cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
A novel SPH method for investigating the role of saliva in swallowing using 4D CT images
Creators: name: Ho, Andrew Kenneth
Publisher: name: University of British Columbia
Year: 2017

description: The thesis presents novel computer methods towards simulation of oropha- ryngeal swallowing. The anatomy and motion of the human upper airway was extracted from dynamic Computed Tomography (CT) data using a novel tool and workflow. A state-of-the-art SPH method is extended to accommo- date non-Newtonian materials in the extracted geometries. A preliminary numerical experiment of six human oropharyngeal swallows using Smoothed Particle Hydrodynamics (SPH) demonstrates that the methods are robust and useful for simulation of oropharyngeal swallowing. The presence of saliva is well known to be important for mastication, swallowing, and overall oral health. However, clinical studies of patients with hyposalivation are unable to isolate the effect of saliva from other con- founding factors. The simulation presented in this thesis examines fluid boluses under lubricated and non-lubricated boundary conditions. Upon comparison with medical image data, the experiments suggest that saliva does not provide a significant lubricative effect on the bolus transit times, but it may serve to reduce residue and therefore improve overall swallowing efficacy. Our findings, while preliminary, corroborate with existing clinical research that finds that groups with hyposalivation do not have significantly different transit times with control groups, but that residue may be increased in the hyposalivation group. Previous studies using computer simulation of fluid flow in the orophar- ynx typically make use of simplified geometries. Our work uses dynamic 320-row Area Detector Computed Tomography (ADCT) images as the ba- sis for the simulations, and therefore does not require simplifying geometric assumptions. Since the data are dynamic, motion trajectories are all sup- plied by the ADCT data, and extrapolation from 2D sources such as bi-plane videofluoroscopy is not required. Processing the image data required the de- velopment of a novel workflow based on a new tool, which we call BlendSeg. We utilize and extend Unified Semi-Analytic Wall (USAW) SPH methods so that orophrayngeal swallowing simulations may be performed. These extensions include the simulation of non-Newtonian boluses, and moving 3D boundaries. Partial validation of the extended USAW SPH method is performed using canonical flows.
A unifying framework for the derivation and analysis of effective classes of one-step methods for ODEs
Creators: name: Brugnano, Luigi
name: Iavernaro, Felice
name: Trigiante, Donato
Publisher: name: arXiv
Year: 2010
Subjects: subject: Numerical Analysis (math.NA)
subject: FOS: Mathematics
subject: 65L05, 65P10

