cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
A CRISE DA REPRODUTIBILIDADE NA CIÊNCIA: OS DESAFIOS NA MICROBIOLOGIA
Creators: name: Mychelle Pacheco De Souza
name: Laboratório De Microbiologia Experimental E Aplicada
Publisher: name: OSF Registries
Year: 2022
Subjects: subject: Medical Sciences
subject: Organisms
subject: Medicine and Health Sciences
subject: Fungi
subject: Medical Education
subject: Bioethics and Medical Ethics
subject: Medical Microbiology
subject: FOS: Health sciences
subject: Bacteria
subject: #reproducibility #microbiology

description: O trabalho faz uma revisão de literatura sobre a crise de reprodutibilidade na ciência e faz um levantamento de questões que podem afetar a reprodução de experimentos em um laboratório de Microbiologia. This work is a reviews on the reproducibility crisis in science and make questions about issues that may affect the reproduction of experiments in a Microbiology laboratory.
Probing the Circumgalactic Medium at High-Redshift Using Composite BOSS Spectra of Strong Lyman-alpha Forest Absorbers
Creators: name: Pieri, Matthew M.
name: Mortonson, Michael J.
name: Frank, Stephan
name: Crighton, Neil
name: Weinberg, David H.
name: Lee, Khee-Gan
name: Noterdaeme, Pasquier
name: Bailey, Stephen J.
name: Busca, Nicolas
name: Ge, Jian
name: Kirkby, David
name: Lundgren, Britt
name: Mathur, Smita
name: Paris, Isabelle
name: Palanque-Delabrouille, Nathalie
name: Petitjean, Patrick
name: Rich, James
name: Ross, Nicholas P.
name: Schneider, Donald P.
name: York, Donald G.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We present composite spectra constructed from a sample of 242,150 Lyman-alpha (Lya) forest absorbers at redshifts 2.4
description: 23 pages, 15 figures, 5 tables, link to downloadable data included. Accepted by MNRAS 2014 March 20. New sections 3.4 and 6.1 limiting the occurrence and impact of Lyman limit systems
Additional file 2 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 2: Table S2. Individual energy, nutrient and food intake of all volunteers assessed by food frequency questionnaire (FFQ).
Hidden scaling patterns and universality in written communication
Creators: name: Formentin, M.
name: Lovison, A.
name: Maritan, A.
name: Zanzotto, G.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Physics and Society (physics.soc-ph)
subject: Probability (math.PR)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: The temporal statistics exhibited by written correspondence appear to be media dependent, with features which have so far proven difficult to characterize. We explain the origin of these difficulties by disentangling the role of spontaneous activity from decision-based prioritizing processes in human dynamics, clocking all waiting times through each agent's `proper time' measured by activity. This unveils the same fundamental patterns in written communication across all media (letters, email, sms), with response times displaying truncated power-law behavior and average exponents near -3/2. When standard time is used, the response time probabilities are theoretically predicted to exhibit a bi-modal character, which is empirically borne out by our new years-long data on email. These novel perspectives on the temporal dynamics of human correspondence should aid in the analysis of interaction phenomena in general, including resource management, optimal pricing and routing, information sharing, emergency handling.
description: 27 pages, 10 figures
Additional file 3 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 3: Table S3. Read statistics.
Canonical approach to the closed string noncommutativity
Creators: name: Davidovic, Ljubica
name: Nikolic, Bojan
name: Sazdovic, Branislav
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We consider the closed string moving in the weakly curved background and its totally T-dualized background. Using T-duality transformation laws, we find the structure of the Poisson brackets in the T-dual space corresponding to the fundamental Poisson brackets in the original theory. From this structure we obtain that the commutative original theory is equivalent to the non-commutative T-dual theory, whose Poisson brackets are proportional to the background fluxes times winding and momenta numbers. The non-commutative theory of the present article is more nongeometrical then T-folds and in the case of three space-time dimensions corresponds to the nongeometric space-time with $R$-flux.
description: We add the Sec. 4. where we compared our results with previous ones. We also improved Abstract, Introduction and Conclusion as described above. In addition, we corrected all typos and grammatical errors we noticed
Face identification and choice blindness
Creators: name: Baker, Kristen A.
Publisher: name: OSF Registries
Year: 2023
Subjects: subject: Social and Behavioral Sciences
subject: Psychology
subject: FOS: Psychology

