disclose – Erfahrungen mit der Offenlegung von Zuwendungen pharmazeutischer Unternehmen durch deutsche ÄrztInnen
Creators: name: Stoll, Marlene
name: Hubenschmid, Lara
name: Egloff, Boris
name: Lieb, Klaus
Publisher: name: German Medical Science GMS Publishing House
Year: 2019
Subjects: subject: 610 Medical sciences; Medicine

description: Hintergrund/Fragestellung: Ziel dieser Studie ist die Untersuchung sekundärer Effekte der Offenlegung von Zuwendungen pharmazeutischer Unternehmen (pU) durch ÄrztInnen in Deutschland und deren Auswirkungen auf zukünftige Entscheidungen. Offenlegung ist eine weit verbreitete Antwort[zum vollständigen Text gelangen Sie über die oben angegebene URL]
description: EbM und Digitale Transformation in der Medizin; 20. Jahrestagung des Deutschen Netzwerks Evidenzbasierte Medizin
CARRY-OVER EFFECTS OF ELEVATED SALINITY AND TEMPERATURE ON WOOD FROG (RANA SYLVATICA) SURVIVAL, GROWTH, AND BEHAVIOR
Creators: name: Traversari, Bernardo Andres
Publisher: name: Washington State University
Year: 2022
Subjects: subject: Amphibians
subject: Behavior
subject: Carry-over effects
subject: Development
subject: Physiology
subject: FOS: Biological sciences
subject: Salinity

description: Anthropogenically-induced salinization of freshwater systems due to the application of road de-icing salts and hydrocarbon mining has been identified as a significant environmental stressor for amphibians across the United States. While the effects of salinity during amphibian embryonic and larval stages are fairly well-understood, less is known on whether these effects can carry over to affect post-metamorphic traits. Moreover, it remains unclear if salinity-induced carry-over effects are adaptive or maladaptive for amphibian survival, or if salinity can interact with other environmental conditions, like temperature, to influence amphibian development. To fill in these gaps, we tested the hypothesis that if wood frogs that develop in saline ponds exhibit adaptive plasticity in their osmoregulatory abilities, then individuals raised in elevated salinity environments as larvae would feature greater tolerance to similarly saline post-metamorphic environments (i.e., the match hypothesis). In addition, we also hypothesized that exposure to elevated salinity and temperature during larval development would have measurable impacts on juvenile behaviors. Our results provided no evidence for the match hypothesis, as juveniles reared in high salinities did not survive or grow better in high-salinity soils compared with those in low-salinity soils. However, we do show that juveniles that experienced elevated salinity as larvae tended to increase weight (but not SVL) regardless of post-metamorphic environment, suggesting that there may be differences in food intake or osmoregulation in these animals. We also showed that the interaction between salinity and temperature experienced during the larval stage affects wood frog explorative capacity without necessarily impacting exploitative behavior, providing evidence for behavioral carry-over effects. Taken together, these findings contribute to a growing body of work to show that the larval environment can affect the expression of physiological and behavioral traits after metamorphosis, but how these traits relate to population recruitment still needs to be investigated. Findings from this study also suggests that salinization of both freshwater and woodland soils adjacent to roads has adverse effects on wood frogs in both the aquatic and terrestrial parts of their life cycle.
Cell-free translation and purification of  Arabidopsis thaliana  regulator of G signaling 1 protein
Creators: name: Jones, Alan M.
name: Urano, Daisuke
name: Fox, Brian G.
name: Misenheimer, Tina M.
name: Beebe, Emily T.
name: Aceti, David J.
name: Li, Bo
name: Makino, Shin-Ichi
name: Peters, Jonathan
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2016