description: In this paper, we provide a simple framework to derive and analyse several classes of effective one-step methods. The framework consists in the discretization of a local Fourier expansion of the continuous problem. Different choices of the basis lead to different classes of methods, even though we shall here consider only the case of an orthonormal polynomial basis, from which a large subclass of Runge-Kutta methods is derived. The obtained results are then applied to prove, in a simplified way, the order and stability properties of Hamiltonian BVMs (HBVMs), a recently introduced class of energy preserving methods for canonical Hamiltonian systems. A few numerical tests with such methods are also included, in order to confirm the effectiveness of the methods.
description: 11 pages, 2 figures (proofs of Thms. 2.2 and 3.1 simplified)
Pressure induced Superconductivity in Topological Compound Bi2Te3
Creators: name: Zhang, J. L.
name: Zhang, S. J.
name: Weng, H. M.
name: Zhang, W.
name: Yang, L. X.
name: Liu, Q. Q.
name: Feng, S. M.
name: Wang, X. C.
name: Yu, R. C.
name: Cao, L. Z.
name: Wang, L.
name: Yang, W. G.
name: Liu, H. Z.
name: Zhao, W. Y.
name: Zhang, S. C.
name: Dai, X.
name: Fang, Z.
name: Jin, C. Q.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Materials Science (cond-mat.mtrl-sci)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Bi2Te3 compound has been theoretically predicted (1) to be a topological insulator, and its topologically non-trivial surface state with a single Dirac cone has been observed in photoemission experiments (2). Here we report that superconductivity (Tc^~3K) can be induced in Bi2Te3 as-grown single crystal (with hole-carriers) via pressure. The first-principles calculations show that the electronic structure under pressure remains to be topologically nontrivial, and the Dirac-type surface states can be well distinguished from bulk states at corresponding Fermi level. The proximity effect between superconducting bulk states and Dirac-type surface state could generate Majorana fermions on the surface. We also discuss the possibility that the bulk state could be a topological superconductor.
description: Published ahead of print December 20, 2010, doi:10.1073/pnas.1014085108
Quantum simulations of strongly coupled quark-gluon plasma
Creators: name: Filinov, V. S.
name: Ivanov, Yu. B.
name: Bonitz, M.
name: Levashov, P. R.
name: Fortov, V. E.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Nuclear Theory (nucl-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: A strongly coupled quark-gluon plasma (QGP) of heavy constituent quasiparticles is studied by a path-integral Monte-Carlo method, which improves the corresponding classical simulations by extending them to the quantum regime. It is shown that this method is able to reproduce the lattice equation of state and also yields valuable insight into the internal structure of the QGP. The results indicate that the QGP reveals liquid-like rather than gas-like properties. At temperatures just above the critical one it was found that bound quark-antiquark states still survive. These states are bound by effective string-like forces. Quantum effects turned out to be of prime importance in these simulations.
description: 8 pages, 10 figures, revised version of the contribution to proceedings of "Int. Workshop on High Density Nuclear Matter", Cape Town, 5-10 Apr., 2010
Additional file 3 of Spatial variation in gene expression of Tasmanian devil facial tumors despite minimal host transcriptomic response to infection
Creators: name: Kozakiewicz, Christopher P.
name: Fraik, Alexandra K.
name: Patton, Austin H.
name: Ruiz-Aravena, Manuel
name: Hamilton, David G.
name: Hamede, Rodrigo
name: McCallum, Hamish
name: Hohenlohe, Paul A.
name: Margres, Mark J.
name: Jones, Menna E.
name: Storfer, Andrew
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 3 Text S3. Genotyping and variant filtration workflow for RNAseq data.
Additional file 4 of Spatial variation in gene expression of Tasmanian devil facial tumors despite minimal host transcriptomic response to infection
Creators: name: Kozakiewicz, Christopher P.
name: Fraik, Alexandra K.
name: Patton, Austin H.
name: Ruiz-Aravena, Manuel
name: Hamilton, David G.
name: Hamede, Rodrigo
name: McCallum, Hamish
name: Hohenlohe, Paul A.
name: Margres, Mark J.
name: Jones, Menna E.
name: Storfer, Andrew
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 4 Fig. S4. MDS plots showing expression variation with respect to sequencing batch for each analysis. Left-hand plots show batch effects prior to correction, while right-hand plots show batch-corrected expression variation.
Antiferromagnetism and superfluidity of a dipolar Fermi gas in a 2D optical lattice
Creators: name: Liu, Bo
name: Yin, Lan
Publisher: name: arXiv
Year: 2011
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: In a dipolar Fermi gas, the dipole-dipole interaction between fermions can be turned into a dipolar Ising interaction between pseduospins in the presence of an AC electric field. When trapped in a 2D optical lattice, such a dipolar Fermi gas has a very rich phase diagram at zero temperature, due to the competition between antiferromagnetism and superfluidity. At half filling, the antiferromagnetic state is the favored ground state. The superfluid state appears as the ground state at a smaller filling factor. In between there is a phase-separated region. The order parameter of the superfluid state can display different symmetries depending on the filling factor and interaction strength, including d-wave ($d$), extend s-wave ($xs$), or their linear combination ($xs+i\times d$). The implication for the current experiment is discussed.
description: 11 pages, 3 figures, references updated
Additional file 5 of Spatial variation in gene expression of Tasmanian devil facial tumors despite minimal host transcriptomic response to infection
Creators: name: Kozakiewicz, Christopher P.
name: Fraik, Alexandra K.
name: Patton, Austin H.
name: Ruiz-Aravena, Manuel
name: Hamilton, David G.
name: Hamede, Rodrigo
name: McCallum, Hamish
name: Hohenlohe, Paul A.
name: Margres, Mark J.
name: Jones, Menna E.
name: Storfer, Andrew
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 5 Fig. S5. Heat map indicating relative expression of 14,807 genes among 19 DFTD tumor samples and 39 normal lip tissues from Tasmanian devils (19 DFTD-infected, 20 putatively uninfected). Samples are arranged as columns, with genes arranged as rows. Differential expression analyses additionally accounted for sex, locality, batch, and tissue type – indicated for each sample as colored bars above each column. Relative gene expression is shown as a gradation from red (overexpressed) to blue (underexpressed). Dendrograms indicate clustering of samples (top) and genes (right) by similarity of expression.
Korean diaspora : comparing the Chosunjok and Zainichi Koreans on their political statuses in China and Japan
Creators: name: Shim, Suhan
Publisher: name: University of British Columbia
Year: 2017