description: This is a pre-registration regarding face identification and choice blindness. Little is known about whether choice blindness is stable across time and what might predict state or trait levels of choice blindness (for examples of significant and non-significant predictors see Sagana et al., 2014; Strandberg et al., 2018; Strandberg et al., 2019).
Triple point induced by targeted autonomization on interdependent scale free networks
Creators: name: Valdez, L. D.
name: Macri, P. A.
name: Braunstein, L. A.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Physics and Society (physics.soc-ph)
subject: FOS: Physical sciences

description: Many man-made networks support each other to provide efficient services and resources to the customers, despite that this support produces a strong interdependency between the individual networks. Thus an initial failure of a fraction $1-p$ of nodes in one network, exposes the system to cascade of failures and, as a consequence, to a full collapse of the overall system. Therefore it is important to develop efficient strategies to avoid the collapse by increasing the robustness of the individual networks against failures. Here, we provide an exact theoretical approach to study the evolution of the cascade of failures on interdependent networks when a fraction $α$ of the nodes with higher connectivity in each individual network are autonomous. With this pattern of interdependency we found, for pair of heterogeneous networks, two critical percolation thresholds that depend on $α$, separating three regimes with very different network's final sizes that converge into a triple point in the plane $p-α$. Our findings suggest that the heterogeneity of the networks represented by high degree nodes is the responsible of the rich phase diagrams found in this and other investigations.
description: Journal of Physics A: Mathematical and Theoretical, 47 (2014) 055002
From Steiner Formulas for Cones to Concentration of Intrinsic Volumes
Creators: name: McCoy, Michael B.
name: Tropp, Joel A.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Metric Geometry (math.MG)
subject: FOS: Mathematics
subject: Primary: 52A22, 60D05, Secondary: 52A20

description: The intrinsic volumes of a convex cone are geometric functionals that return basic structural information about the cone. Recent research has demonstrated that conic intrinsic volumes are valuable for understanding the behavior of random convex optimization problems. This paper develops a systematic technique for studying conic intrinsic volumes using methods from probability. At the heart of this approach is a general Steiner formula for cones. This result converts questions about the intrinsic volumes into questions about the projection of a Gaussian random vector onto the cone, which can then be resolved using tools from Gaussian analysis. The approach leads to new identities and bounds for the intrinsic volumes of a cone, including a near-optimal concentration inequality.
description: This version corrects errors in Propositions 3.3 and 3.4 and in Lemma 8.3 that appear in the published version
Genuinely multi-point temporal quantum correlations and universal measurement-based quantum computing
Creators: name: Markiewicz, Marcin
name: Przysiezna, Anna
name: Brierley, Stephen
name: Paterek, Tomasz
Publisher: name: arXiv
Year: 2013
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We introduce a constructive procedure that maps all spatial correlations of a broad class of states into temporal correlations between general quantum measurements. This allows us to present temporal phenomena analogous to genuinely multipartite nonlocal phenomena, such as Greenberger-Horne-Zeilinger correlations, which do not exist if only projective measurements on qubits are considered. The map is applied to certain lattice systems in order to replace one spatial dimension with a temporal one, without affecting measured correlations. We use this map to show how repeated application of a 1d-cluster-gate leads to universal one-way quantum computing when supplemented with the general measurements.
description: New presentation of relations between temporal quantum correlations and measurement based quantum computing
On higher spin extension of the Jackiw-Teitelboim gravity model
Creators: name: Alkalaev, K. B.
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We formulate AdS_2 higher spin gravity as BF theory with fields taking values in sl(N,R) algebra treated as higher spin algebra. The theory is topological and naturally extends the Jackiw-Teitelboim gravity model so as to include higher spin fields. The BF equations linearized about AdS_2 background are interpreted as describing higher spin partially-massless fields of maximal depth along with dilaton fields. It is shown that there are dual metric-like formulations following from the original linearized BF higher spin theory. The duality establishes a dynamical equivalence of the metric-like field equations that can be given either as massive scalar field equations or as conservation conditions for higher spin currents.
description: 12 pages, v2: refs added, a note added; v3: more comments, typos removed, refs added. To appear in J. Phys. A
Perturbative 3-charge microstate geometries in six dimensions
Creators: name: Shigemori, Masaki
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We construct a set of supersymmetric geometries that represent regular microstates of the D1-D5-P 3-charge system, using the solution generating technique of hep-th/0311092. These solutions are constructed as perturbations around the maximally rotating D1-D5 solution at the linear order, and depend on the coordinate of S^1 on which the D1- and D5-branes are wrapped. In the framework of six-dimensional supergravity developed by Gutowski, Martelli and Reall [hep-th/0306235], these solutions have a 4-dimensional base that depend on the S^1 coordinate v. The v-dependent base is expected of the superstratum solutions which are parametrized by arbitrary surfaces, and these solutions give a modest step toward their explicit construction.
description: 25 pages. v4: a typo corrected
DIFFERENT EXTRACELLULAR VESICLES SUBPOPULATIONS CHARACTERIZE METASTATIC PROGRESSION: QUALITATIVE AND QUANTITATIVE ANALYSIS OF ISOGENIC MELANOMA CELL LINES AND THEIR SECRETED FACTORS
Creators: name: BERNARDELLI, CLARA
Publisher: name: Universit� degli Studi di Milano
Year: 2018

