cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Dynamical Correspondence in a Generalized Quantum Theory
Creators: name: Niestegge, Gerd
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mathematical Physics (math-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences
subject: 46L70, 81P10

description: In order to figure out why quantum physics needs the complex Hilbert space, many attempts have been made to distinguish the C*-algebras and von Neumann algebras in more general classes of abstractly defined Jordan algebras (JB- and JBW-algebras). One particularly important distinguishing property was identified by Alfsen and Shultz and is the existence of a dynamical correspondence. It reproduces the dual role of the selfadjoint operators as observables and generators of dynamical groups in quantum mechanics. In the paper, this concept is extended to another class of nonassociative algebras, arising from recent studies of the quantum logics with a conditional probability calculus and particularly of those that rule out third-order interference. The conditional probability calculus is a mathematical model of the Lueders-von Neumann quantum measurement process, and third-order interference is a property of the conditional probabilities which was discovered by R. Sorkin in 1994 and which is ruled out by quantum mechanics. It is shown then that the postulates that a dynamical correspondence exists and that the square of any algebra element is positive still characterize, in the class considered, those algebras that emerge from the selfadjoint parts of C*-algebras equipped with the Jordan product. Within this class, the two postulates thus result in ordinary quantum mechanics using the complex Hilbert space or, vice versa, a genuine generalization of quantum theory must omit at least one of them.
description: 11 pages in Foundations of Physics 2015
Local Quantum Fields for Anyons on the Circle leading to Non-Relativistic Anyons in Two Dimensions
Creators: name: Plaschke, Matthias
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: Using the method of implementable one-particle Bogoliubov transformations it is possible to explicitly define a local covariant net of quantum fields on the (universal covering of the) circle $S_1$ with braid group statistics. These Anyon fields transform under a representation of $\widetilde{U(1)}$ for arbitrary real-valued spin and their commutation relations depend on the relative winding number of localization regions. By taking the tensor product with a local covariant field theory on $\mathbb{R}^2$ one can obtain a non-relativistic cone-localized field net for Anyons in two dimensions.
Additional file 8 of Acceptability, equity, and feasibility of using antipsychotics in children and adolescents with autism spectrum disorder: a systematic review
Creators: name: D’Alò, Gian Loreto
name: Crescenzo, Franco De
name: Amato, Laura
name: Cruciani, Fabio
name: Davoli, Marina
name: Fulceri, Francesca
name: Minozzi, Silvia
name: Mitrova, Zuzana
name: Morgano, Gian Paolo
name: Nardocci, Franco
name: Saulle, Rosella
name: Schünemann, Holger Jens
name: Scattoni, Maria Luisa
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 8. PRISMA checklist.
Investigation of the effects of core training on athletic performance: review study
Creators: name: OKAN KAMİŞ
name: Tuğçe KARAŞAHİNOĞLU
name: H. Ahmet PEKEL
name: AYDOS, Latif
Publisher: name: F1000 Research Limited
Year: 2019

description: The purpose of this study is to investigate the effects of core training that was done in 2007-2017 on athletic performance.
FAIR assessment of biosimulation models – a cross-community project
Creators: name: Irina, Balaur
name: Danielle, Welter
name: David, Nickerson
name: Rahuman, Sheriff
name: Matthias, König
name: Henning, Hermjakob
name: Reinhard, Schneider
name: Venkata, Satagopam
name: Dagmar, Waltemath
Publisher: name: Zenodo
Year: 2023
Subjects: FAIR assessment, biosimulations, EOSC, FAIR indicators