description: Many Koreans were forced to relocate to China and Japan, an involuntary diaspora, in response to the Japanese annexation of Korea in 1910. With the liberation of the Korean peninsula, the Japanese government sought to repatriate the Koreans to their homeland, a largely successful effort. With the outbreak of the Korean War in 1950, however, the Korean diasporic communities in Japan and China were forced to remain in their adopted nations, eventually forming one of the oldest Korean diasporic communities around the world. In this paper, I will discuss the involuntary Korean diaspora during the Japanese occupation of the Korean peninsula, distinguishing the Chosunjok in China and the Zainichi Koreans in Japan from other Korean diasporic communities around the world that have resulted from voluntary migrations. I will proceed to compare and contrast China and Japan’s post-war policies towards the Chosunjok and the Zainichi Koreans, respectively, focusing the differences between China and Japan’s citizenship and cultural/linguistic policies towards the Korean migrants, differences that resulted from disparities in territorial sizes and political systems. China, as a means to unify the country as a multi-ethnic state, established generous policies for ethnic minorities, whereas Japan maintained a restrictive policy towards Koreans, regarding them as alien residents as opposed to citizens. I will conclude the paper by exploring how the differing citizenship and cultural linguistic policies impacted the Chosunjok and Zainichi Koreans’ political status in respective countries.
Additional file 6 of Spatial variation in gene expression of Tasmanian devil facial tumors despite minimal host transcriptomic response to infection
Creators: name: Kozakiewicz, Christopher P.
name: Fraik, Alexandra K.
name: Patton, Austin H.
name: Ruiz-Aravena, Manuel
name: Hamilton, David G.
name: Hamede, Rodrigo
name: McCallum, Hamish
name: Hohenlohe, Paul A.
name: Margres, Mark J.
name: Jones, Menna E.
name: Storfer, Andrew
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 6 Fig. S6. Genes differentially expressed in DFTD tumors relative to normal lip tissues are enriched for various biological functions (GO-terms). Enriched biological functions are shown for genes up- and downregulated in DFTD, including functions that were enriched for both. Log2(fold enrichment) > 0 indicates overrepresented functions, while
Nuclear transparency and effective kaon-nucleon cross section from the A(e, e'K+) reaction
Creators: name: Nuruzzaman
name: Dutta, D.
name: Arrington, J.
name: Asaturyan, R.
name: Benmokhtar, F.
name: Boeglin, W.
name: Bosted, P.
name: Bruell, A.
name: Clasie, B.
name: Christy, M. E.
name: Chudakov, E.
name: Dalton, M. M.
name: Daniel, A.
name: Day, D.
name: Fassi, L. El
name: Ent, R.
name: Fenker, H. C.
name: Ferrer, J.
name: Fomin, N.
name: Gao, H.
name: Garrow, K.
name: Gaskel, D.
name: Gray, C.
name: Horn, T.
name: Huber, G. M.
name: Jones, M. K.
name: Kalantarians, N.
name: Keppel, C. E.
name: Kramer, K.
name: Li, Y.
name: Liang, Y.
name: Lung, A. F.
name: Malace, S.
name: Markowitz, P.
name: Matsumura, A.
name: Meekins, D. G.
name: Mertens, T.
name: Miyoshi, T.
name: Mkrtchyan, H.
name: Monson, R.
name: Navasardyan, T.
name: Niculescu, G.
name: Niculescu, I.
name: Okayasu, Y.
name: Opper, A. K.
name: Perdrisat, C.
name: Punjabi, V.
name: Qian, X.
name: Rauf, A. W.
name: Rodriquez, V. M.
name: Rohe, D.
name: Seely, J.
name: Segbefia, E.
name: Smith, G. R.
name: Sumihama, M.
name: Tadevosyan, V.
name: Tang, L.
name: Tvaskis, V.
name: Vulcan, W. F.
name: Wesselmann, F. R.
name: Wood, S. A.
name: Yuan, L.
name: Zheng, X. C.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We have determined the transparency of the nuclear medium to kaons from $A(e,e^{'} K^{+})$ measurements on $^{12}$C, $^{63}$Cu, and $^{197}$Au targets. The measurements were performed at the Jefferson Laboratory and span a range in four-momentum-transfer squared Q$^2$=1.1 -- 3.0 GeV$^2$. The nuclear transparency was defined as the ratio of measured kaon electroproduction cross sections with respect to deuterium, ($σ^{A}/σ^{D}$). We further extracted the atomic number ($A$) dependence of the transparency as parametrized by $T= (A/2)^{α-1}$ and, within a simple model assumption, the in-medium effective kaon-nucleon cross sections. The effective cross sections extracted from the electroproduction data are found to be smaller than the free cross sections determined from kaon-nucleon scattering experiments, and the parameter $α$ was found to be significantly larger than those obtained from kaon-nucleus scattering. We have included similar comparisons between pion- and proton-nucleon effective cross sections as determined from electron scattering experiments, and pion-nucleus and proton-nucleus scattering data.
description: 7 pages, 5 figures
Additional file 7 of Spatial variation in gene expression of Tasmanian devil facial tumors despite minimal host transcriptomic response to infection