description: Arabidopsis thaliana Regulator of G protein Signalling 1 (AtRGS1) is a protein with a predicted N-terminal 7-transmembrane (7TM) domain and a C-terminal cytosolic RGS1 box domain. The RGS1 box domain exerts GTPase activation (GAP) activity on Gα (AtGPA1), a component of heterotrimeric G protein signaling in plants. AtRGS1 may perceive an exogenous agonist to regulate the steady-state levels of the active form of AtGPA1. It is uncertain if the full length RGS1 protein exerts any atypical effects on Gα, nor has it been established exactly how AtRGS1 contributes to perception of an extracellular signal and transmits this response to a G-protein dependent signaling cascade. Such an understanding can be deduced from in vitro studies using the purified and soluble RGS1-box domain. Further studies on full-length AtRGS1 have been inhibited due to the extreme low abundance of the endogenous AtRGS1 protein in plants and lack of a suitable heterologous system to express AtRGS1. Here, we describe methods to produce full-length AtRGS1 by cell free synthesis into unilamellar liposomes and nanodiscs. The cell-free synthesized AtRGS1 exhibits GTPase activating activity on Gα and can be purified to a level suitable for biochemical analyses.
Pholidoptera littoralis subsp. insubrica Nadig 1961
Creators: name: Monnerat, C.
name: Thorens, P.
name: Walter, T.
name: Gonseth, Y.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Tettigoniidae
Pholidoptera
Pholidoptera littoralis
Pholidoptera littoralis insubrica nadig, 1961

description: Pholidoptera littoralis insubrica Nadig, 1961 Insubrische Strauchschrecke VU B2b(iii,iv) § CH Grünlandart
description: Published as part of Monnerat C., Thorens P., Walter T. & Gonseth Y., 2007, Rote Liste der Heuschrecken der Schweiz, pp. 1-62 in Umwelt-Vollzug 7 (19) on page 34, DOI: 10.5281/zenodo.270238
STOCHASTIC PURSUIT MODELS: THEORY AND APPLICATIONS
Creators: name: Toman, Kellan Ray
Publisher: name: Washington State University
Year: 2022
Subjects: Cell Motility
Levy-Walk
Pursuit Equation
Biology

description: Recent years have seen an increase of evidence of systems driven by diffusive processes that exhibit mixed linear and anomalous diffusive regimes, typically in the form of an anomalous to normal transition in time. Despite showing many characteristics reminiscent of anomalous diffusion, the density profiles of these systems seem to carry over exponential tails in strong contrast to power-laws. Inspired by the simple idea of a driven particle undergoing Brownian diffusion while simultaneously pursuing another diffusive particle, we develop a model of stochastic pursuit that exhibits transient anomalous features while maintaining key normal diffusive components. Specifically, we show: a) the model is capable of capturing transient sub-diffusion, super-diffusion and pure super-diffusion depending on the parameters, b) the orientation auto-correlation function of the model exhibits stretched-exponential behavior, c) hitting (catching) times are Inverse-Gaussian distributed, and d) the distance between the two particles satisfies the dry friction equation. Extensions of the model to higher dimensions are also presented, where the properties of the model are shown to have strong dimension dependence. As an application, we apply the stochastic pursuit-evasion model to foraging theory, and show how the model fits well with experimental data from cell-motility.
Platycleis albopunctata subsp. albopunctata Goeze 1778
Creators: name: Monnerat, C.
name: Thorens, P.
name: Walter, T.
name: Gonseth, Y.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Tettigoniidae
Platycleis
Platycleis albopunctata
Platycleis albopunctata albopunctata (goeze, 1778)

description: Platycleis albopunctata albopunctata (Goeze, 1778) Westliche Beissschrecke NT
description: Published as part of Monnerat C., Thorens P., Walter T. & Gonseth Y., 2007, Rote Liste der Heuschrecken der Schweiz, pp. 1-62 in Umwelt-Vollzug 7 (19) on page 34, DOI: 10.5281/zenodo.270238
EVALUATING THE NON-CONSUMPTIVE EFFECTS OF INSECT PREDATORS ON APHIDS AND APHID-BORNE VIRUS TRANSMISSION
Creators: name: Lee, Benjamin W
Publisher: name: Washington State University
Year: 2022
Subjects: disease ecology
plant virus
predator prey
vector biology
Agriculture