description: The poster introducing our preliminary work on FAIRification of biosimulations. The poster was preented at the ICSB 2022 (Berlin), where a follow-up flash talk was also given.
The clustering of galaxies in the SDSS-III Baryon Oscillation Spectroscopic Survey: Testing gravity with redshift-space distortions using the power spectrum multipoles
Creators: name: Beutler, Florian
name: Saito, Shun
name: Seo, Hee-Jong
name: Brinkmann, Jon
name: Dawson, Kyle S.
name: Eisenstein, Daniel J.
name: Font-Ribera, Andreu
name: Ho, Shirley
name: McBride, Cameron K.
name: Montesano, Francesco
name: Percival, Will J.
name: Ross, Ashley J.
name: Ross, Nicholas P.
name: Samushia, Lado
name: Schlegel, David J.
name: Sánchez, Ariel G.
name: Tinker, Jeremy L.
name: Weaver, Benjamin A.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We analyse the anisotropic clustering of the Baryon Oscillation Spectroscopic Survey (BOSS) CMASS Data Release 11 (DR11) sample, which consists of $690\,827$ galaxies in the redshift range $0.43 < z < 0.7$ and has a sky coverage of $8\,498\,\text{deg}^2$. We perform our analysis in Fourier space using a power spectrum estimator suggested by Yamamoto et al. (2006). We measure the multipole power spectra in a self-consistent manner for the first time in the sense that we provide a proper way to treat the survey window function and the integral constraint, without the commonly used assumption of an isotropic power spectrum and without the need to split the survey into sub-regions. The main cosmological signals exploited in our analysis are the Baryon Acoustic Oscillations and the signal of redshift space distortions, both of which are distorted by the Alcock-Paczynski effect. Together, these signals allow us to constrain the distance ratio $D_V(z_{\rm eff})/r_s(z_d) = 13.89\pm 0.18$, the Alcock-Paczynski parameter $F_{\rm AP}(z_{\rm eff}) = 0.679\pm0.031$ and the growth rate of structure $f(z_{\rm eff})σ_8(z_{\rm eff}) = 0.419\pm0.044$ at the effective redshift $z_{\rm eff}=0.57$. We did not find significant systematic uncertainties for $D_V/r_s$ or $F_{\rm AP}$ but include a systematic error for $fσ_8$ of $3.1\%$. Combining our dataset with Planck to test General Relativity (GR) through the simple $γ$-parameterisation, reveals a $\sim 2σ$ tension between the data and the prediction by GR. The tension between our result and GR can be traced back to a tension in the clustering amplitude $σ_8$ between CMASS and Planck.
description: 30 pages, 3 Tables, 17 Figures
Additional file 1 of The A2B trial, antibiotic prophylaxis for excision-graft surgery in burn patients: a multicenter randomized double-blind study
Creators: name: Dépret, François
name: Farny, Boris
name: Jeanne, Mathieu
name: Kada Klouche
name: Leclerc, Thomas
name: Nouette-Gaulain, Karine
name: Pantet, Olivier
name: Rémerand, Francis
name: Roquilly, Antoine
name: Anne-Françoise Rousseau
name: Sztajnic, Simon
name: Wiramus, Sandrine
name: Vicaut, Eric
name: Legrand, Matthieu
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: Additional file 1. Details about quality control, case report form, management of noncompliance, audit and inspection, blinding methods, and serious adverse event notification
Counting rule of Nambu-Goldstone modes for internal and spacetime symmetries: Bogoliubov theory approach
Creators: name: Takahashi, Daisuke A.
name: Nitta, Muneto
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: When continuous symmetry is spontaneously broken, there appear Nambu-Goldstone modes (NGMs) with linear and quadratic dispersion relations, which are called type-I and type-II, respectively. We propose a framework to count these modes including the coefficients of the dispersion relations with applying the standard Gross-Pitaevskii-Bogoliubov theory. Our method is mainly based on (i) zero-mode solutions of the Bogoliubov equation originated from spontaneous symmetry breaking and (ii) their generalized orthogonal relations, which naturally arises from well-known Bogoliubov transformations and is referred to as "$σ$-orthogonality" in this paper. Unlike previous works, our framework is applicable without any modification to the cases where there are additional zero modes, which do not have a symmetry origin, such as quasi-NGMs, and/or where spacetime symmetry is spontaneously broken in the presence of a topological soliton or a vortex. As a by-product of the formulation, we also give a compact summary for mathematics of bosonic Bogoliubov equations and Bogoliubov transformations, which becomes a foundation for any problem of Bogoliubov quasiparticles. The general results are illustrated by various examples in spinor Bose-Einstein condensates (BECs). In particular, the result on the spin-3 BECs includes new findings such as a type-I-type-II transition and an increase of the type-II dispersion coefficient caused by a linearly-independent pair of zero modes.
description: 54 pages, no figure, final version published in Annals of Physics
Towards a community-endorsed data steward profession description for life science research
Creators: name: Scholtens, Salome
name: Anbeek, Nelly
name: Brullemans, Mirjam
name: Geest, Marije Van Der
name: Jetten, Mijke
name: Slouwerhof, Inge
name: Gelder, Celia Van
Publisher: name: F1000 Research Limited
Year: 2019

description: Sufficient, high quality data steward expertise and capacity in projects and institutes is one of the necessities for FAIR data management in Life Sciences and personalised medicine research. In a ZonMw funded project of UMCG, UMCU, Radboudumc, Radboud University and DTL, supported by the relevant national stakeholders, we are working to make the data steward function concrete, to create consensus on the function and required competencies and to develop tailored education.

These function and competencies definitions are based on an analysis of existing competency frameworks for data management and stewardship and recently published reports such as the EOSC pilot, EDISON, Purdue and DAMA competency frameworks, as well as on the FAIR principles.  This was  complemented with a review of over 40 published data stewardship vacancy descriptions as well as with experiences of persons working as data experts in the Netherlands. The project that runs from August 2018 to August 2019 has already delivered a common function description based on the FAIR data principles and agreement on knowledge, skills and competencies for two levels of data steward that is broadly supported within the Dutch Life Sciences community.  Nine different function areas were defined. For details see the table.

