cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Examining the Functional Consequences of Tumor Endothelial Marker 8 (TEM8) Expression in Human Breast Cancer Cells
Creators: name: Sampson, Elliot
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Oncology
subject: Breast Cancer Metastasis
subject: Tumor Endothelial Marker 8

description: Tumor Endothelial Marker 8 (TEM8) is a type-1 transmembrane protein overexpressed in tumor associated endothelial cells. Preliminary data from our lab found markedly elevated levels of TEM8 in invasive human breast cancer cell lines of the basal subtype, and reduced TEM8 expression in non-invasive breast cancer cells of the luminal subtype. The functional significance of TEM8 expression in a human breast cancer context is unknown. This thesis explored the consequences of overexpression of TEM8 in non-invasive breast cancer cell lines. MCF7, HTB20, and SKBR3 cells constitutively express low levels of TEM8. The cell lines were infected with lentivirus encoding pLentiTEM8 or control pLentiLacZ. Functional alterations in tumor cell behavior (i.e. viability, apoptosis, adhesion, migration, and invasion) were investigated. NOD-SCID mice were used to evaluate changes in tumor kinetics. In silico data provided by MediSapiens™ was used to assess the prognostic significance of TEM8. The results of this thesis revealed that TEM8 is not sufficient to alter the behavior of non-invasive breast cancer cells to a more malignant phenotype. In vivo studies revealed overexpression of TEM8 does not enhance tumor growth in female NOD-SCID mice. Knocking out host derived TEM8 in MMTV-neu mice had no impact on tumor growth and mortality. In silico data delineate a relationship between TEM8 expression and loco-regional lymphatic spread. The significance of this thesis is that TEM8 alone is not sufficient to cause alterations in the biological behavior of MCF7, HTB20, and SKBR3; however, it may predict loco-regional spread of breast cancer to lymph nodes.
Sea turtle conservation and ecosystem-based management with a focus on green turtles (Chelonia mydas) and seagrass beds
Creators: name: Wabnitz, Colette Catherine Chantal
Publisher: name: University of British Columbia
Year: 2010

description: The design of effective species management and recovery plans for sea turtle populations requires targets that are informed by an understanding of knowledge gained at the level of individuals/populations in the context of the wider goal of protecting an ecosystem's structural and functional attributes. In this thesis I present the first detailed investigation of the multiple levels at which sea turtles, particularly green turtles (Chelonia mydas), interact with ecosystems. I begin by developing a framework for an age-structured population-level assessment of food consumption for hawksbill (Eretmochelys imbricata), loggerhead (Caretta caretta), and green turtles. This entailed construction of species-specific growth models for the western Atlantic, and subsequent integration of results with morphometric, survival, abundance, and food conversion efficiency to derive consumption estimates. At the ecosystem level, I developed models for the Caribbean and Hawai’í, where green turtles are present at very low abundances and reaching carrying capacity, respectively. In the Caribbean, results showed that green turtle grazing of seagrass substantially altered habitat complexity, reducing the refuge role of seagrass to reef fish and invertebrates, and leading to potentially dramatic changes in species biomass and composition. In Hawai‘i, by feeding on algae, green turtles were found to contribute to the resilience of reefs in the face of disturbance, a functional role that needs to be explicitly included in future studies of reef dynamics. Taken together, these findings highlight the need to consider trophic and indirect interactions in the evaluation of sea turtles’ role within ecosystems. Accurate and reliable estimates of foraging habitat extent are essential to inform realistic and sustainable turtle recovery targets, particularly given the current degraded state of coastal ecosystems. Using Landsat satellite imagery, I present a novel mapping approach for seagrass habitats at large scales. Such regional initiatives are also urgently needed if the international community is to meet aims to conserve 10 – 30 % of specific habitats. A comparison between reef extent, determined using remote sensing and existing data, showed that discrepancies ranged from + 1,316 % to - 64 %, underlining our limited ability to ascertain progress towards adopted global marine conservation targets based on current data.
Exploring QCD matter in extreme conditions with Machine Learning
Creators: name: Zhou, Kai
name: Wang, Lingxiao
name: Pang, Long-Gang
name: Shi, Shuzhe
Publisher: name: arXiv
Year: 2023
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: High Energy Physics - Experiment (hep-ex)
subject: High Energy Physics - Lattice (hep-lat)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: In recent years, machine learning has emerged as a powerful computational tool and novel problem-solving perspective for physics, offering new avenues for studying strongly interacting QCD matter properties under extreme conditions. This review article aims to provide an overview of the current state of this intersection of fields, focusing on the application of machine learning to theoretical studies in high energy nuclear physics. It covers diverse aspects, including heavy ion collisions, lattice field theory, and neutron stars, and discuss how machine learning can be used to explore and facilitate the physics goals of understanding QCD matter. The review also provides a commonality overview from a methodology perspective, from data-driven perspective to physics-driven perspective. We conclude by discussing the challenges and future prospects of machine learning applications in high energy nuclear physics, also underscoring the importance of incorporating physics priors into the purely data-driven learning toolbox. This review highlights the critical role of machine learning as a valuable computational paradigm for advancing physics exploration in high energy nuclear physics.
description: 152 pages,53 figures
Applying Data Mining and Social Network Analysis Techniques in a Land Tenure Information System
Creators: name: Asiedu, Kwame
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Computer Science
subject: Engineering--Environmental
subject: Engineering--Operations Research
subject: Social Network Analysis
subject: Data Mining
subject: Evolutionary Land Tenure Information System
subject: Land Administration Models