description: The survival and proliferation of metastases is a consequence of the pre-metastatic niche (PMN) evolution, an abnormal, tumor growth-favoring microenvironment devoid of cancer cells. Among tumor derived secreted factors, extracellular vesicles (EVs) are key players in PMN establishment and facilitate organotropic metastasis. Compared to normal melanocytes, melanoma cells produce a large quantity of EVs, that can be detected in the plasma of melanoma patients. For this reason, a full characterization of secreted vesicles subpopulations and of their cargo is necessary to understand how EVs affect PMN formation. In this study, we demonstrated for the first time that EVs secreted by isogenic primary tumor and metastatic melanoma cell lines are quantitatively and qualitatively different, suggesting that diverse EVs subpopulations characterize metastatic progression. We also set a deep quantitative proteomics protocol to analyze the proteome of these cells and of their EVs and soluble secreted factors. WNT5A was found as an important component of primary tumor secreted EVs; on the contrary, we observed a specific APOE and Fibronectin sorting to EVs in in metastasis versus primary tumor cell. Finally, we observed that increased levels of RAB27A protein in metastatic cells do not correlate with an increased EVs secretion. Our preliminary results demonstrate that EVs secreted by RAB27A-KD cells maintain cancer cells clonogenic ability and that low levels of RAB27A expression correlate with higher cells motility. These findings suggest a paracrine activity of a RAB27A -independent EVs subpopulation in tumor-PMN communication to promote cancer progression.
Additional file 4 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 4: Table S4. Overview of sequencing data in the different sample groups [F (Faecal), FHg (Faecal homogenised), BW (Biopsy wash) and (B) Biopsy tissue)].
Spin-Orbit Coupled One-Dimensional Fermi Gases with Infinite Repulsion
Creators: name: Cui, Xiaoling
name: Ho, Tin-Lun
Publisher: name: arXiv
Year: 2013
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: The current efforts of studying many-body effects with spin-orbit coupling (SOC) using alkali-metal atoms are impeded by the heating effects due to spontaneous emission. Here, we show that even for SOCs too weak to cause any heating, dramatic many-body effects can emerge in a one-dimensional(1D) spin 1/2 Fermi gas provided the interaction is sufficiently repulsive. For weak repulsion, the effect of a weak SOC (with strength $Ω$) is perturbative. inducing a weak spin spiral (with magnitude proportional to $Ω$). However, as the repulsion $g$ increases beyond a critical value ($g_c\sim 1/Ω$), the magnitude of the spin spiral rises rapidly to a value of order 1 (independent of $Ω$). Moreover, near $g=+\infty$, the spins of neighboring fermions can interfere destructively due to quantum fluctuations of particle motion, strongly distorting the spin spiral and pulling the spins substantially away from the direction of the local field at various locations. These effects are consequences of the spin-charge separation in the strongly repulsive limit. They will also occur in other 1D quantum gases with higher spins.
description: 4.5 pages, 2 figures, published version
EFFECTIVE STABILITY OF HAMILTONIAN PLANETARY SYSTEMS
Creators: name: SANSOTTERA, MARCO
Publisher: name: Universit� degli Studi di Milano
Year: 2011