In the next phase of the project we will further define the knowledge and  skills needed and translate them into concrete learning objectives, which in turn will be used to develop an education line and training material for data stewards (including a design for an eLearning module). Sustainable implementation and alignment with existing education is ensured by close collaboration with e.g. LCRDM,  NFU Data4lifesciences, the HANDS handbook, DTL and with data education at HBO institutes. With this project we contribute to a professionalization of the data steward function within the Lifesciences domain so future Lifesciences research can be optimally supported.
On Gauduchon connections with Kähler-like curvature
Creators: name: Angella, Daniele
name: Otal, Antonio
name: Ugarte, Luis
name: Villacampa, Raquel
Publisher: name: arXiv
Year: 2018
Subjects: subject: Differential Geometry (math.DG)
subject: Complex Variables (math.CV)
subject: FOS: Mathematics

description: We study Hermitian metrics with a Gauduchon connection being "Kähler-like", namely, satisfying the same symmetries for curvature as the Levi-Civita and Chern connections. In particular, we investigate $6$-dimensional solvmanifolds with invariant complex structures with trivial canonical bundle and with invariant Hermitian metrics. The results for this case give evidence for two conjectures that are expected to hold in more generality: first, if the Strominger-Bismut connection is Kähler-like, then the metric is pluriclosed; second, if another Gauduchon connection, different from Chern or Strominger-Bismut, is Kähler-like, then the metric is Kähler. As a further motivation, we show that the Kähler-like condition for the Levi-Civita connection assures that the Ricci flow preserves the Hermitian condition along analytic solutions.
description: to appear in Commun. Anal. Geom
Tunable and Switchable Coupling Between Two Superconducting Resonators
Creators: name: Baust, A.
name: Hoffmann, E.
name: Haeberlein, M.
name: Schwarz, M. J.
name: Eder, P.
name: Menzel, E. P.
name: Fedorov, K.
name: Goetz, J.
name: Wulschner, F.
name: Xie, E.
name: Zhong, L.
name: Quijandria, F.
name: Peropadre, B.
name: Zueco, D.
name: Ripoll, J. -J. Garcia
name: Solano, E.
name: Deppe, F.
name: Marx, A.
name: Gross, R.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We realize a device allowing for tunable and switchable coupling between two superconducting resonators mediated by an artificial atom. For the latter, we utilize a persistent current flux qubit. We characterize the tunable and switchable coupling in frequency and time domain and find that the coupling between the relevant modes can be varied in a controlled way. Specifically, the coupling can be tuned by adjusting the flux through the qubit loop or by saturating the qubit. Our time domain measurements allow us to find parameter regimes for optimal switch performance with respect to qubit drive power and the dynamic range of the resonator input power.
title: ВКЛАД ДИСФУНКЦИИ ЭНДОТЕЛИЯ В РАЗВИТИЕ  ХРОНИЧЕСКОЙ СЕРДЕЧНОЙ НЕДОСТАТОЧНОСТИ
Creators: name: Азатян, Сюзанна Грачиковна
name: Мажитова, Марина Владимировна
Publisher: name: Астраханский государственный медицинский университет
Year: 2022
Subjects: subject: Clinical medicine
subject: FOS: Clinical medicine

description: В статье проанализированы вопросы взаимосвязи кардиоваскулярных заболеваний, в частности, хронической сердечной недостаточности, и дисфункции эндотелия. Представлена классификация хронической сердечной недостаточности по функциональным классам. Освещено понятие эндотелия и рассмотрены факторы его функций.
Additional file 3 of The A2B trial, antibiotic prophylaxis for excision-graft surgery in burn patients: a multicenter randomized double-blind study
Creators: name: Dépret, François
name: Farny, Boris
name: Jeanne, Mathieu
name: Kada Klouche
name: Leclerc, Thomas
name: Nouette-Gaulain, Karine
name: Pantet, Olivier
name: Rémerand, Francis
name: Roquilly, Antoine
name: Anne-Françoise Rousseau
name: Sztajnic, Simon
name: Wiramus, Sandrine
name: Vicaut, Eric
name: Legrand, Matthieu
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: Additional file 3. Institutional review board (IRB) of Sud Est IV approval
Characteristic, completion or matching timescales? An analysis of temporary boundaries in enzyme kinetics
Creators: name: Eilertsen, Justin
name: Stroberg, Wylie
name: Schnell, Santiago
Publisher: name: arXiv
Year: 2018
Subjects: subject: Quantitative Methods (q-bio.QM)
subject: Dynamical Systems (math.DS)
subject: FOS: Biological sciences
subject: FOS: Mathematics
subject: 93C70, 93C70, 97M60