description: Network of social relationships are fundamental attribute of land tenure systems. The primary objective of this research is to develop an evolutionary TTM-based LTIS to cater for requirements dictated by the rapidly evolving social, political and economic conditions in peri-urban communities and to apply data mining and social network analysis techniques to find lineage of interest in customary systems. The method adapts agile software development approach to developing a TTM-based LTIS. Simulated data populated into the system is then extracted for mining and analysis. The results have proven that mining and analysis can facilitate visualizing complex relationships between objects, reveal hidden relationships that emerge as social change take shape as well as drive the development of an evolutionary land administration model and the LTIS developed based on such models. However the success of these methods depends on acquiring relevant data which may sometimes be manipulated to suite one’s agenda.
Coherent superconducting quantum pump
Creators: name: Hoehne, F.
name: Pashkin, Yu. A.
name: Astafiev, O. V.
name: Möttönen, M.
name: Pekola, J. P.
name: Tsai, J. S.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We demonstrate non-adiabatic charge pumping utilizing a sequence of coherent oscillations between a superconducting island and two reservoirs. Our method, based on pulsed quantum state manipulations, allows to speedup charge pumping to a rate which is limited by the coupling between the island and the reservoirs given by the Josephson energy. Our experimental and theoretical studies also demonstrate that relaxation can be employed to reset the pump and avoid accumulation of errors due to non-ideal control pulses.
description: 4 pages, 3 figures
Additional file 1 of Surgical and percutaneous revascularization outcomes based on SYNTAX I, II, and residual scores: a long-term follow-up study
Creators: name: Martins, Eduardo Bello
name: Hueb, Whady
name: Brown, David L.
name: Scudeler, Thiago Luis
name: Lima, Eduardo Gomes
name: Rezende, Paulo Cury
name: Soares, Paulo Rogério
name: Garzillo, Cibele Larrosa
name: Filho, Jaime Paula Pessoa Linhares
name: Batista, Daniel Valente
name: Ramires, Jose Antonio Franchini
name: Filho, Roberto Kalil
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Cell Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Additional file 1. Supplementary Figure S1: Flowchart showing selection of patients included in this study. Supplementary Table S1: Event rate in CABG and PCI according to SYNTAX score I. Supplementary Table S2: Event rate in CABG and PCI according to SYNTAX score II. Supplementary Table S3: Event rate in CABG and PCI according to residual SYNTAX score.
The Prevalence of Depression and the Accuracy of Depression Screening Tools in Migraine Patients
Creators: name: Amoozegar, Farnaz
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Epidemiology
subject: Migraine
subject: Depression
subject: Screening
subject: Prevalence

description: Migraine and major depressive disorders are common comorbid conditions. The purpose of this cross-sectional study was to assess how well the Patient Health Questionnaire (9 items) and the Hospital Anxiety and Depression Scale perform as depression screening tools in migraine patients attending a headache clinic, determine the prevalence of depression in this patient population using a gold standard semi-structured psychiatric interview, and examine disability and quality of life for these patients. The Patient Health Questionnaire (cut-point 14) and the Hospital Anxiety and Depression Scale (cut-point 11) produced an optimal balance of psychometric properties for the studied migraine population. The point prevalence of depression was 25.0% (95% CI 19.0-31.0), and the prevalence of untreated depression was 17.0% (95% CI 10.8 – 23.2). Patients with both migraine and depression had significantly higher degrees of disability and a poorer quality of life as compared to patients without depression.
Global Quantum discord of multi-qubit states
Creators: name: Xu, Jianwei
Publisher: name: arXiv
Year: 2012
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Global quantum discord (GQD), proposed by Rulli and Sarandy [Phys. Rev. A \textbf{84}, 042109 (2011)], is a generalization of quantum discord to multipartite states. In this paper, we provide an equivalent expression for GQD, and obtain the analytical expressions of GQD for two classes of multi-qubit states. The phenomena of sudden transition and freeze of GQD are also discussed.
description: 6 pages, 1 figure. Comments are welcome
Schrödinger equation and the flight of electromagnetic particles
Creators: name: Khmelnik, Solomon
Publisher: name: Zenodo
Year: 2024