description: The stability of the Solar System is a classical, long standing and challenging problem, already pointed out by Newton. In this thesis we revisit the problem in the light of Kolmogorov and Nekhoroshev theorems, with the aim of proving that they apply to realistic approximations of the Sun-Jupiter-Saturn and Sun-Jupiter-Saturn-Uranus systems. The present thesis is devoted to the study of three main problems, namely: (i) the applicability of Kolmogorov and Nekhoroshev theories to the problem of three bodies; (ii) the stability of the secular evolution of the planar Sun-Jupiter-Saturn-Uranus system; (iii) the explicit construction of the normal form for elliptic tori in planetary systems. This work gives an original contribution on the methods for studying the stability of planetary systems. It contains an analytical contribution, namely the proof of the existence of low dimensional elliptic tori for the planetary system obtained via an algorithmic constructive method, and the explicit calculation of the stability time for the Sun-Jupiter-Saturn system and for the planar secular Sun-Jupiter-Saturn-Uranus system. We emphasize that we obtain the first realistic estimates for these problems based on a well established theoretical framework.
Universality and scaling in the $N$-body sector of Efimov physics
Creators: name: Gattobigio, M.
name: Kievsky, A.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Nuclear Theory (nucl-th)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Universal behaviour has been found inside the window of Efimov physics for systems with $N=4,5,6$ particles. Efimov physics refers to the emergence of a number of three-body states in systems of identical bosons interacting {\it via} a short-range interaction becoming infinite at the verge of binding two particles. These Efimov states display a discrete scale invariance symmetry, with the scaling factor independent of the microscopic interaction. Their energies in the limit of zero-range interaction can be parametrized, as a function of the scattering length, by a universal function. We have found, using a particular form of finite-range scaling, that the same universal function can be used to parametrize the energies of $N\le6$ systems inside the Efimov-physics window. Moreover, we show that the same finite-scale analysis reconciles experimental measurements of three-body binding energies with the universal theory.
description: Added the derivation of the three-body shift Added calculations with Poschl-Teller potential Added the analysis of Li7 trimer-binding energy experimental data [PRL 108, 210406 (2012)]
Additional file 5 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 5: Figure S1. Rarefaction plots for every sample for the alpha diversity metrics a) Observed Species, b) Chao, c) Shannon Index, d) Simpson Index and e) Good’s Coverage.
A Numerical Study of Methods for Moist Atmospheric Flows: Compressible Equations
Creators: name: Duarte, Max
name: Almgren, Ann S.
name: Balakrishnan, Kaushik
name: Bell, John B.
name: Romps, David M.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Atmospheric and Oceanic Physics (physics.ao-ph)
subject: Analysis of PDEs (math.AP)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: We investigate two common numerical techniques for integrating reversible moist processes in atmospheric flows in the context of solving the fully compressible Euler equations. The first is a one-step, coupled technique based on using appropriate invariant variables such that terms resulting from phase change are eliminated in the governing equations. In the second approach, which is a two-step scheme, separate transport equations for liquid water and vapor water are used, and no conversion between water vapor and liquid water is allowed in the first step, while in the second step a saturation adjustment procedure is performed that correctly allocates the water into its two phases based on the Clausius-Clapeyron formula. The numerical techniques we describe are first validated by comparing to a well-established benchmark problem. Particular attention is then paid to the effect of changing the time scale at which the moist variables are adjusted to the saturation requirements in two different variations of the two-step scheme. This study is motivated by the fact that when acoustic modes are integrated separately in time (neglecting phase change related phenomena), or when sound-proof equations are integrated, the time scale for imposing saturation adjustment is typically much larger than the numerical one related to the acoustics.
Additional file 6 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 6: Figure S2. PCoA plots based upon Bray Curtis Diversity metrics for different volunteers showing inter-individual differences in the bacterial profile of both biopsy and faecal samples. Each volunteer is represented by a different colour, revealing the four linked samples.
The "universal property" of Horizon Entropy Sum of Black Holes in Four Dimensional Asymptotical (anti-)de-Sitter Spacetime Background
Creators: name: Wang, Jia
name: Xu, Wei
name: Meng, Xin-he
Publisher: name: arXiv
Year: 2013
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: We present a new ``universal property'' of entropy, that is the ``entropy sum'' relation of black holes in four dimensional (anti-)de-Sitter asymptotical background. They depend only on the cosmological constant with the necessary effect of the un-physical ``virtual'' horizon included in the spacetime where only the cosmological constant, mass of black hole, rotation parameter and Maxwell field exist. When there is more extra matter field in the spacetime, one will find the ``entropy sum'' is also dependent of the strength of these extra matter field. For both cases, we conclude that the ``entropy sum'' does not depend on the conserved charges $M$, $Q$ and $J$, while it does depend on the property of background spacetime. We will mainly test the ``entropy sum'' relation in static, stationary black hole and some black hole with extra matter source (scalar hair and higher curvature) in the asymptotical (anti-)de-sitter spacetime background. Besides, we point out a newly found counter example of the mass independence of the ''entropy product'' relation in the spacetime with extra scalar hair case, while the ``entropy sum'' relation still holds. These result are indeed suggestive to some underlying microscopic mechanism. Moreover, the cosmological constant and extra matter field dependence of the ``entropy sum'' of all horizon seems to reveal that ``entropy sum'' is more general as it is only related to the background field. For the case of asymptotical flat spacetime without any matter source, we give a note for the Kerr black hole case in appendix. One will find only mass dependence of ``entropy sum'' appears. It makes us believe that, considering the dependence of ``entropy sum'', the mass background field may be regarded as the next order of cosmological constant background field and extra matter field.
description: 14 pages, no figures, JHEP format
Well-temperate phage: optimal bet-hedging against local environmental collapses
Creators: name: Maslov, Sergei
name: Sneppen, Kim
Publisher: name: arXiv
Year: 2013
Subjects: subject: Populations and Evolution (q-bio.PE)
subject: FOS: Biological sciences