Creators: name: Kozakiewicz, Christopher P.
name: Fraik, Alexandra K.
name: Patton, Austin H.
name: Ruiz-Aravena, Manuel
name: Hamilton, David G.
name: Hamede, Rodrigo
name: McCallum, Hamish
name: Hohenlohe, Paul A.
name: Margres, Mark J.
name: Jones, Menna E.
name: Storfer, Andrew
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 7 Fig. S7. Venn diagram showing differentially expressed genes shared between each between-locality contrast among DFTD tumors.
An optimization strategy on prion AGAAAAGA amyloid fibril molecular modeling
Creators: name: Zhang, Jiapu
Publisher: name: arXiv
Year: 2010
Subjects: subject: Computational Engineering, Finance, and Science (cs.CE)
subject: Biological Physics (physics.bio-ph)
subject: Biomolecules (q-bio.BM)
subject: Quantitative Methods (q-bio.QM)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: X-ray crystallography and nuclear magnetic resonance (NMR) spectroscopy are two powerful tools to determine the protein 3D structure. However, not all proteins can be successfully crystallized, particularly for membrane proteins. Although NMR spectroscopy is indeed very powerful in determining the 3D structures of membrane proteins, same as X-ray crystallography, it is still very time-consuming and expensive. Under many circumstances, due to the noncrystalline and insoluble nature of some proteins, X-ray and NMR cannot be used at all. Computational approaches, however, allow us to obtain a description of the protein 3D structure at a submicroscopic level. To the best of the author's knowledge, there is little structural data available to date on the AGAAAAGA palindrome in the hydrophobic region (113--120) of prion proteins, which falls just within the N-terminal unstructured region (1--123) of prion proteins. Many experimental studies have shown that the AGAAAAGA region has amyloid fibril forming properties and plays an important role in prion diseases. However, due to the noncrystalline and insoluble nature of the amyloid fibril, little structural data on the AGAAAAGA is available. This paper introduces a simple optimization strategy approach to address the 3D atomic-resolution structure of prion AGAAAAGA amyloid fibrils. Atomic-resolution structures of prion AGAAAAGA amyloid fibrils got in this paper are useful for the drive to find treatments for prion diseases in the field of medicinal chemistry.
description: Central European Journal of Bioliogy (2012) DOI: 10.2478/s11535-011-0088-7
Resonant energy transfer enhanced by off-diagonal exciton-phonon coupling
Creators: name: Wu, Ning
name: Chang, Zhe
name: Zhao, Yang
Publisher: name: arXiv
Year: 2011
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Dynamics of resonant energy transfer of a single excitation in a molecular dimer system is studied in the simultaneous presence of diagonal and off-diagonal exciton-phonon coupling. It is found that the off-diagonal coupling plays an important role in the excitation energy transfer process. Coherent transfer can be found at arbitrary temperature for a non-vanishing off-diagonal coupling strength with an oscillation frequency of site populations that increases with the off-diagonal coupling strength. Furthermore, we identify a threshold of the off-diagonal coupling strength below which there exists an optimal temperature that maximizes the total population transfer from the initially excited monomer to the acceptor monomer at long times. As the off-diagonal coupling strength is increased beyond the threshold, however, the optimal temperature is found to abruptly drop to zero.
description: This paper has been withdrawn by the authors due to a derivation error
Spin-3 Topological Massive Gravity
Creators: name: Chen, Bin
name: Long, Jiang
name: Wu, Jun-bao
Publisher: name: arXiv
Year: 2011
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In this paper, we study the spin-3 topological massive gravity(TMG), paying special attention to its properties at the chiral point. We propose an action describing the high spin fields coupled to TMG. We discuss the spin-3 fluctuations around the AdS$_3$ vacuum and find that there is an extra local massive mode, besides the left-moving and right-moving boundary massless modes. At the chiral point, such extra mode becomes massless and degenerates with the left-moving mode. We show that at the chiral point the only degrees of freedom in the theory are the boundary right-moving graviton and spin-3 field. We conjecture that spin-3 chiral gravity with Brown-Henneaux boundary condition is holographically dual to 2D chiral CFT with classical $W_3$ algebra and central charge $c_R=3l/G$.
description: 19 pages. Arguments improved,references added, published version
Additional file 1 of Studying dietary intake in daily life through multilevel two-part modelling: a novel analytical approach and its practical application
Creators: name: Ruf, Alea
name: Neubauer, Andreas B.
name: Ebner-Priemer, Ulrich
name: Reif, Andreas
name: Matura, Silke
Publisher: name: figshare
Year: 2021
Subjects: subject: Statistics
subject: FOS: Mathematics