description: Predators exhibit “consumptive effects” (CEs) by capturing and consuming prey, while exhibiting “non-consumptive effects” (NCEs) on prey physiology and behavior through failed attacks that influence their perception of risk in the environment. Predatory insects are widely used to control agricultural pests, including insect vectors of pathogens, though their role in affecting pathogen transmission has been poorly understood. This dissertation evaluates a range of predation effects on aphid vectors and their transmission of Pea enation mosaic virus (PEMV), an economically damaging aphid-borne pathogen of legumes grown in the Pacific Northwest USA. The first chapter discusses difficulties in predicting vector-borne virus transmission using mathematical models, as vectors’ interactions with other species can unpredictably affect rates of pathogen transmission. The second chapter documents a field study evaluating predator CEs and NCEs on aphid vector abundance, movement, and feeding behavior and how these effects contribute to aphids’ ability to transmit PEMV. Analysis using structural equation modeling revealed predators indirectly increased PEMV prevalence by inducing aphids to disperse to new hosts and feed upon parts of the host plant on which pathogen transmission is greater. The third chapter details several greenhouse experiments examining how vector responses to signals of predation risk affect transmission of PEMV. I found that chemical cues left by predators or alarm pheromones released by conspecifics reduced aphids’ ability to acquire and transmit PEMV but had no effect on their fecundity or nutrition. The final chapter describes a field study examining how diverse predator communities affect aphids and PEMV transmission. When multiple predator species feed on aphid vectors, their effects on aphid abundance can be synergistic or antagonistic, though the impacts of predator diversity on aphid behavior and transmission efficiency are unknown. I find that predator diversity enhanced aphid suppression but altered aphid behavior in ways that increased virus transmission, resulting in no net change in PEMV prevalence. This final chapter suggests that the benefits of increasing diversity for pest suppression may not similarly influence disease risk. This dissertation improves our understanding of how insect predators affect plant pathogen transmission and will inform management strategies using natural enemies to combat plant pathogens.
Renormalisation Group Corrections to Neutrino Mass Sum Rules
Creators: name: Gehrlein, Julia
name: Merle, Alexander
name: Spinrath, Martin
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: Neutrino mass sum rules are an important class of predictions in flavour models relating the Majorana phases to the neutrino masses. This leads, for instance, to enormous restrictions on the effective mass as probed in experiments on neutrinoless double beta decay. While up to now these sum rules have in practically all cases been taken to hold exactly, we will go here beyond that. After a discussion of the types of corrections that could possibly appear and elucidating on the theory behind neutrino mass sum rules, we estimate and explicitly compute the impact of radiative corrections, as these appear in general and thus hold for whole groups of models. We discuss all neutrino mass sum rules currently present in the literature, which together have realisations in more than 50 explicit neutrino flavour models. We find that, while the effect of the renormalisation group running can be visible, the qualitative features do not change. This finding strongly backs up the solidity of the predictions derived in the literature, and it thus marks a very important step in deriving testable and reliable predictions from neutrino flavour models.
description: 25 pages, 3 figures, 39 additional plots; version published in JHEP
SMALL UNMANNED AERIAL SYSTEM BASED REMOTE SENSING TO MAP GEOSPATIAL WATER USE OF FIELD AND PERENNIAL SPECIALTY CROPS
Creators: name: Chandel, Abhilash Kumar
Publisher: name: Washington State University
Year: 2022
Subjects: Crop evapotranspiration
High spatiotemporal resolution
Irrigated field and perennial specialty crops
Site-specific irrigation management
Small unmanned aerial system