description: Upon infection of their bacterial hosts temperate phages must chose between lysogenic and lytic developmental strategies. Here we apply the game-theoretic bet-hedging strategy introduced by Kelly to derive the optimal lysogenic fraction of the total population of phages as a function of frequency and intensity of environmental downturns affecting the lytic subpopulation. "Well-temperate" phage from our title is characterized by the best long-term population growth rate. We show that it is realized when the lysogenization frequency is approximately equal to the probability of lytic population collapse. We further predict the existence of sharp boundaries in system's environmental, ecological, and biophysical parameters separating the regions where this temperate strategy is optimal from those dominated by purely virulent or} dormant (purely lysogenic) strategies. We show that the virulent strategy works best for phages with large diversity of hosts, and access to multiple independent environments reachable by diffusion. Conversely, progressively more temperate or even dormant strategies are favored in the environments, that are subject to frequent and severe temporal downturns.
description: 26 pages, 3 figures
Additional file 7 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 7: Figure S3. PCoA plots based upon Bray Curtis Diversity metrics for different sample types.
Additional file 8 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 8: Figure S4. Log relative abundance of taxa with significantly different abundance at the phylum level between biopsy tissue (red) and biopsy wash (blue) samples.
Trapping of Spin-0 fields on tube-like topological defects
Creators: name: Casana, R.
name: Gomes, A. R.
name: Menezes, R.
name: Simas, F. C.
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We have considered the localization of resonant bosonic states described by a scalar field $Φ$ trapped in tube-like topological defects. The tubes are formed by radial symmetric defects in $(2,1)$ dimensions, constructed with two scalar fields $ϕ$ and $χ$, and embedded in the $(3,1)-$dimensional Minkowski spacetime. The general coupling between the topological defect and the scalar field $Φ$ is given by the potential $ηF(ϕ,χ)Φ^2$. After a convenient decomposition of the field $Φ$, we find that the amplitudes of the radial modes satisfy Schrödinger-like equations whose eigenvalues are the masses of the bosonic resonances. Specifically, we have analyzed two simple couplings: the first one is $F(ϕ,χ)=χ^2$ for a fourth-order potential and, the second one is a sixth-order interaction characterized by $F(ϕ,χ)=(ϕχ)^2$% . In both cases the Schrödinger-like equations are numerically solved with appropriated boundary conditions. Several resonance peaks for both models are obtained and the numerical analysis showed that the fourth-order potential generates more resonances than the sixth-order one.
description: 7 pages, 10 figures, matches version published in Physics Letters B
Exploring the origin, the nature and the dynamical behaviour of distant stars in galaxy models
Creators: name: Zotos, Euaggelos E.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We explore the regular or chaotic nature of orbits moving in the meridional plane of an axially symmetric galactic gravitational model with a disk, a dense spherical nucleus and some additional perturbing terms corresponding to influence from nearby galaxies. In order to obtain this we use the Smaller ALingment Index (SALI) technique integrating extensive samples of orbits. Of particular interest is the study of distant, remote stars moving in large galactocentric orbits. Our extensive numerical experiments indicate that the majority of the distant stars perform chaotic orbits. However, there are also distant stars displaying regular motion as well. Most distant stars are ejected into the galactic halo on approaching the dense and massive nucleus. We study the influence of some important parameters of the dynamical system, such as the mass of the nucleus and the angular momentum, by computing in each case the percentage of regular and chaotic orbits. A second order polynomial relationship connects the mass of the nucleus and the critical angular momentum of the distant star. Some heuristic semi-theoretical arguments to explain and justify the numerically derived outcomes are also given. Our numerical calculations suggest that the majority of distant stars spend their orbital time in the halo where it is easy to be observed. We present evidence that the main cause for driving stars to distant orbits is the presence of the dense nucleus combined with the perturbation caused by nearby galaxies. The origin of young O and B stars observed in the halo is also discussed.
description: Published in Nonlinear Dynamics (NODY) journal
Computer simulations reveal complex distribution of haemodynamic forces in a mouse retina model of angiogenesis
Creators: name: Bernabeu, Miguel O.
name: Jones, Martin
name: Nielsen, Jens H.
name: Krüger, Timm
name: Nash, Rupert W.
name: Groen, Derek
name: Schmieschek, Sebastian
name: Hetherington, James
name: Gerhardt, Holger
name: Franco, Claudio A.
name: Coveney, Peter V.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Computational Engineering, Finance, and Science (cs.CE)
subject: Biological Physics (physics.bio-ph)
subject: Quantitative Methods (q-bio.QM)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences
subject: FOS: Biological sciences
subject: I.6.8; J.3
subject: 92-08