description: Scaling analysis exploiting timescale separation has been one of the most important techniques in the quantitative analysis of nonlinear dynamical systems in mathematical and theoretical biology. In the case of enzyme catalyzed reactions, it is often overlooked that the characteristic timescales used for the scaling the rate equations are not ideal for determining when concentrations and reaction rates reach their maximum values. In this work, we first illustrate this point by considering the classic example of the single-enzyme, single-substrate Michaelis--Menten reaction mechanism. We then extend this analysis to a more complicated reaction mechanism, the auxiliary enzyme reaction, in which a substrate is converted to product in two sequential enzyme-catalyzed reactions. In this case, depending on the ordering of the relevant timescales, several dynamic regimes can emerge. In addition to the characteristic timescales for these regimes, we derive matching timescales that determine (approximately) when the transitions from initial fast transient to steady-state kinetics occurs. The approach presented here is applicable to a wide range of singular perturbation problems in nonlinear dynamical systems.
description: 35 pages, 11 figures
Improving the post-operative prediction of BCR-free survival time with mRNA variables and machine learning
Creators: name: O’Donnell, Autumn
name: Wolsztynski, Eric
name: Cronin, Michael
name: Moghaddam, Shirin
Publisher: name: University of Limerick
Year: 2023
Subjects: Mathematical sciences

description: Predicting the risk of, and time to biochemical recurrence (BCR) in prostate cancer patients post-operatively is critical in patient treatment decision pathways following surgical intervention. This study aimed to investigate the predictive potential of mRNA information to improve upon reference nomograms and clinical-only models, using a dataset of 187 patients that includes over 20,000 features. Several machine learning methodologies were implemented for the analysis of censored patient follow-up information with such high-dimensional genomic data. Our findings demonstrated the potential of inclusion of mRNA information for BCR-free survival prediction. A random survival forest pipeline was found to achieve high predictive performance with respect to discrimination, calibration, and net benefit. Two mRNA variables, namely ESM1 and DHAH8, were identified as consistently strong predictors with this dataset.
Rhodamine B | 81-88-9
Creators: name: Walters, Valerie
Publisher: name: figshare
Year: 2022
Subjects: Free radical chemistry
Natural products and bioactive compounds
Organic chemical synthesis
Organic chemistry not elsewhere classified
Organic green chemistry
Physical organic chemistry

description: Rhodamine B is an organic chloride salt having N-[9-(2-carboxyphenyl)-6-(diethylamino)-3H-xanthen-3-ylidene]-N-ethylethanaminium as the counterion. An amphoteric dye commonly used as a fluorochrome. It has a role as a fluorochrome, a fluorescent probe and a histological dye. It is an organic chloride salt and a xanthene dye. It contains a rhodamine B(1+).
 Rhodamine B has been used: to symbolize the fluorescence of Tetra to represent the fluorescence of methyl rhodamine (TMR) in the making of adhesive resins to be used in using confocal laser scanning microscopy as a fluorescent dye for dosing intrahemolymphalymph dyes as well as in retinal image acquisition to depict brain-specific dye capture for targets for imaging synonyms
Renormalization and BRST symmetry in Donaldson-Witten theory
Creators: name: Korpas, Georgios
name: Manschot, Jan
name: Moore, Gregory W.
name: Nidaiev, Iurii
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The presence of a BRST symmetry in topologically twisted gauge theories makes a precise analysis of these theories feasible. While the global BRST symmetry suggests that correlation functions of BRST exact observables vanish, this decoupling might be obstructed due to a contribution from the boundary of field space. Motivated by divergent BRST exact observables on the Coulomb branch of Donaldson-Witten theory, we put forward a new prescription for the renormalization of correlation functions on the Coulomb branch. This renormalization is based on the relation between Coulomb branch integrals and integrals over a modular fundamental domain, and establishes that BRST exact observables indeed decouple in Donaldson-Witten theory.
description: 32 pages + appendices, 2 figures; v2: minor changes, v3: corrected numerical value of 1-loop amplitude
Additional file 2 of Acceptability, equity, and feasibility of using antipsychotics in children and adolescents with autism spectrum disorder: a systematic review
Creators: name: D’Alò, Gian Loreto
name: Crescenzo, Franco De
name: Amato, Laura
name: Cruciani, Fabio
name: Davoli, Marina
name: Fulceri, Francesca
name: Minozzi, Silvia
name: Mitrova, Zuzana
name: Morgano, Gian Paolo
name: Nardocci, Franco
name: Saulle, Rosella
name: Schünemann, Holger Jens
name: Scattoni, Maria Luisa
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 2. Full methodology for data extraction.
Realization of Tunable Photonic Spin Hall Effect by Tailoring the Pancharatnam-Berry Phase
Creators: name: Ling, Xiaohui
name: Zhou, Xinxing
name: Shu, Weixing
name: Luo, Hailu
name: Wen, Shuangchun
Publisher: name: arXiv
Year: 2013
Subjects: subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Recent developments in the field of photonic spin Hall effect (SHE) offer new opportunities for advantageous measurement of the optical parameters (refractive index, thickness, etc.) of nanostructures and enable spin-based photonics applications in the future. However, it remains a challenge to develop a tunable photonic SHE with any desired spin-dependent splitting for generation and manipulation of spin-polarized photons. Here, we demonstrate experimentally a scheme to realize the photonic SHE tunably by tailoring the space-variant Pancharatnam-Berry phase (PBP). It is shown that light beams whose polarization with a tunable spatial inhomogeneity can contribute to steering the space-variant PBP which creates a spin-dependent geometric phase gradient, thereby possibly realizing a tunable photonic SHE with any desired spin-dependent splitting. Our scheme provides a convenient method to manipulate the spin photon. The results can be extrapolated to other physical system with similar topological origins.
description: 5 pages, 5 figures
Rhodamine B | C28H31ClN2O3
Creators: name: Walters, Valerie
Publisher: name: figshare
Year: 2022
Subjects: Free radical chemistry
Natural products and bioactive compounds
Organic chemical synthesis
Organic chemistry not elsewhere classified
Organic green chemistry
Physical organic chemistry