description: A real (without probabilities) solution to the Schrödinger equations is given. Based on this solution, a mathematical model of the particle is created as a certain set of electromagnetic waves pulsating in a limited volume. It is shown that such a particle moves by a flow of electromagnetic energy, which is continuously generated by the pulsation of an internal electromagnetic wave. Moreover, the magnitudes of this flow and energy remain constant over time
Quantum Ising chain with time-averaged work in linear response theory
Creators: name: Nazé, Pierre
Publisher: name: arXiv
Year: 2023
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: For systems performing a weakly isothermal process, the decorrelation time dictates how fast the relaxation function decorrelates. However, like many other thermally isolated systems, the transverse-field quantum Ising chain presents an ill-defined decorrelation time. On the other hand, the Kibble-Zurek mechanism uses a heuristic relaxation time to achieve its famous scaling. The problem however of having a well-defined decorrelation time, derived from first principles, agreeing with the Kibble-Zurek mechanism is still open. Such a solution is proposed here by measuring the work using the time-averaged relaxation function of the system, which offers a new and well-defined decorrelation time for thermally isolated systems. I recover with this the Kibble-Zurek mechanism in the finite-time and weak driving regime, and new features in the slowly-varying one. The gain in control over the system in such a distinction is desirable for potential applications.
description: 8 pages, 6 figures
The decalogue in The Decameron
Creators: name: Curcio, Timothy
Publisher: name: No Publisher Supplied
Year: 2020

description: My dissertation provides insight into the academic debate concerning the moral message of Giovanni Boccaccio’s Decameron. Although the earlier tradition of critical commentary on the topic tends to disregard the text’s didactic scope, more recent scholars generally point out the ethical values of this literary masterpiece. I argue that the work’s morality can be judged more effectively by applying the Ten Commandments as its original interpretative key. This approach highlights the centrality of Christian thought, which has been largely overlooked because of the Decameron’s often salacious material. I argue that the apocalyptic reality ushered in by the plague incites Boccaccio to reconsider prevailing laws and ethics, specifically spiritual and religious laws, like the Ten Commandments. After careful analysis of the Decalogue in the Decameron, I conclude that Boccaccio takes a more compassionate stance on morality. The author affirms the New Testament’s Greatest Commandment and its Golden Rule, rather than the rigidity of the Ten Commandments of the Old Testament. As I examine primary and secondary sources through a historical and interpretive approach, I do a close reading of numerous novellas of the Decameron, and I also consider biblical commentaries by theologians like Augustine, Aquinas, and Bonaventure. I am in constant conversation with Boccaccio criticism, which provides the framework for my research. My dissertation spans four chapters and connects the Ten Commandments thematically. “Observance,” the first chapter, investigates the polemical way in which religious observance and authority are depicted by the text; this is where I highlight idolatry, sabbath, and honor thy mother and thy father. Chapter Two, “Word,” focuses on the use of immoral language through the second and eighth commandments that prohibit blasphemy and deceit. The third chapter, entitled “Deed,” investigates the commandments of murder and adultery, where I examine the instances in Day Five and Day Seven when the decision to commit murder or adultery is considered a righteous act. Concupiscence is the topic of the fourth chapter, entitled “Desire,” a concept that encompasses the seventh, the ninth, and the tenth commandments prohibiting theft and coveting; here, I highlight the ethical tensions between Day Two, based on greed, and Day Ten, based on generosity. As a witness to the collapse of society during the plague in 1348, Boccaccio reevaluates right and wrong, and his articulation of moral dilemmas is ageless because all generations must grapple with political, social, and thereby moral upheaval.
High-fidelity Rydberg controlled-Z gates with optimal pulses
Creators: name: Chang, T. H.
name: Wang, T. N.
name: Jen, H. H.
name: Chen, Y. -C.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Quantum Physics (quant-ph)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: High-fidelity control-$Z$ ($C_Z$) gates are essential and mandatory to build a large-scale quantum computer. In neutral atoms, the strong dipole-dipole interactions between their Rydberg states make them one of the pioneering platforms to implement $C_Z$ gates. Here we numerically investigate the time-optimal pulses to generate a high-fidelity Rydberg $C_{Z}$ gate in a three-level ladder-type atomic system. By tuning the temporal shapes of Gaussian or segmented pulses, the populations on the intermediate excited states are shown to be suppressed within the symmetric gate operation protocol, which leads to a $C_{Z}$ gate with a high Bell fidelity up to $99.92\%$. These optimized pulses are robust to thermal fluctuations and the excitation field variations. Our results promise a high-fidelity and fast gate operation under amenable and controllable experimental parameters, which goes beyond the adiabatic operation regime under a finite Blockade strength.
description: 6 figures
Public Health Interventions and Harmful Unintended Consequences: Towards a typology and understanding of underlying factors to inform intervention planning.
Creators: name: Scott, Lisa Kathleen Allen
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Public Health
subject: Public Health Intervention
subject: Unintended Harm
subject: Planning
subject: Evaluation
subject: Theory