description: There is currently limited understanding of the role played by haemodynamic forces on the processes governing vascular development. One of many obstacles to be overcome is being able to measure those forces, at the required resolution level, on vessels only a few micrometres thick. In the current paper, we present an in silico method for the computation of the haemodynamic forces experienced by murine retinal vasculature (a widely used vascular development animal model) beyond what is measurable experimentally. Our results show that it is possible to reconstruct high-resolution three-dimensional geometrical models directly from samples of retinal vasculature and that the lattice-Boltzmann algorithm can be used to obtain accurate estimates of the haemodynamics in these domains. We generate flow models from samples obtained at postnatal days (P) 5 and 6. Our simulations show important differences between the flow patterns recovered in both cases, including observations of regression occurring in areas where wall shear stress gradients exist. We propose two possible mechanisms to account for the observed increase in velocity and wall shear stress between P5 and P6: i) the measured reduction in typical vessel diameter between both time points, ii) the reduction in network density triggered by the pruning process. The methodology developed herein is applicable to other biomedical domains where microvasculature can be imaged but experimental flow measurements are unavailable or difficult to obtain.
description: 34 pages, 12 figures, accepted for publication at the Journal of the Royal Society Interface
Phanoperla Banks
Creators: name: Cao, Thi Kim Thu
name: Bae, Yeon Jae
Publisher: name: Zenodo
Year: 2009
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Plecoptera
Perlidae
Phanoperla

description: Genus Phanoperla Banks
 Phanoperla Banks 1938: 221. Type species: Perla limosa Hagen (original designation).
 Dyaperla Banks 1939: 451. Type species: Dyaperla anomala Banks (original designation).
description: Published as part of Cao, Thi Kim Thu & Bae, Yeon Jae, 2009, Phanoperla namcattien, a new stonefly from Vietnam (Plecoptera: Perlidae), pp. 66-68 in Zootaxa 1983 on page 66, DOI: 10.5281/zenodo.185366
Additional file 9 of Comparison of microbial signatures between paired faecal and rectal biopsy samples from healthy volunteers using next-generation sequencing and culturomics
Creators: name: Mukhopadhya, Indrani
name: Martin, Jennifer C.
name: Shaw, Sophie
name: McKinley, Aileen J.
name: Gratz, Silvia W.
name: Scott, Karen P.
Publisher: name: figshare
Year: 2022
Subjects: subject: Microbiology
subject: FOS: Biological sciences

description: Additional file 9: Figure S5. Log relative abundance of taxa with significantly different abundance at the genus level between biopsy tissue (red) and biopsy wash (blue) samples.
Near-Field Passive RFID Communication: Channel Model and Code Design
Creators: name: Barbero, Ángela I.
name: Rosnes, Eirik
name: Yang, Guang
name: Ytrehus, Øyvind
Publisher: name: arXiv
Year: 2013
Subjects: subject: Information Theory (cs.IT)
subject: FOS: Computer and information sciences

description: This paper discusses a new channel model and code design for the reader-to-tag channel in near-field passive radio frequency identification (RFID) systems using inductive coupling as a power transfer mechanism. If the receiver resynchronizes its internal clock each time a bit is detected, the bit-shift channel used previously in the literature to model the reader-to-tag channel needs to be modified. In particular, we propose a discretized Gaussian shift channel as a new channel model in this scenario. We introduce the concept of quantifiable error avoidance, which is much simpler than error correction. The capacity is computed numerically, and we also design some new simple codes for error avoidance on this channel model based on insights gained from the capacity calculations. Finally, some simulation results are presented to compare the proposed codes to the Manchester code and two previously proposed codes for the bit-shift channel model.
description: Submitted to IEEE Transactions on Communications. Accepted March 5, 2014
Deliverable D-JRP-TOXOSOURCES-WP2.4 Report on relative contribution of different sources and routes of exposure by country/region
Creators: name: Swart, Arno
name: Ottoson, Jakob
name: Dámek, Filip
name: Benincà, Elisa
name: Bonačić Marinović, Axel
name: Chardon, Jurgen
name: Pires, Sara M.
name: Opsteegh, Marieke
name: Jokelainen, Pikka
Publisher: name: Zenodo
Year: 2022
Subjects: Toxoplasma gondii
TOXOSOURCES