description: Precision irrigation management is critical to optimize the existing consumptive water usage and to balance the ever-increasing food as well as water demand. Therefore, technological advances are needed to better monitor and map the crop water use. Advent of small unmanned aerial systems (UAS) has shown potential to map the crop characteristics at high spatiotemporal resolution. This dissertation explored the application of small UAS based spectral imagery in the visible, near-infrared and longwave thermal infrared wavelengths to map the crop water use (Evapotranspiration [ET] or Transpiration [T]) of the field and perennial crops grown in the Pacific Northwest of the United States. Aerial imagery was acquired at 7 cm/pixel (Multispectral) and 13 cm/pixel (Thermal) and integrated to the modified satellite-standard Mapping ET at High Resolution with Internalized calibration (METRIC). Resulting energy balance model outputs were ET maps for commercially grown potato, spearmint, alfalfa, grapevines, and apple crops. Weather data from nearest automated stations of WSU-AgWeatherNet network was also used as inputs to the energy balance models. UAS-based ET mapping i.e., UASM-ET outperformed conventional satellite-based ET mapping (30 m/pixel) and standard crop-coefficient approaches in mapping spatial heterogeneities in ET. The UASM-ET estimates had strong and significant correlations with the in-situ ET calculations from soil water balance approach with relative deviations within 10% of the latter. The UASM-T maps could capture the impacts of deficit and direct-root-zone drip irrigation of grapevines. The vines irrigated at 100 or 80% of the commercial rates transpired significantly higher than the ones irrigated at 60 and 40% of the commercial rates. Similarly, ET and T was successfully mapped for a high-density apple orchard (cv. Buckeye Gala) throughout the growing season. Evaluated was also the effect of localized and non-localized weather on the apple canopy T estimates. As an alternative to the standard open-field weather stations, the in-situ weather data acquired along different canopy heights could be reliably used for water use quantifications as it can account for localized cropping conditions and management practices. Overall, approaches and data outputs from this dissertation would be useful to growers and crop consultants for site-specific irrigation scheduling and management.
A SURVEY OF SIMULATION PREBRIEFING PRACTICES IN PRELICENSURE NURSING PROGRAMS IN THE UNITED STATES
Creators: name: Ludlow, Jocelyn Anne
Publisher: name: Washington State University
Year: 2022
Subjects: subject: Briefing
subject: Education
subject: Nursing
subject: FOS: Health sciences
subject: Prebriefing
subject: Presimulation
subject: Simulation

description: Prebriefing establishes expectations and provides psychological safety for participants before simulation. There currently exists a lack of clarity and consistency regarding best practices in simulation prebriefing, and this translates to variations in prebriefing practices across prelicensure nursing programs.The overall objective of this PhD by manuscript was to explore the prebriefing practices of pre-licensure nursing programs in the United States and inform nursing education practice. The first manuscript was a principle-based concept analysis that explored prebriefing in the literature. A survey was then developed and the quantitative and qualitative findings of the survey were discussed in the final two manuscripts. Manuscript one recommended continued research and development regarding prebriefing in simulation to establish maturity as a concept. Manuscript two uncovered three major findings: infrequent use of prebriefing scripts leading to a lack of consistency in prebriefing content; new educators starting their teaching careers using simulation; and faculty not including the new concept physical safety in prebriefing. In paper three, faculty referred to prebriefing and preparation activities as similar activities that serve to manage student anxiety. Paper three also revealed that many faculty feel rushed when prebriefing students, and struggle to prepare students without giving too away much information about the scenario. These three manuscripts contribute to the body of prebriefing research and suggest that continued prebriefing research focus on the needs and perspectives of faculty and the impact of prebriefing on students. In addition, there is a need to develop a standardized, evidenced based approach to prebriefing.
Boosting protein stability with the computational design of β-sheet surfaces: Computational Design of β-Sheet Surfaces
Creators: name: Jacobs, Timothy M.
name: Kuhlman, Brian
name: Kim, Doo Nam
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2016