description: Additional file 1. Bayesian Statistics. a. Brief introduction to Bayesian statistics b. Similarities and differences between Bayesian and frequentist-based two-part models.
New solutions to the $s\ell_q(2)$-invariant Yang-Baxter equations at roots of unity
Creators: name: Karakhanyan, D.
name: Khachatryan, Sh.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Mathematical Physics (math-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We find new solutions to the Yang-Baxter equations with the $R$-matrices possessing $sl_q(2)$ symmetry at roots of unity, using indecomposable representations. The corresponding quantum one-dimensional chain models, which can be treated as extensions of the XXZ model at roots of unity, are investigated. We consider the case $q^4=1$. The Hamiltonian operators of these models as a rule appear to be non-Hermitian. Taking into account the correspondence between the representations of the quantum algebra $sl_q(2)$ and the quantum super-algebra $osp_t(1|2)$, the presented analysis can be extended to the latter case for the appropriate values of the deformation parameter.
description: Improved and corrected; version to appaer in NUPHB
The impact of malnutrition on host-microbe interactions in the intestine
Creators: name: Brown, Eric
Publisher: name: University of British Columbia
Year: 2017

description: Early-life malnutrition results in childhood growth stunting, increased intestinal permeability, along with significant changes in the intestinal microbiota and metabolite composition. Here, we aim to characterize and further understand how malnutrition results in these intestinal consequences, and use this knowledge to develop a model to study environmental enteropathy (EE), a chronic inflammatory disease of the small intestine. Three-week-old C57BL/6 mice administered a protein and fat malnourished diet where compared with mice fed an isocaloric standard diet and found to be moderately growth stunted, with barrier dysfunction as observed decreased abundance of tight-junction proteins and increase in intestinal permeability to dextran. Mice given the malnourished diet were also found to have an altered small intestinal microbiota and metabolome, notably including profound changes in the Bacteroidetes and Proteobacteria species able to colonize the upper small intestine, correlated with large differences in the bile acid composition. The colon of malnourished mice had an altered mucosal microbiota composition, a thinner mucus layer and a greater number of microbes able to cross the mucus barrier was visualized by microscopy. We used these data to inform our development of a model for EE in mice. Features of EE include growth stunting, intestinal permeability, villous blunting and chronic intestinal inflammation. After screening a number of microbial cocktails, we demonstrate that early life consumption of a malnourished diet, in combination with exposure to a cocktail of Bacteroidales and E. coli species, remodels the small intestine to resemble the major features of EE observed in humans. Furthermore, this Bacteroidales and E. coli exposure induces an influx of pro-inflammatory intraepithelial lymphocytes in the small intestine, along with increased prevalence of bacterial species adhering to the epithelium, each of which could be initiating the onset of EE features. Further, we infected the malnourished mice with the enteric pathogens H. polygyrus, and S. Typhimurium, and observed striking differences in number of microbes able to colonize the small intestine. These findings provide new evidence of the intestinal impacts of malnutrition, and describe a novel murine model that can be used to elucidate the pathophysiology of this understudied disease.
Additional file 4 of Studying dietary intake in daily life through multilevel two-part modelling: a novel analytical approach and its practical application
Creators: name: Ruf, Alea
name: Neubauer, Andreas B.
name: Ebner-Priemer, Ulrich
name: Reif, Andreas
name: Matura, Silke
Publisher: name: figshare
Year: 2021
Subjects: subject: Statistics
subject: FOS: Mathematics

description: Additional file 4. Model specifications of the proposed multilevel two-part model.
An explicit counterexample to the Lagarias-Wang finiteness conjecture
Creators: name: Hare, Kevin G.
name: Morris, Ian D.
name: Sidorov, Nikita
name: Theys, Jacques
Publisher: name: arXiv
Year: 2010
Subjects: subject: Optimization and Control (math.OC)
subject: Discrete Mathematics (cs.DM)
subject: Dynamical Systems (math.DS)
subject: Rings and Algebras (math.RA)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences
subject: 15A18, 15A60, 37B10, 65K10, 68R15

description: The joint spectral radius of a finite set of real $d \times d$ matrices is defined to be the maximum possible exponential rate of growth of long products of matrices drawn from that set. A set of matrices is said to have the \emph{finiteness property} if there exists a periodic product which achieves this maximal rate of growth. J.C. Lagarias and Y. Wang conjectured in 1995 that every finite set of real $d \times d$ matrices satisfies the finiteness property. However, T. Bousch and J. Mairesse proved in 2002 that counterexamples to the finiteness conjecture exist, showing in particular that there exists a family of pairs of $2 \times 2$ matrices which contains a counterexample. Similar results were subsequently given by V.D. Blondel, J. Theys and A.A. Vladimirov and by V.S. Kozyakin, but no explicit counterexample to the finiteness conjecture has so far been given. The purpose of this paper is to resolve this issue by giving the first completely explicit description of a counterexample to the Lagarias-Wang finiteness conjecture. Namely, for the set \[ \mathsf{A}_{α_*}:= \{({cc}1&1\\0&1), α_*({cc}1&0\\1&1)\}\] we give an explicit value of α_* \simeq 0.749326546330367557943961948091344672091327370236064317358024...] such that $\mathsf{A}_{α_*}$ does not satisfy the finiteness property.
description: 27 pages, 2 figures
Additional file 5 of Studying dietary intake in daily life through multilevel two-part modelling: a novel analytical approach and its practical application
Creators: name: Ruf, Alea
name: Neubauer, Andreas B.
name: Ebner-Priemer, Ulrich
name: Reif, Andreas
name: Matura, Silke
Publisher: name: figshare
Year: 2021
Subjects: subject: Statistics
subject: FOS: Mathematics

description: Additional file 5: Density and Trace Plots. Figure 1. Density and Trace Plots of the Random Intercept Model with Level-2 predictor gender. Figure 2. Density and Trace Plots of the Random Slope Model with Level-1 predictor energetic arousal (EA).
A low-energy effective Yang-Mills theory for quark and gluon confinement
Creators: name: Kondo, Kei-Ichi
Publisher: name: arXiv
Year: 2011
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: High Energy Physics - Lattice (hep-lat)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We derive a gauge-invariant low-energy effective model of the Yang-Mills theory. We find that the effective gluon propagator belongs to the Gribov-Stingl type and agrees with it when a mass term which breaks nilpotency of the BRST symmetry is included. We show that the effective model with gluon propagator of the Gribov-Stingl type exhibits both quark and gluon confinement: the Wilson loop average has the area law and the Schwinger function violates reflection positivity. However, we argue that both quark and gluon confinement can be obtained even in the absence of such a mass term.
description: 5 pages, no figures; accepted for publication in Physical Review D (Rapid Communication)
Majorana fermions on a disordered triangular lattice
Creators: name: Kraus, Yaacov E.
name: Stern, Ady
Publisher: name: arXiv
Year: 2011
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Other Condensed Matter (cond-mat.other)
subject: FOS: Physical sciences