description: Background: Despite systematic inclusion of unintended harm evaluation and reporting in evidence-based medicine, this concept remains relatively unexplored in evidence-based public health. As harmful unintended consequences (UC) continue to emerge from well-meaning public health interventions (PHI), evidence of both the complex pathway to the generation of harmful UC and the types of harmful UC to be evaluated and reported are essential for public health planners and evaluators. This dissertation aims to address this gap by advancing both the theoretical and practical knowledge on this underrepresented topic. Objective: To develop a theoretical and practical foundation for identification and mitigation of harmful UC associated with PHI so that planning frameworks may be adapted for use in various contexts. Methods and Results: A scoping review was conducted to describe a typology and underlying factors associated with PHI harmful UC. The typology included consideration of physical, psychosocial, cultural, economic and environmental unintended harms. Next, a realist review was undertaken to investigate the usefulness of Merton’s (1936) underlying factors of UC, namely - ignorance, error, basic values, immediate interest and self-defeating prophecy for understanding how and why harmful UC associated with weight-focused PHI occur. When applied to weight-focused PHI, Merton’s theoretical framework, together with two emergent mechanisms of reductionism and false premises provide explanatory usefulness and subsequently were used to generate a conceptual framework for PHI associated harmful UC. The resulting framework was then examined using the population health approach as a lens to look critically at harmful UC associated with the presumptive diagnosis and treatment of malaria high-risk strategy. Finally, using the WHO (2009) systems thinking framework as a guide, practical discussion questions were proposed for a transdisciplinary group of public health planners to consider when attempting to reduce harmful UC associated with well-meaning PHI. Conclusions: This research provides important advancements in both harmful UC theoretical understanding and practical steps that can be implemented by public health planners to improve the ability to anticipate, rather than simply react to harmful UC associated with PHI.
Interactive Hiv-Host Genome-To-Genome Map
Creators: name: Bartha, Istvan
Publisher: name: Zenodo
Year: 2013
Subjects: HIV
GWAS
HLA
MHC
genetics
infectious diseases
host pathogen interaction

description: Schematic representation of the HLA class I genes and of the SNPs associated with HIV-1 amino acid variants in the region. The association between human SNP's and viral amino acid variations are projected on the HIV-1 proteome.
SketchBoard: Conceptualizing Interactive Communication Media for the Design Review Process
Creators: name: Salehi Vishkaie, Rojin
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Design and Decorative Arts
subject: Urban and Regional Planning
subject: FOS: Social and economic geography
subject: Computer Science
subject: Interactive Communication Media
subject: Design Review Process
subject: Media Design
subject: User-Centered Design
subject: New Technology
subject: Participatory Communication
subject: Multidisciplinary Research
subject: Qualitative Research

description: As a synthesis, this doctoral thesis offers the opportunity to rethink the status of current technologies within the design review process. It suggests the potential for transforming the complex participatory, communicative, and technical nuances of the design review process to coexist with the affordances of the new genre of digital media. Furthermore, the goal of this research is to create an interactive communication medium, called SketchBoard, that embodies intelligent and intelligible behavior to remedy the vagueness of visualization. This thus renders an insight into improving participatory communication within the design review process using mobile interactive surfaces. Moreover, this research provides a means of characterizing the existing urban planning desktop computer applications and more recent interactive surfaces. The research findings also suggest the possibility of supplementing existing urban planning desktop computer applications with mobile interactive surfaces, while interacting in a participatory design review process. This thesis thus contributes to the intersection of the design review process with interactive surfaces while presenting a four-part empirical and design research study. The first study undertook an initial exploration of urban planners’ current work practices with their typical tools and technologies. The second, third, and fourth studies were conducted with urban planners at the City of Calgary’s (Canada) urban planning department. The second study explored the design review process, and as such comprises the zoning ordinance process that dictates the ultimate form of a building through which technological systems are constituted. The third study further explored these aspects by investigating the design specifications of SketchBoard. In the fourth study, the design and evaluation of SketchBoard for the design review process is presented. On the methodological level, a postmodernist, qualitative perspective combined with the methodology of ethnography and contextual design as empirical approaches and minimalism as a design technique were exploited to address the multidisciplinary notion of the research. The research methods used were semi-structured interviews, participant and non-participant observations, structured surveys, and experimental digital paper prototypes. Finally, overall, this four-part research study foresees urban planners’ experience and expectations with interactive surfaces that will provide an impression for the directions of future research.
How Children Signal That They Are Making Mathematical Connections
Creators: name: Andrews, Heather J.
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Education
subject: Education--Elementary
subject: Education--Mathematics
subject: Mathematics
subject: FOS: Mathematics
subject: Connections
subject: teaching