description: Rhodamine B is an organic chloride salt having N-[9-(2-carboxyphenyl)-6-(diethylamino)-3H-xanthen-3-ylidene]-N-ethylethanaminium as the counterion. An amphoteric dye commonly used as a fluorochrome. It has a role as a fluorochrome, a fluorescent probe and a histological dye. It is an organic chloride salt and a xanthene dye. It contains a rhodamine B(1+).
 Rhodamine B has been used: to symbolize the fluorescence of Tetra to represent the fluorescence of methyl rhodamine (TMR) in the making of adhesive resins to be used in using confocal laser scanning microscopy as a fluorescent dye for dosing intrahemolymphalymph dyes as well as in retinal image acquisition to depict brain-specific dye capture for targets for imaging synonyms
Characteristic temperatures of a triplon system of dimerized quantum magnets
Creators: name: Rakhimov, Abdulla
name: Nishonov, Mukhtorali
name: Rani, Luxmi
name: Tanatar, Bilal
Publisher: name: arXiv
Year: 2019
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: Exploiting the analogy between ultracold atomic gases and the system of triplons, we study magneto-thermodynamic properties of dimerized quantum magnets in the framework of Bose -Einstein condensation (BEC). Particularly, introducing the inversion (or Joule - Thomson) temperature $T_{JT}$ as the point where Joule - Thomson coefficient of an isenthalpic process changes its sign, we show that for a simple paramagnet, this temperature is infinite, while for three-dimensional (3D) dimerized quantum magnets it is finite and always larger than the critical temperature $T_c$ of BEC. Below the inversion temperature $T
description: The text and figures have been revised
Jaccard/Tanimoto similarity test and estimation methods
Creators: name: Chung, Neo Christopher
name: Miasojedow, Błażej
name: Startek, Michał
name: Gambin, Anna
Publisher: name: arXiv
Year: 2019
Subjects: subject: Methodology (stat.ME)
subject: Applications (stat.AP)
subject: Computation (stat.CO)
subject: FOS: Computer and information sciences
subject: G.3; H.2.8; D.2.4
subject: 62F03, 62F40, 62P10, 62-07, 62E17