description: Deliverable D-JRP-TOXOSOURCES-WP2.4 Report on relative contribution of different sources and routes of exposure by country/region 
Additional file 1 of Exploring the potential of the model cyanobacterium Synechocystis PCC 6803 for the photosynthetic production of various high-value terpenes
Creators: name: Blanc-Garin, Victoire
name: Chenebault, Célia
name: Diaz-Santos, Encarnación
name: Vincent, Marine
name: Sassi, Jean-François
name: Cassier-Chauvat, Corinne
name: Chauvat, Franck
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: Hematology

description: Additional file 1. Additional tables and figures.
Practical method to obtain a lower bound to the three-tangle
Creators: name: Eltschka, Christopher
name: Siewert, Jens
Publisher: name: arXiv
Year: 2013
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The quantitative assessment of the entanglement in multipartite quantum states is, apart from its fundamental importance, a practical problem. Recently there has been significant progress in developing new methods to determine certain entanglement measures. In particular, there is a method---in principle, analytical---to compute a certified lower bound for the three-tangle. The purpose of this work is to provide a manual for the implementation of this approach and to explicitly discuss several analytically solvable cases in order to gauge the numerical tools. Moreover, we derive a simple analytical bound for the mixed state three-tangle.
description: 9 pages, 4 figures, typo in important Eq (14) corrected, section on tomography added
Companion animal veterinarians as One Health heroes
Creators: name: Jokelainen, Pikka
Publisher: name: Zenodo
Year: 2021
Subjects: One Health
veterinarians
zoonoses

description: Editorial.
 Jokelainen, P. (2021) “Companion animal veterinarians as One Health heroes”, Hellenic Journal of Companion Animal Medicine, 10(1), pp. 9–12. Available at: https://hjcam.hcavs.gr/index.php/hjcam/article/view/112 Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License
Additional file 1 of Experimental validation and molecular docking to explore the active components of cannabis in testicular function and sperm quality modulations in rats
Creators: name: Nwonuma, Charles O.
name: Nwatu, Victoria C.
name: Mostafa-Hedeab, Gomaa
name: Adeyemi, Oluyomi S.
name: Alejolowo, Omokolade O.
name: Ojo, Oluwafemi Adeleke
name: Adah, Sylvanus A.
name: Awakan, Oluwakemi J.
name: Okolie, Charles E.
name: Asogwa, Nnaemeka Tobechukwu
name: Udofia, Inemesit A.
name: Egharevba, Godshelp O.
name: Aljarba, Nada H.
name: Alkahtani, Saad
name: Batiha, Gaber El-Saber
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Neuroscience
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1. HPLC chromatogram of ethanolic leaf extract of cannabis.
Estimation for Nonlinear Times Series Models with Stationary and Non-stationary Regressors
Creators: name: ZHOU, YING
Publisher: name: Monash University
Year: 2022
Subjects: Econometric and statistical methods