description: This study examines how children signal that they are experiencing the interconnectedness of mathematics while working on rich tasks. Based on guidelines recommended by the NCTM (2000), I define the “interconnectedness of mathematics” as how mathematical concepts build on one another; are connected to, and can be used with, other mathematical ideas; and apply in contexts outside of mathematics. A case study of two groups of three, grade-four students is described based on qualitative data from video recorded problem-solving sessions. Three themes emerged from the data gathered. The ways in which children signaled they were making mathematical connections included: 1) using known facts to solve new problems; 2) identifying appropriate strategies to solve a mathematics problem; and 3) making mathematical generalizations. I conclude by discussing the subtlety of some of the signals described in my themes and the implications of such subtle comments including:1) situation awareness; 2) time; and 3) assessment.
Additional file 1 of Head and neck squamous cell carcinoma cell lines have an immunomodulatory effect on macrophages independent of hypoxia and toll-like receptor 9
Creators: name: Ishizu, Tamiko
name: Eichin, Dominik
name: Padzik, Artur
name: Tuominen, Sanni
name: Grénman, Reidar
name: Salmi, Marko
name: Grönroos, Tove J.
name: Tuomela, Johanna M.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology

description: Additional file 1. Additional Material and Methods. TLR9-targeted CRISPR/Cas9 modification in FaDu cells. (a) mRNA analysis verified that in CRISPR/Cas9-modified FaDu cells (FaDuTLR9def) TLR9 mRNA expression under normoxia was significantly reduced with median of 0.5105 with 95% CI (± 0.1792 and 1.125) in comparison to parental FaDu cells (dotted line). Error bars represent min and max, n = 7, *p ≥ 0.05. (b) Western blot gels showing a moderate decrease of TLR9-protein expression in CRISPR/Cas9-modified FaDu cells. (c) The clone with the lowest TLR9-expression was selected for Sanger sequencing. The sequencing result confirmed that the cell line had a genetic modification in one allele only.
Additional file 2 of Head and neck squamous cell carcinoma cell lines have an immunomodulatory effect on macrophages independent of hypoxia and toll-like receptor 9
Creators: name: Ishizu, Tamiko
name: Eichin, Dominik
name: Padzik, Artur
name: Tuominen, Sanni
name: Grénman, Reidar
name: Salmi, Marko
name: Grönroos, Tove J.
name: Tuomela, Johanna M.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology

description: Additional file 2. The gating strategy for macrophage analysis. (a) The gating strategy of human monocytes based on their FSC/SSC profiles, following the viability marker Fixable Viability Dye eFluor 780 and anti-CD68+-based subgating. (b) Representative flow cytometry histograms show all treatment groups and controls for a particular antibody: isotype (dark green), NA (red), M1 (blue), M2a (orange), and M2c (light green).
Test-Driven Reuse: Improving the Selection of Semantically Relevant Code
Creators: name: Nurolahzade, Mehrdad
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Computer Science
subject: Reuse
subject: Test
subject: Similarity

description: Test-driven reuse (TDR) proposes to find reusable source code through the provision of test cases describing the functionality of interest to a developer. The vocabulary and design of the interface of the function under test is used as the basis of selecting potentially relevant candidate functions to be tested. This approach requires that the searcher know—or correctly guess—the solution’s interface vocabulary and design. However, semantic similarity neither implies nor is implied by syntactic or structural similarity. According to empirical studies, behaviourally similar code of independent origin can be syntactically very dissimilar. We believe test cases that exercise a function provide additional facts for describing its semantics. Therefore, the thesis of this dissertation is that by modelling tests—in addition to function interfaces—the odds of finding semantically relevant source code is improved. Additionally, to facilitate similarity comparisons and improve performance, we propose a multi-representation approach to building a reuse library. To validate these claims we created a similarity model using lexical, structural, and data flow attributes of test cases. Four similarity heuristics utilize this model to independently find relevant test cases that exercise similar functionality. We developed a proof of concept TDR tool, called Reviver, that finds existing test cases exercising similar functions once given a new set of test cases. Using Reviver a developer writing tests for a new functionality can reuse or learn from similar functions developed in the past. We evaluated the effectiveness of Reviver in a controlled study using tasks and their manually generated approximations. We experimented with different configurations of Reviver and found that overall the combination of lexical and data flow similarity heuristics is more likely to find an existing implementation of the function under test. Our results confirm that lexical, structural, and data flow facts in the test cases exercising a function—in addition to the interface of function under test—improve selection of semantically relevant functions.
Diplodus Rafinesque 1810
Creators: name: Siddiqui, Pirzada Jamal
name: Amir, Shabir Ali
name: Masroor, Rafaqat
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Perciformes
Sparidae
Diplodus