description: Binary data are used in a broad area of biological sciences. Using binary presence-absence data, we can evaluate species co-occurrences that help elucidate relationships among organisms and environments. To summarize similarity between occurrences of species, we routinely use the Jaccard/Tanimoto coefficient, which is the ratio of their intersection to their union. It is natural, then, to identify statistically significant Jaccard/Tanimoto coefficients, which suggest non-random co-occurrences of species. However, statistical hypothesis testing using this similarity coefficient has been seldom used or studied. We introduce a hypothesis test for similarity for biological presence-absence data, using the Jaccard/Tanimoto coefficient. Several key improvements are presented including unbiased estimation of expectation and centered Jaccard/Tanimoto coefficients, that account for occurrence probabilities. We derived the exact and asymptotic solutions and developed the bootstrap and measurement concentration algorithms to compute statistical significance of binary similarity. Comprehensive simulation studies demonstrate that our proposed methods produce accurate p-values and false discovery rates. The proposed estimation methods are orders of magnitude faster than the exact solution. The proposed methods are implemented in an open source R package called jaccard (https://cran.r-project.org/package=jaccard). We introduce a suite of statistical methods for the Jaccard/Tanimoto similarity coefficient, that enable straightforward incorporation of probabilistic measures in analysis for species co-occurrences. Due to their generality, the proposed methods and implementations are applicable to a wide range of binary data arising from genomics, biochemistry, and other areas of science.
Mass and axial charge of heavy baryons
Creators: name: Jiang, Nan
name: Chen, Xiao-Lin
name: Zhu, Shi-Lin
Publisher: name: arXiv
Year: 2014
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: High Energy Physics - Lattice (hep-lat)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We investigate the antitriplet and sextet heavy baryon systems with $J^P= \frac{1}{2}^+, \frac{3}{2}^+$ in the framework of the heavy baryon chiral perturbation theory. We first calculate the chiral corrections to the heavy baryon mass from the SU(3) flavor breaking effect up to $O(p^3)$. Then we extend the same formalism to calculate the chiral corrections to the axial charges of the heavy baryons in the isospin symmetry limit.
Scenario Machine: fast radio bursts, short gamma-ray burst, dark energy and Laser Interferometer Gravitational-wave Observatory silence
Creators: name: Lipunov, V. M.
name: Pruzhinskaya, M. V.
Publisher: name: arXiv
Year: 2013
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: We discuss the recently reported discovery of fast radio bursts (FRBs) in the framework of the neutron star-neutron star (NS+NS) or neutron star-black hole (NS+BH) binary merger model. We concentrate on what we consider to be an issue of greatest importance: what is the NS merger rate given that the FRB rate (1/1000 yr$^{-1}$ per galaxy) is inconsistent with gamma-ray burst rate as discussed by Thornton and should be significantly higher. We show that there is no discrepancy between NS merger rate and observed FRB rates in the framework of the Scenario Machine population synthesis - for a kick velocity of 100-150 km s$^{-1}$ an average NS merger rate is 1/500-1/2000 yr$^{-1}$ per galaxy up to z = 0.5-1. Based on the Scenario Machine NS merger rate estimates, we discuss the lack of positive detections on the ground-based interferometers, considering the Laser Interferometer Gravitational-wave Observatory.
description: 8 pages, 9 figures
Additional file 4 of The A2B trial, antibiotic prophylaxis for excision-graft surgery in burn patients: a multicenter randomized double-blind study
Creators: name: Dépret, François
name: Farny, Boris
name: Jeanne, Mathieu
name: Kada Klouche
name: Leclerc, Thomas
name: Nouette-Gaulain, Karine
name: Pantet, Olivier
name: Rémerand, Francis
name: Roquilly, Antoine
name: Anne-Françoise Rousseau
name: Sztajnic, Simon
name: Wiramus, Sandrine
name: Vicaut, Eric
name: Legrand, Matthieu
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: Additional file 4. Agence nationale de sécurité du medicament et des produits de santé approval
The Informed Sampler: A Discriminative Approach to Bayesian Inference in Generative Computer Vision Models
Creators: name: Jampani, Varun
name: Nowozin, Sebastian
name: Loper, Matthew
name: Gehler, Peter V.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Machine Learning (cs.LG)
subject: Machine Learning (stat.ML)
subject: FOS: Computer and information sciences

description: Computer vision is hard because of a large variability in lighting, shape, and texture; in addition the image signal is non-additive due to occlusion. Generative models promised to account for this variability by accurately modelling the image formation process as a function of latent variables with prior beliefs. Bayesian posterior inference could then, in principle, explain the observation. While intuitively appealing, generative models for computer vision have largely failed to deliver on that promise due to the difficulty of posterior inference. As a result the community has favoured efficient discriminative approaches. We still believe in the usefulness of generative models in computer vision, but argue that we need to leverage existing discriminative or even heuristic computer vision methods. We implement this idea in a principled way with an "informed sampler" and in careful experiments demonstrate it on challenging generative models which contain renderer programs as their components. We concentrate on the problem of inverting an existing graphics rendering engine, an approach that can be understood as "Inverse Graphics". The informed sampler, using simple discriminative proposals based on existing computer vision technology, achieves significant improvements of inference.
description: Appearing in Computer Vision and Image Understanding Journal (Special Issue on Generative Models in Computer Vision)
Lax pair formulation in the simultaneous presence of boundaries and defects
Creators: name: Doikou, Anastasia
Publisher: name: arXiv
Year: 2014
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Mathematical Physics (math-ph)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Physical sciences