description: Vortices of several condensed matter systems are predicted to have zero-energy core excitations which are Majorana fermions. These exotic quasi-particles are neutral, massless, and expected to have non-Abelian statistics. Furthermore, they make the ground state of the system highly degenerate. For a large density of vortices, an Abrikosov lattice is formed, and tunneling of Majorana fermions between vortices removes the energy degeneracy. In particular the spectrum of Majorana fermions in a triangular lattice is gapped, and the Hamiltonian which describes such a system is antisymmetric under time-reversal. We consider Majorana fermions on a disordered triangular lattice. We find that even for very weak disorder in the location of the vortices localized sub-gap modes appear. As the disorder becomes strong, a percolation phase transition takes place, and the gap is fully closed by extended states. The mechanism that underlies these phenomena is domain walls between two time-reversed phases, which are created by flipping the sign of the tunneling matrix elements. The density of states in the disordered lattice seems to diverge at zero energy.
description: 19 pages, 10 figures
Quantum anomalous Hall states in the $p$-orbital honeycomb optical lattices
Creators: name: Zhang, Machi
name: Hung, Hsiang-hsuan
name: Zhang, Chuanwei
name: Wu, Congjun
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: We study the quantum anomalous Hall states in the $p$-orbital bands of the honeycomb optical lattices loaded with the single component fermions. Such an effect has not been realized in both condensed matter and cold atom systems yet. By applying the available experimental technique developed by Gemelke \textit{et al.} to rotate each lattice site around its own center, the band structures become topologically non-trivial. At a certain rotation angular velocity $Ω$, a flat band structure appears with localized eigenstates carrying chiral current moments. With imposing the soft confining potential, the density profile exhibits a wedding-cake shaped distribution with insulating plateaus at commensurate fillings. Moreover, the inhomogeneous confining potential induces dissipationless circulation currents whose magnitudes and chiralities vary with the distance from the trap center. In the insulating regions the Hall conductances are quantized, and in the metallic regions the directions and magnitudes of chiral currents cannot be described by the usual local-density-approximation. The quantum anomalous Hall effects are robust at temperature scales small compared to band gaps, which increases the feasibility of experimental realizations.
description: 15 pages, 13 figures
Large-scale Bright Fronts in the Solar Corona: A Review of "EIT waves"
Creators: name: Gallagher, Peter T.
name: Long, David M.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: ``EIT waves" are large-scale coronal bright fronts (CBFs) that were first observed in 195 Å images obtained using the Extreme-ultraviolet Imaging Telescope (EIT) onboard the \emph{Solar and Heliospheric Observatory (SOHO)}. Commonly called ``EIT waves", CBFs typically appear as diffuse fronts that propagate pseudo-radially across the solar disk at velocities of 100--700 km s$^{-1}$ with front widths of 50-100 Mm. As their speed is greater than the quiet coronal sound speed ($c_s\leq$200 km s$^{-1}$) and comparable to the local Alfvén speed ($v_A\leq$1000 km s$^{-1}$), they were initially interpreted as fast-mode magnetoacoustic waves ($v_{f}=(c_s^2 + v_A^2)^{1/2}$). Their propagation is now known to be modified by regions where the magnetosonic sound speed varies, such as active regions and coronal holes, but there is also evidence for stationary CBFs at coronal hole boundaries. The latter has led to the suggestion that they may be a manifestation of a processes such as Joule heating or magnetic reconnection, rather than a wave-related phenomena. While the general morphological and kinematic properties of CBFs and their association with coronal mass ejections have now been well described, there are many questions regarding their excitation and propagation. In particular, the theoretical interpretation of these enigmatic events as magnetohydrodynamic waves or due to changes in magnetic topology remains the topic of much debate.
description: 34 pages, 19 figures
Finite-time quantum-to-classical transition for a Schroedinger-cat state
Creators: name: Paavola, Janika
name: Hall, Michael J. W.
name: Paris, Matteo G. A.
name: Maniscalco, Sabrina
Publisher: name: arXiv
Year: 2011
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The transition from quantum to classical, in the case of a quantum harmonic oscillator, is typically identified with the transition from a quantum superposition of macroscopically distinguishable states, such as the Schrödinger cat state, into the corresponding statistical mixture. This transition is commonly characterized by the asymptotic loss of the interference term in the Wigner representation of the cat state. In this paper we show that the quantum to classical transition has different dynamical features depending on the measure for nonclassicality used. Measures based on an operatorial definition have well defined physical meaning and allow a deeper understanding of the quantum to classical transition. Our analysis shows that, for most nonclassicality measures, the Schrödinger cat dies after a finite time. Moreover, our results challenge the prevailing idea that more macroscopic states are more susceptible to decoherence in the sense that the transition from quantum to classical occurs faster. Since nonclassicality is prerequisite for entanglement generation our results also bridge the gap between decoherence, which appears to be only asymptotic, and entanglement, which may show a sudden death. In fact, whereas the loss of coherences still remains asymptotic, we have shown that the transition from quantum to classical can indeed occur at a finite time.
description: 9+epsilon pages, 4 figures, published version. Originally submitted as "Sudden death of the Schroedinger cat", a bit too cool for APS policy :-)
Real stabilization of resonance states employing two parameters: basis set size and coordinate scaling
Creators: name: Pont, Federico M.
name: Serra, Pablo
name: Osenda, Omar
Publisher: name: arXiv
Year: 2010
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: The resonance states of one- and two-particle Hamiltonians are studied using variational expansions with real basis-set functions. The resonance energies, $E_r$, and widths, $Γ$, are calculated using the density of states and an ${\mathcal L}^2$ golden rule-like formula. We present a recipe to select adequately some solutions of the variational problem. The set of approximate energies obtained shows a very regular behaviour with the basis-set size, $N$. Indeed, these particular variational eigenvalues show a quite simple scaling behaviour and convergence when $N\rightarrow \infty$. Following the same prescription to choose particular solutions of the variational problem we obtain a set of approximate widths. Using the scaling function that characterizes the behaviour of the approximate energies as a guide, it is possible to find a very good approximation to the actual value of the resonance width.
description: 21 pages, 7 figures (accepted for publication in Journal of Physics B.)
Additional file 6 of Studying dietary intake in daily life through multilevel two-part modelling: a novel analytical approach and its practical application
Creators: name: Ruf, Alea
name: Neubauer, Andreas B.
name: Ebner-Priemer, Ulrich
name: Reif, Andreas
name: Matura, Silke
Publisher: name: figshare
Year: 2021
Subjects: subject: Statistics
subject: FOS: Mathematics