description: β‐sheets often have one face packed against the core of the protein and the other facing solvent. Mutational studies have indicated that the solvent‐facing residues can contribute significantly to protein stability, and that the preferred amino acid at each sequence position is dependent on the precise structure of the protein backbone and the identity of the neighboring amino acids. This suggests that the most advantageous methods for designing β‐sheet surfaces will be approaches that take into account the multiple energetic factors at play including side chain rotamer preferences, van der Waals forces, electrostatics, and desolvation effects. Here, we show that the protein design software Rosetta, which models these energetic factors, can be used to dramatically increase protein stability by optimizing interactions on the surfaces of small β‐sheet proteins. Two design variants of the β‐sandwich protein from tenascin were made with 7 and 14 mutations respectively on its β‐sheet surfaces. These changes raised the thermal midpoint for unfolding from 45°C to 64°C and 74°C. Additionally, we tested an empirical approach based on increasing the number of potential salt bridges on the surfaces of the β‐sheets. This was not a robust strategy for increasing stability, as three of the four variants tested were unfolded.
The "loose thread" in the problem of free-will
Creators: name: Burns, Jamie
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: This thesis aims to convince the reader that Heidegger’s understanding of the relationship between being and time might offer a significant contribution towards resolving the problem of (in)compatibility between free will, determinism, indeterminism, and moral responsibility, which besets the problem of free will as understood within contemporary analytical metaphysics: the Compatibility Problem. In 1930 Heidegger proposed that the Compatibility Problem has its roots in an ontological level to the problem of freedom. As a result of how being and time are understood, the essence of free will is understood as a kind of causation, and this underpins the manifestation of the problem as the Compatibility Problem. However, in order to convince the most sceptical reader of Heidegger that this proposal warrants further investigation, rather than focus on Heidegger’s writings the strategy of this thesis is to convince the reader that the ontological level to the problem that interested Heidegger can be made transparent through the very problems arising within the contemporary understanding of it. This thesis draws these problems out by taking up van Inwagen’s suggestion in 2018 that a debate on the ambiguity in the definition of “free will” might be the only way forwards. The question this thesis focuses the debate on is whether the ambiguity within the concept of “free will” is a “bug” or a “feature”? It is argued that the “loose thread” might be time.
The Brightest Young Star Clusters in NGC 5253
Creators: name: Calzetti, D.
name: Johnson, K. E.
name: Adamo, A.
name: Gallagher, J. S.
name: Andrews, J. E.
name: Smith, L. J.
name: Clayton, G. C.
name: Lee, J. C.
name: Sabbi, E.
name: Ubeda, L.
name: Kim, H.
name: Ryon, J. E.
name: Thilker, D.
name: Bright, S. N.
name: Zackrisson, E.
name: Kennicutt, R. C.
name: de Mink, S. E.
name: Whitmore, B. C.
name: Aloisi, A.
name: Chandar, R.
name: Cignoni, M.
name: Cook, D.
name: Dale, D. A.
name: Elmegreen, B. G.
name: Elmegreen, D. M.
name: Evans, A. S.
name: Fumagalli, M.
name: Gouliermis, D. A.
name: Grasha, K.
name: Grebel, E. K.
name: Krumholz, M. R.
name: Walterbos, R.
name: Wofford, A.
name: Brown, T. M.
name: Christian, C.
name: Dobbs, C.
name: Herrero, A.
name: Kahre, L.
name: Messa, M.
name: Nair, P.
name: Nota, A.
name: Oestlin, G.
name: Pellerin, A.
name: Sacchi, E.
name: Schaerer, D.
name: Tosi, M.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: The nearby dwarf starburst galaxy NGC5253 hosts a number of young, massive star clusters, the two youngest of which are centrally concentrated and surrounded by thermal radio emission (the `radio nebula'). To investigate the role of these clusters in the starburst energetics, we combine new and archival Hubble Space Telescope images of NGC5253 with wavelength coverage from 1500 Ang to 1.9 micron in 13 filters. These include H-alpha, P-beta, and P-alpha, and the imaging from the Hubble Treasury Program LEGUS (Legacy Extragalactic UV Survey). The extraordinarily well-sampled spectral energy distributions enable modeling with unprecedented accuracy the ages, masses, and extinctions of the 9 optically brightest clusters (M_V < -8.8) and the two young radio nebula clusters. The clusters have ages ~1-15 Myr and masses ~1x10^4 - 2.5x10^5 M_sun. The clusters' spatial location and ages indicate that star formation has become more concentrated towards the radio nebula over the last ~15 Myr. The most massive cluster is in the radio nebula; with a mass 2.5x10^5 M_sun and an age ~1 Myr, it is 2-4 times less massive and younger than previously estimated. It is within a dust cloud with A_V~50 mag, and shows a clear nearIR excess, likely from hot dust. The second radio nebula cluster is also ~1 Myr old, confirming the extreme youth of the starburst region. These two clusters account for about half of the ionizing photon rate in the radio nebula, and will eventually supply about 2/3 of the mechanical energy in present-day shocks. Additional sources are required to supply the remaining ionizing radiation, and may include very massive stars.
description: 67 pages; 11 figures; 7 tables. Accepted for publication in the Astrophysical Journal