description: Inspired by recent results on the effect of integrable boundary conditions on the bulk behavior of an integrable system, and in particular on the behavior of an existing defect we systematically formulate the Lax pairs in the simultaneous presence of integrable boundaries and defects. The respective sewing conditions as well as the relevant equations of motion on the defect point are accordingly extracted. We consider a specific prototype i.e. the vector non-linear Schrödinger (NLS) model to exemplify our construction. This model displays a highly non-trivial behavior and allows the existence of two distinct types of boundary conditions based on the reflection algebra or the twisted Yangian.
description: 19 pages, Latex. A few comments and clarifications added. Version to appear in J. Phys. A
Jahn-Teller driven perpendicular magnetocrystalline anisotropy in metastable Ruthenium
Creators: name: Odkhuu, Dorj
name: Rhim, S. H.
name: Park, N.
name: Nakamura, Kohji
name: Hong, S. C.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: A new metastable phase of the body-centered-tetragonal ruthenium ({\em bct}--Ru) is identified to exhibit a large perpendicular magnetocrystalline anisotropy (PMCA), whose energy, $E_{MCA}$, is as large as 150 $μ$eV/atom, two orders of magnitude greater than those of 3$d$ magnetic metals. Further investigation over the range of tetragonal distortion suggests that the appearance of the magnetism in the {\em bct}--Ru is governed by the Jahn-Teller spit $e_g$ orbitals. Moreover, from band analysis, MCA is mainly determined by an interplay between two $e_g$ states, $d_{x^2-y^2}$ and $d_{z^2}$ states, as a result of level reversal associated with tetragonal distortion.
description: 5 pages 4 figures submitted to Physical Review Letters, accepted by Phys. Rev. B
The study of the influence of gypsum binders used for glass-metal connections in conservation works on the glass surface degradation
Creators: name: Nowicka, A. E.
name: Greiner-Wronowa, E.
name: Galusková, D.
name: Hruška, B.
name: Galusek, D.
Publisher: name: Zenodo
Year: 2018
Subjects: Optical microscopy, Raman Spectroscopy, SEM

description: ICG 2018 Annual Meeting, September 23-26, 2018, Yokohama, Japan - poster
Buffer gas cooling of a trapped ion to the quantum regime
Creators: name: Feldker, T.
name: Fürst, H.
name: Hirzler, H.
name: Ewald, N. V.
name: Mazzanti, M.
name: Wiater, D.
name: Tomza, M.
name: Gerritsma, R.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Quantum Physics (quant-ph)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: Great advances in precision quantum measurement have been achieved with trapped ions and atomic gases at the lowest possible temperatures. These successes have inspired ideas to merge the two systems. In this way one can study the unique properties of ionic impurities inside a quantum fluid or explore buffer gas cooling of the trapped ion quantum computer. Remarkably, in spite of its importance, experiments with atom-ion mixtures remained firmly confined to the classical collision regime. We report a collision energy of 1.15(0.23) times the $s$-wave energy (or 9.9(2.0)~$μ$K) for a trapped ytterbium ion in an ultracold lithium gas. We observed a deviation from classical Langevin theory by studying the spin-exchange dynamics, indicating quantum behavior in the atom-ion collisions. Our results open up numerous opportunities, such as the exploration of atom-ion Feshbach resonances, in analogy to neutral systems.
description: 8 pages, 6 figures including appendices
Competition between heavy-fermion and Kondo interaction in isoelectronic A-site ordered perovskites
Creators: name: Meyers, D.
name: Middey, S.
name: Cheng, J. -G.
name: Mukherjee, Swarmakamal
name: Gray, B. A.
name: Cao, Yanwei
name: Zhou, J. -S.
name: Goodenough, J. B.
name: Choi, Yongseong
name: Haskel, D.
name: Freeland, J. W.
name: Saha-Dasgupta, T.
name: Chakhalian, J.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: With current research efforts shifting towards the 4$d$ and 5$d$ transition metal oxides, understanding the evolution of the electronic and magnetic structure as one moves away from 3$d$ materials is of critical importance. Here we perform X-ray spectroscopy and electronic structure calculations on $A$-site ordered perovskites with Cu in the $A$-site and the $B$-sites descending along the 9th group of the periodic table to elucidate the emerging properties as $d$-orbitals change from partially filled 3$d$, 4$d$, to 5$d$. The results show that when descending from Co to Ir the charge transfers from the cuprate like Zhang-Rice state on Cu to the t$_{2g}$ orbital of the B site. As the Cu $d$-orbital occupation approaches the Cu$^{2+}$ limit, a mixed-valence state in CaCu$_3$Rh$_4$O$_{12}$ and heavy fermion state in CaCu$_3$Ir$_4$O$_{12}$ are obtained. The investigated d-electron compounds are mapped onto the Doniach phase diagram of the competing RKKY and Kondo interactions developed for f-electron systems.
description: 4 pages, 4 figures
The bias of the unbiased estimator: a study of the iterative application of the BLUE method
Creators: name: Lista, Luca
Publisher: name: arXiv
Year: 2014
Subjects: subject: Data Analysis, Statistics and Probability (physics.data-an)
subject: FOS: Physical sciences