description: Genus Diplodus Rafinesque, 1810
 Diplodus Rafinesque, 1810: 26, 54.
 Diagnosis. Body oval, deep and compressed, head moderate. Mouth small and slightly oblique and somewhat protectile. Dorsal fin spines strong, normally graduate, not filamentous. In front of both jaws more than 6 enlarged incisiform teeth, followed by 1–3 rows of small molars. Preopercle flange and interorbital naked. More than 5 scale rows between 5th dorsal fin spine base to lateral line. Sixteen valid species, two in Pakistani waters.
description: Published as part of Siddiqui, Pirzada Jamal, Amir, Shabir Ali & Masroor, Rafaqat, 2014, The sparid fishes of Pakistan, with new distribution records, pp. 71-100 in Zootaxa 3857 (1) on page 83, DOI: 10.11646/zootaxa.3857.1.3, http://zenodo.org/record/228181
Radiation Magnetohydrodynamics for Black Hole-Torus System in Full General Relativity: A Step toward Physical Simulation
Creators: name: Shibata, Masaru
name: Sekiguchi, Yuichiro
Publisher: name: arXiv
Year: 2012
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: A radiation-magnetohydrodynamic simulation for the black hole-torus system is performed in the framework of full general relativity for the first time. A truncated moment formalism is employed for a general relativistic neutrino radiation transport. Several systems in which the black hole mass is $M_{\rm BH}=3$ or $6M_{\odot}$, the black hole spin is zero, and the torus mass is $\approx 0.14$--$0.38M_{\odot}$ are evolved as models of the remnant formed after the merger of binary neutron stars or black hole-neutron star binaries. The equation of state and microphysics for the high-density and high-temperature matter are phenomenologically taken into account in a semi-quantitative manner. It is found that the temperature in the inner region of the torus reaches $\agt 10$ MeV which enhances a high luminosity of neutrinos $\sim 10^{51}$ ergs/s for $M_{\rm BH}=6M_{\odot}$ and $\sim 10^{52}$ ergs/s for $M_{\rm BH}=3M_{\odot}$. It is shown that neutrinos are likely to be emitted primarily toward the outward direction in the vicinity of the rotational axis and their energy density may be high enough to launch a low-energy short gamma-ray burst via the neutrino-antineutrino pair-annihilation process with the total energy deposition $\sim 10^{47}$--$10^{49}$ ergs. It is also shown in our model that for $M_{\rm BH}=3M_{\odot}$, the neutrino luminosity is larger than the electromagnetic luminosity while for $M_{\rm BH}=6M_{\odot}$, the neutrino luminosity is comparable to or slightly smaller than the electromagnetic luminosity.
description: 25 pages, 7 figures with low resolution
Sideshow revisited : Cambodia and the failure of American diplomacy, 1973
Creators: name: Dunlop, Philip
Publisher: name: University of British Columbia
Year: 2010

description: After the Paris Peace Agreement formally ended America’s involvement in the Vietnam war in January 1973, there still remained the unsettled issue of Cambodia, embroiled in a civil war between a coalition of insurgents (including the Khmer Rouge, the Cambodian communist party destined for infamy) and an American-backed regime in Phnom Penh. In the months between the Paris Agreement and the US Congress’ forced cessation of American military activities in August 1973, the Nixon administration sought a diplomatic solution to its Cambodian problem, but the details of this period remain contested. Henry Kissinger, Nixon’s top diplomat, has consistently maintained that he was engaged in delicate negotiations with his counterparts in Hanoi and Beijing in an attempt to broker a settlement between the warring Cambodian factions, but that Congress’ actions deprived him of the necessary leverage to bring it to fruition; that Cambodia fell to the Khmer Rouge, therefore, was Congress’ responsibility, and not the administration’s. Using primary documents that have become available in recent years, it is now possible to test Kissinger’s claims by partially reconstructing the diplomatic activity that took place in the corridors of power in Hanoi, Beijing, Paris and Washington. Examination of the available record indicates that Kissinger’s claims are disingenuous at best; although he did have extended discussions with Le Duc Tho, Zhou Enlai and others about the Cambodian issue, these talks were tedious, repetitive and not conducive to any kind of breakthrough. Moreover, upon scrutiny, Kissinger’s interlocutors appeared to be sending subtle messages to the Americans that the solution to the Cambodian problem was to be found through direct contact with the insurgency, rather than through Beijing or Hanoi. These signals were, however, ignored by a diplomatic crew that, despite Kissinger’s reputation for strategic brilliance, proved unimaginative and obstinate, with tragic results for the Cambodian people.
Vortex phase matching of a self-propelled model of fish with autonomous fin motion
Creators: name: Ito, Susumu
name: Uchida, Nariya
Publisher: name: arXiv
Year: 2023
Subjects: subject: Biological Physics (physics.bio-ph)
subject: Adaptation and Self-Organizing Systems (nlin.AO)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences

description: It has been a long-standing problem how schooling fish optimize their motion by exploiting the vortices shed by the others. A recent experimental study showed that a pair of fish reduce energy consumption by matching the phases of their tailbeat according to their distance. In order to elucidate the dynamical mechanism by which fish control the motion of caudal fins via vortex-mediated hydrodynamic interactions, we introduce a new model of a self-propelled swimmer with an active flapping plate. The model incorporates the role of the central pattern generator network that generates rhythmic but noisy activity of the caudal muscle, in addition to hydrodynamic and elastic torques on the fin. For a solitary fish, the model reproduces a linear relation between the swimming speed and tailbeat frequency, as well as the distributions of the speed, tailbeat amplitude, and frequency. For a pair of fish, both the distribution function and energy dissipation rate exhibit periodic patterns as functions of the front-back distance and phase difference of the flapping motion. We show that a pair of fish spontaneously adjust their distance and phase difference via hydrodynamic interaction to reduce energy consumption.
description: 19 pages, 12 figures
Optimal control of vortex core polarity by resonant microwave pulses
Creators: name: Pigeau, Benjamin
name: De Loubens, Grégoire
name: Olivier, Klein
name: Riegler, Andreas
name: Lochner, Florian
name: Schmidt, Georg
name: Molenkamp, Laurens W.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: In a vortex-state magnetic nano-disk, the static magnetization is curling in the plane, except in the core region where it is pointing out-of-plane, either up or down leading to two possible stable states of opposite core polarity p. Dynamical reversal of p by large amplitude motion of the vortex core has recently been demonstrated experimentally,raising fundamental interest for potential application in magnetic storage devices. Here we demonstrate coherent control of p by single and double microwave pulse sequences, taking advantage of the resonant vortex dynamics in a perpendicular bias magnetic field. Optimization of the microwave pulse duration required to switch p allows to experimentally infer the characteristic decay time of the vortex core in the large oscillation regime. It is found to be more than twice shorter than in the small oscillation regime, raising the fundamental question of the non-linear behaviour of magnetic dissipation.
Additional file 4 of Head and neck squamous cell carcinoma cell lines have an immunomodulatory effect on macrophages independent of hypoxia and toll-like receptor 9
Creators: name: Ishizu, Tamiko
name: Eichin, Dominik
name: Padzik, Artur
name: Tuominen, Sanni
name: Grénman, Reidar
name: Salmi, Marko
name: Grönroos, Tove J.
name: Tuomela, Johanna M.
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology

description: Additional file 4. Non-activated MΦ controls M1, M2a, and M2c polarization marker expressions. (a) Following incubation with control cytokines (M1: LPS + INFγ; M2a: IL4 + IL13; M2c: TGFβ+IL10) for two days, MΦ polarization was assessed with flow cytometry. Box plots represent MFI values normalized to non-activated MΦ (nMFI), error bars 95% CI. The dotted line represents non-activated MΦ. n = 5–10 independent experiments. All markers, except CD80 in M2c, were statistically significant (p ≤ 0.05). (b) Listed p-values describing the statistical significance of M1 (green), M2a (blue), and M2c (gray) marker expressions. The tint of the color signifies the direction of the expression: darker color represents a median expression (nMFI) above NA MΦ. Similarly, lighter color represents median expression below NA MΦ.
Discovery of a Late L Dwarf: WISEP J060738.65+242953.4
Creators: name: Castro, Philip J.
name: Gizis, John E.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We discover a late-type L dwarf, WISEP J060738.65+242953.4 (W0607+2429), by comparing the Wide-field Infrared Survey Explorer (WISE) preliminary data release to the Two Micron All Sky Survey (2MASS) in search of high proper motion objects (>0.3" yr^-1). W0607+2429 was found to have a proper motion of 0.57 +/- 0.02" yr^-1. Based on colors and color-color diagrams using 2MASS and Sloan Digital Sky Survey (SDSS) photometry, we estimate the spectral type (optical) to be L8 within a spectral sub-type. Based on the spectral type estimated we find W0607+2429 to have a distance of 7.8^(+1.4)_(-1.2) pc, making it one of only four very-late L dwarfs within 10 pc, and the third closest L dwarf overall. This close L/T transition dwarf will play a pivotal role in resolving outstanding issues of condensate clouds of low temperature atmospheres.
description: 14 pages, 4 figures, accepted in ApJ
Structured IQC Synthesis of Robust $\mathcal{H}_2$ Controllers in the Frequency Domain
Creators: name: Schütte, Maximilian
name: Eichler, Annika
name: Werner, Herbert
Publisher: name: arXiv
Year: 2023
Subjects: subject: Systems and Control (eess.SY)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: The problem of robust controller synthesis for plants affected by structured uncertainty, captured by integral quadratic constraints, is discussed. The solution is optimized towards a worst-case white noise rejection specification, which is a generalization of the standard $\mathcal{H}_2$-norm to the robust setting including possibly non-LTI uncertainty. Arbitrary structural constraints can be imposed on the control solution, making this method suitable for distributed systems. The nonsmooth optimization algorithm used to solve the robust synthesis problem operates directly in the frequency domain, eliminating scalability issues for complex systems and providing local optimality certificates. The method is evaluated using a literature example and a real-world system using a novel implementation of a robust $\mathcal{H}_2$-performance bound.
description: 6 pages, 4 figures, accepted for IFAC World Congress 2023. Shortened to satisfy submission page limit (removed one numerical example and compressed remaining text)
Optimal Detector Placement in Networked Control Systems under Cyber-attacks with Applications to Power Networks
Creators: name: Nguyen, Anh Tung
name: Anand, Sribalaji C.
name: Teixeira, André M. H.
name: Medvedev, Alexander
Publisher: name: arXiv
Year: 2023
Subjects: subject: Systems and Control (eess.SY)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: This paper proposes a game-theoretic method to address the problem of optimal detector placement in a networked control system under cyber-attacks. The networked control system is composed of interconnected agents where each agent is regulated by its local controller over unprotected communication, which leaves the system vulnerable to malicious cyber-attacks. To guarantee a given local performance, the defender optimally selects a single agent on which to place a detector at its local controller with the purpose of detecting cyber-attacks. On the other hand, an adversary optimally chooses a single agent on which to conduct a cyber-attack on its input with the aim of maximally worsening the local performance while remaining stealthy to the defender. First, we present a necessary and sufficient condition to ensure that the maximal attack impact on the local performance is bounded, which restricts the possible actions of the defender to a subset of available agents. Then, by considering the maximal attack impact on the local performance as a game payoff, we cast the problem of finding optimal actions of the defender and the adversary as a zero-sum game. Finally, with the possible action sets of the defender and the adversary, an algorithm is devoted to determining the Nash equilibria of the zero-sum game that yield the optimal detector placement. The proposed method is illustrated on an IEEE benchmark for power systems.
description: 7 pages, 4 figures, accepted to IFAC 2023
Prompt: Probability-Conserved Cross Section Biasing Monte Carlo Particle Transport System
Creators: name: Pan, Zi-Yi
name: Yang, Ni
name: Tang, Ming
name: Shen, Peixun
name: Cai, Xiao-Xiao
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: An open source software package for simulating thermal neutron propagation in geometry is presented. In this system, neutron propagation can be treated by either the particle transport method or the ray-tracing method. Supported by an accurate backend scattering physics engine, this system is capable of reproducing neutron scattering experiments in complex geometries and is expected to be used in the areas of instrument characterisation, optimisation and data analysis. In this paper, the relevant theories are briefly introduced. The simulation flow and the user input syntax to control it are provided in detail. Five benchmarking simulations, focusing on different aspects of simulation and scattering techniques, are given to demonstrate the applications of this simulation system. They include an idealised total scattering instrument, a monochromatic powder diffractometer, a neutron guide, a chopper and an imaging setup for complex geometries. Simulated results are benchmarked against experimental data or well-established software packages when appropriate. Good agreements are observed.
description: 72 pages, 32 figures
Synthesis and Characterization of Molybdenum Carbide Catalytic nanoparticles for the Hydrogenation of Toluene
Creators: name: Guzman Gomez, Hector Jose
Publisher: name: Graduate Studies
Year: 2014
Subjects: subject: Chemistry--Inorganic
subject: Molybdenum carbide
subject: Poly ethylene glycol
subject: Starch