description: Additional file 6: Model Summaries. Figure 1. Model summary of the Random Intercept Model with Level-2 predictor gender. Figure 2. Model summary of the Random Slope Model with Level-1 predictor energetic arousal (EA).
Semiclassical approach to fidelity amplitude
Creators: name: García-Mata, Ignacio
name: Vallejos, Raúl O.
name: Wisniacki, Diego A.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Chaotic Dynamics (nlin.CD)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The fidelity amplitude is a quantity of paramount importance in echo type experiments. We use semiclassical theory to study the average fidelity amplitude for quantum chaotic systems under external perturbation. We explain analytically two extreme cases: the random dynamics limit --attained approximately by strongly chaotic systems-- and the random perturbation limit, which shows a Lyapunov decay. Numerical simulations help us bridge the gap between both extreme cases.
description: 10 pages, 9 figures. Version closest to published version
Resonant enhancement of the FFLO-state in 3D by a one-dimensional optical potential
Creators: name: Devreese, Jeroen P. A.
name: Klimin, Sergei N.
name: Tempere, Jacques
Publisher: name: arXiv
Year: 2010
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: We describe an imbalanced superfluid Fermi gas in three dimensions within the path-integral framework. To allow for the formation of the Fulde-Ferell-Larkin-Ovchinnikov-state (FFLO-state), a suitable form of the saddle-point is chosen, in which the pairs have a finite centre-of-mass momentum. To test the correctness of this path-integral description, the zero-temperature phase diagram for an imbalanced Fermi gas in three dimensions is calculated, and compared to recent theoretical results. Subsequently, we investigate two models that describe the effect of imposing a one-dimensional optical potential on the 3D imbalanced Fermi gas. We show that this 1D optical potential can greatly enlarge the stability region of the FFLO-state, relative to the case of the 3D Fermi gas without 1D periodic modulation. Furthermore it is show that there exists a direct connection between the centre-of-mass momentum of the FFLO-pairs and the wavevector of the optical potential. We propose that this concept can be used experimentally to resonantly enhance the stability region of the FFLO-state.
description: 19 pages 6 figures; added references; Accepted to Physical Review A (Dec 15, 2010)
From streams to citizens : a multi-lens investigation of water quality through carbon cycles and participation within water science and policy
Creators: name: Jollymore, Ashlee
Publisher: name: University of British Columbia
Year: 2017

description: Water management approaches that are scientifically sound and societally relevant are critical, given the myriad demands and threats posed to this resource and its necessity for environmental and human life. This thesis reflects the inherently complex and multifaceted nature of water management by investigating issues of water quality, as well as societal participation within science outlining the health of water resources, and policy that determines admissible human impacts. First, the technical details of deploying in situ water quality monitoring networks are examined, given challenges of installing sensitive and costly sensors within remote and physically dynamic stream environments. A year of high frequency measurements explicates the necessity of measuring concentrations at adequate time intervals to accurately calculate fluxes of dissolved organic carbon (DOC). Secondly, these spectrophotometric approaches were used to investigate how forest harvest affects in-stream DOC biogeochemistry within a small headwater stream on Vancouver Island, British Columbia. Forest harvest has a large impact on catchment biogeochemistry and hydrology. Harvest increases DOC concentration and flux within the stream. It also alters the chemical composition of DOC, signifying impacts on the catchment scale mechanisms by which DOC is created and transported. Thirdly, the impacts of citizen participation on scientific data outcomes within the burgeoning field of citizen science are detailed. Six critical lessons learned were distilled from a citizen science water quality monitoring program (concerning DOC concentration and characteristics). Scientific data was used alongside qualitative vignettes to explicate the importance of citizen perspectives, contextual knowledge, and motivations for involvement on critical data outcomes. Lastly, the process and outcomes of public participation through consultation in the creation of provincial-level water policy are discussed. The extensive public consultation process undertaken during the modernization of BC’s Water Sustainability Act was used to examine what was expressed during consultation, and how this compared to the contents of the Act. Differences between consultation outcomes and Act contents (especially related to water allocation) bring to bear questions regarding the function of consultation within participatory policy processes, including how consultation was (and should be) used, and the possible influence of elite groups.
Additional file 1 of Relationship among bats, parasitic bat flies, and associated pathogens in Korea
Creators: name: Lee, Haeseung
name: Seo, Min-Goo
name: Lee, Seung-Hun
name: Oem, Jae-Ku
name: Kim, Seon-Hee
name: Jeong, Hyesung
name: Kim, Yongkwan
name: Jheong, Weon-Hwa
name: Kwon, Oh-Deog
name: Kwak, Dongmi
Publisher: name: figshare
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics

description: Additional file 1: Table S1. Primers used for species identification of bat flies and pathogen detection in bat flies.
Generation of Noise Time Series with arbitrary Power Spectrum
Creators: name: Carrettoni, M.
name: Cremonesi, O.
Publisher: name: arXiv
Year: 2010
Subjects: subject: Data Analysis, Statistics and Probability (physics.data-an)
subject: FOS: Physical sciences

description: Noise simulation is a very powerful tool in signal analysis helping to foresee the system performance in real experimental situations. Time series generation is however a hard challenge when a robust model of the noise sources is missing. We present here a simple computational technique which allows the generation of noise samples of fixed length, given a desired power spectrum. A few applications of the method are also discussed.
description: 4 pages, 7 figures
Legacies of violence : Sikh women in Delhi's "Widow Colony"
Creators: name: Arora, Kamal
Publisher: name: University of British Columbia
Year: 2017

description: This dissertation examines how Sikh women who survived the anti-Sikh massacre in 1984 in Delhi, India, cope with the long-term legacies of violence and trauma amid the backdrop of the urban space of the city. After the assassination of then Prime Minister Indira Gandhi by her Sikh bodyguards, approximately thirty-five hundred Sikh men were killed in October and November 1984. Many of the survivors, Sikh widows and their families, were relocated shortly after to the “Widow Colony,” a designated slum also known as Tilak Vihar, within the boundary of Tilak Nagar in West Delhi, as a means of rehabilitation and compensation. The work arises from fieldwork carried out between December 2012 and March 2014. I begin by discussing in depth the space of the Widow Colony and its relation to the rest of the city of Delhi. I then analyze the events of the 1984 massacre through the narratives of Sikh widows and how they remember their experiences of violence. I discuss how violence can have long-term ramifications for everyday life in arenas such as kinship networks, economic stability, health and wellness, and social life. These experiences are further amplified by gender, caste, and class. I also examine the impact of the stigma of widowhood in this community. This research seeks to interrogate how memories of violence inform, and are constituted by, embodied, affective practices carried out in a gendered space produced by the state. I argue that Sikh widows cope with long-term trauma by creating new forms of sociality and memory through their everyday lives and religious practices in the Widow Colony. The memory of the 1984 violence figures heavily among the Sikh diaspora. Thus, I also explore the relationship between the Widow Colony and Sikhs in the transnational arena.
ESTABLISHMENT OF THE KIFILIDEEN, LUKMON AND FATIMO SCALES IN THE DETERMINATION OF THE MAGNITUDE OF POPULATION OF ANY PARTICULAR ENTITY AND OTHER DEVELOPMENT
Creators: name: Lekan, Osanyinpeju Kifilideen
name: Lukmon A.  Osanyinpeju
name: Fatimo F. Osanyinpeju
Publisher: name: Zenodo
Year: 2023
Subjects: Antikifilideen table
Kifilideen Scales

description: The magnitude of a population of a particular entity such as human being, plant, animal, bacteria and virus present in a state, nation or location determine the strength and the weakness of such state, nation or location. Knowing the magnitude of the population of the entity would help to figure the intensity and impact of such entity in the area. This study established the Kifilideen, Lukmon and
 Fatimo scales to determine the magnitude of the population of any particular entity of a state, nation or location. The research work also inaugurated the Lukmon (power of base 3) and AntiLumon (antipower of base 3) with Fatimo (power of base 8) and AntiFatimo (antipower of base 8) tables in evaluating the magnitude of the population of an entity. The study provides the magnitude of the population of any particular entities such as human being, bacteria and plant to determine the impact of the entity in the location. Keywords: Antikifilideen table, Kifilideen table, Kifilideen Scales, Entity, Population, Population Scales, Lukmon table, Fatimo table, AntiLukmon table, AntiFatimo table
Additional file 2 of Relationship among bats, parasitic bat flies, and associated pathogens in Korea
Creators: name: Lee, Haeseung
name: Seo, Min-Goo
name: Lee, Seung-Hun
name: Oem, Jae-Ku
name: Kim, Seon-Hee
name: Jeong, Hyesung
name: Kim, Yongkwan
name: Jheong, Weon-Hwa
name: Kwon, Oh-Deog
name: Kwak, Dongmi
Publisher: name: figshare
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics

description: Additional file 2: Table S2. PCR conditions.
Directed transport in driven optical lattices by phase generation
Creators: name: Creffield, C. E.
name: Sols, F.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: We examine the dynamics of ultracold atoms held in optical lattice potentials. By controlling the switching of a periodic driving potential we show how a phase-induced renormalization of the intersite tunneling can be used to produce directed motion and control wavepacket spreading. We further show how this generation of a synthetic gauge potential can be used to split and recombine wavepackets, providing an attractive route to implementing quantum computing tasks.
description: 4.1 pages, 4 eps figures. Minor changes, to be published in Phys. Rev. A