description: This thesis aims to propose better models to deal with non-stationary time series since they pose a major challenge for modelling and accurate forecasting. Chapter 2 considers a nonlinear cointegrating model with a mixture of time-varying and non-time-varying coefficients to explain the relationship between tax benefits and fertility rate. Chapter 3 proposes a parametric nonlinear single-index predictive model; Chapter 4 extends the model in Chapter 3 by allowing for lagged dependent variables. In the case of stock return predictability, we find that models in Chapter 3 and 4 produce better out-of-sample fits than the commonly used benchmark models.
Kondo signature in heat transfer via a local two-state system
Creators: name: Saito, Keiji
name: Kato, Takeo
Publisher: name: arXiv
Year: 2013
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We study the Kondo effect in heat transport via a local two-state system. This system is described by the spin-boson Hamiltonian with Ohmic dissipation, which can be mapped onto the Kondo model with anisotropic exchange coupling. We calculate thermal conductance by the Monte Carlo method based on the exact formula. Thermal conductance has a scaling form κ= (k_B^2 T_K/\hbar) f(α,T/T_K ), where T_K and αindicate the Kondo temperature and dimensionless coupling strength, respectively. Temperature dependence of conductance is classified by the Kondo temperature as κ\propto (T/T_K )^3 for T\ll T_K and κ\propto (k_B T / \hbarω_c)^{2α-1} for T\gg T_K. Similarities to the Kondo signature in electric transport are discussed.
description: 7pages, 5 figures
The relative yields of heavy hadrons as function of transverse momentum at LHC experiments
Creators: name: Berezhnoy, A. V.
name: Likhoded, A. K.
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: It is shown that the dependence of ratio $f_s/f_d$ could be understood within the fragmentation approach. However, the validity of fragmentation model is questionable at low $p_T$, and contributions of nonfragmentation mechanisms are possible. It is demonstrated, that the precise measurements of $p_T$ dependence of $f_s/f_d$, $f_{Λ_b}/f_{B}$ and analogous values as function of $p_T$ can essentially improve our understanding of heavy hadron production.At large $p_T$ a plateau is expected in $f_s/f_d$ distribution. Contrary, a plateau is not expected in $f_{B_c}/f_{B}$ distribution on $p_T$.
description: 15 pages, 10 figures, revtex4, $f_{B_c}/f_{B}$ has been estimated for the LHCb fiducial region
Multilepton signals of gauge mediated supersymmetry breaking at the LHC
Creators: name: D'Hondt, Jorgen
name: De Causmaecker, Karen
name: Fuks, Benjamin
name: Mariotti, Alberto
name: Mawatari, Kentarou
name: Petersson, Christoffer
name: Redigolo, Diego
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: We investigate multilepton LHC signals arising from electroweak processes involving sleptons. We consider the framework of general gauge mediated supersymmetry breaking, focusing on models where the low mass region of the superpartner spectrum consists of the three generations of charged sleptons and the nearly massless gravitino. We demonstrate how such models can provide an explanation for the anomalous four lepton events recently observed by the CMS collaboration, while satisfying other existing experimental constraints. The best fit to the CMS data is obtained for a selectron/smuon mass of around 145 GeV and a stau mass of around 90 GeV. These models also give rise to final states with more than four leptons, offering alternative channels in which they can be probed and we estimate the corresponding production rates at the LHC.
description: 7 pages, 6 figures, 1 table; version accepted by PLB
Guidelines for Systematic Review in Discussion Forums
Creators: name: Gomes, Felipe
Publisher: name: Zenodo
Year: 2022

description: Discussion forums like StackOverflow are an essential part of day-to-day modern software development. From small bugs and tutorials to high level discussions about software architecture and project management. These forums bring with them the point of view of practitioners and reflect tendencies from the past and from the present, in other words, they are a meeting point of practitioners to discuss various topics regarding software development. Despite being open for everyone to contribute, discussion forums do not lack credibility. The questions, answers, comments and even users are subject to community-moderation and reputation systems, which bring more confidence to data. Despite the popularity of discussion forums among both practitioners and researchers, the literature lacks approaches that guide the process of analyzing and systematically reviewing this type of literature. This becomes especially important given the massive amount of data that can be generated with queries to these datasets. In this context, this work aims to build a guideline and tools that can help researchers in the systematic review of gray literature from discussion forums. This approach enables a faster and more streamline process of extraction and analysis, which can help practitioners and researchers to obtain useful data and insights. We are currently performing studies in various forums and the results so far pointed out some aspects that can be used to categorize the forum posts.
Graded modules over classical simple Lie algebras with a grading
Creators: name: Elduque, Alberto
name: Kochetov, Mikhail
Publisher: name: arXiv
Year: 2013
Subjects: subject: Representation Theory (math.RT)
subject: Rings and Algebras (math.RA)
subject: FOS: Mathematics
subject: Primary 17B70, Secondary 17B10, 16W50

description: Given a grading by an abelian group G on a semisimple Lie algebra L over an algebraically closed field of characteristic 0, we classify up to isomorphism the simple objects in the category of finite-dimensional G-graded L-modules. The invariants appearing in this classification are computed in the case when L is simple classical (except for type D4, where a partial result is given). In particular, we obtain criteria to determine when a finite-dimensional simple L-module admits a G-grading making it a graded L-module.
description: 38 pages
Additional file 1 of Experimental validation and molecular docking to explore the active components of cannabis in testicular function and sperm quality modulations in rats
Creators: name: Nwonuma, Charles O.
name: Nwatu, Victoria C.
name: Mostafa-Hedeab, Gomaa
name: Adeyemi, Oluyomi S.
name: Alejolowo, Omokolade O.
name: Ojo, Oluwafemi Adeleke
name: Adah, Sylvanus A.
name: Awakan, Oluwakemi J.
name: Okolie, Charles E.
name: Asogwa, Nnaemeka Tobechukwu
name: Inemesit, Udofia A.
name: Egharevba, Godshelp O.
name: Aljarba, Nada H.
name: Alkahtani, Saad
name: Batiha, Gaber El-Saber
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Neuroscience
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Developmental Biology
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1. HPLC chromatogram of ethanolic leaf extract of cannabis.