description: Current key sources to maintain a world supply of energy are heavy crude oils and bitumen. However, these unconventional oils require significant upgrading before entering refineries. A plausible efficient way to upgrade these heavy oils is developing catalysts in the nanometric range with the capability of effectively dispersing throughout the reaction media to encounter the macromolecules present in these crude oils and convert them with less energy input. In this research, a range of methodologies to form Mo2C nanoparticles were explored, with particular attention to the identification of low energy path intermediates. The synthesis of a molybdenum precursor (MoO3) in nano sizes was studied, and its conversion into active phase was achieved by the use of water soluble capping agents, such as Starch and Poly ethylene glycol (PEG), which acted as carbon sources. MoO2 was identified as an intermediate and its conversion into Mo2C was proven to occur through a path kinetically controlled at low temperatures (300-400 ºC). Nanoparticles of Mo2C and Mo oxides synthesized were fully characterized in a collaborative undertaking with the Brookhaven National Laboratory in USA. The catalytic activity of these carbonaceous polymer-derived solids was assessed in the hydrogenation of toluene. Reactions were carried out between 120-200 ºC and 70-80 psi of pressure. The activation energy for these catalysts was determined to be 44 kJ/mol. This value is in agreement with the reported activation energies for noble metals (Pt, Pd) for the same type of hydrogenation reaction. The nanoparticles synthesis path of this thesis appears to be the lowest energy original synthesis for this type of catalyst in comparison to the methodologies found in the open literature.
Anisotropic Universe Models in Brans-Dicke Theory
Creators: name: Sharif, M.
name: Waheed, Saira
Publisher: name: arXiv
Year: 2012
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: This paper is devoted to study Bianchi type I cosmological model in Brans-Dicke theory with self-interacting potential by using perfect, anisotropic and magnetized anisotropic fluids. We assume that the expansion scalar is proportional to the shear scalar and also take power law ansatz for scalar field. The physical behavior of the resulting models are discussed through different parameters. We conclude that in contrary to the universe model, the anisotropic fluid approaches to isotropy at later times in all cases which is consistent with observational data.
description: 25 pages, 20 figures