description: The best linear unbiased estimator (BLUE) is a popular statistical method adopted to combine multiple measurements of the same observable taking into account individual uncertainties and their correlation. The method is unbiased by construction if the true uncertainties and their correlation are known, but it may exhibit a bias if uncertainty estimates are used in place of the true ones, in particular if those estimated uncertainties depend on measured values. This is the case for instance when contributions to the total uncertainty are known as relative uncertainties. In those cases, an iterative application of the BLUE method may reduce the bias of the combined measurement. The impact of the iterative approach compared to the standard BLUE application is studied for a wide range of possible values of uncertainties and their correlation in the case of the combination of two measurements.
description: 23 pages, 14 figures, accepted for publication in Nucl. Instr. and Meth. A
Additional file 2 of The A2B trial, antibiotic prophylaxis for excision-graft surgery in burn patients: a multicenter randomized double-blind study
Creators: name: Dépret, François
name: Farny, Boris
name: Jeanne, Mathieu
name: Kada Klouche
name: Leclerc, Thomas
name: Nouette-Gaulain, Karine
name: Pantet, Olivier
name: Rémerand, Francis
name: Roquilly, Antoine
name: Anne-Françoise Rousseau
name: Sztajnic, Simon
name: Wiramus, Sandrine
name: Vicaut, Eric
name: Legrand, Matthieu
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology

description: Additional file 2. SPIRIT checklist
Limitations on Quantum Key Repeaters
Creators: name: Bäuml, Stefan
name: Christandl, Matthias
name: Horodecki, Karol
name: Winter, Andreas
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Physics (quant-ph)
subject: Information Theory (cs.IT)
subject: FOS: Physical sciences
subject: FOS: Computer and information sciences

description: A major application of quantum communication is the distribution of entangled particles for use in quantum key distribution (QKD). Due to noise in the communication line, QKD is in practice limited to a distance of a few hundred kilometres, and can only be extended to longer distances by use of a quantum repeater, a device which performs entanglement distillation and quantum teleportation. The existence of noisy entangled states that are undistillable but nevertheless useful for QKD raises the question of the feasibility of a quantum key repeater, which would work beyond the limits of entanglement distillation, hence possibly tolerating higher noise levels than existing protocols. Here we exhibit fundamental limits on such a device in the form of bounds on the rate at which it may extract secure key. As a consequence, we give examples of states suitable for QKD but unsuitable for the most general quantum key repeater protocol.
description: 11+38 pages, 4 figures, Statements for exact p-bits weakened as non-locking bound on measured relative entropy distance contained an error
Variational problems in conformal geometry
Creators: name: Angella, Daniele
name: Istrati, Nicolina
name: Otiman, Alexandra
name: Tardini, Nicoletta
Publisher: name: arXiv
Year: 2019
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics

description: We study the Euler-Lagrange equation for several natural functionals defined on a conformal class of almost Hermitian metrics, whose expression involves the Lee form $θ$ of the metric. We show that the Gauduchon metrics are the unique extremal metrics of the functional corresponding to the norm of the codifferential of the Lee form. We prove that on compact complex surfaces, in every conformal class there exists a unique metric, up to multiplication by a constant, which is extremal for the functional given by the $L^2$-norm of $dJθ$, where $J$ denotes the complex structure. These extremal metrics are not the Gauduchon metrics in general, hence we extend their definition to any dimension and show that they give unique representatives, up to constant multiples, of any conformal class of almost Hermitian metrics.
Quantum correlations in optical metrology: Heisenberg-limited phase estimation without mode entanglement
Creators: name: Sahota, Jaspreet
name: Quesada, Nicolás
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The quantum fisher information and quantum correlation parameters are employed to study the application of non-classical light to the problem of parameter estimation. It is shown that the optimal measurement sensitivity of a quantum state is determined by its inter-mode correlations (which depends of path-entanglement) and intra-mode correlations (which depends of the photon statistics). In light of these results, we consider the performance of quantum-enhanced optical interferometers. Furthermore, we propose a Heisenberg-limited metrology protocol involving standard elements from passive and active linear optics, for which the quantum Cramér-Rao bound is saturated with an intensity measurement. Interestingly, the quantum advantage for this scheme is derived solely from the non-classical photon statistics of the probe state and does not depend of entanglement. We study the performance of this scheme in the presence of realistic losses and consequently predict a substantial enhancement over the shot-noise limit with current technological capabilities.
description: 8 pages, 3 figures, 1 table
Effects of electron inertia in collisionless magnetic reconnection
Creators: name: Andrés, N.
name: Martin, L.
name: Dmitruk, P.
name: Gómez, D.
Publisher: name: arXiv
Year: 2013
Subjects: subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: We present a study of collisionless magnetic reconnection within the framework of full two-fluid MHD for a completely ionized hydrogen plasma, retaining the effects of the Hall current, electron pressure and electron inertia. We performed 2.5D simulations using a pseudo-spectral code with no dissipative effects. We check that the ideal invariants of the problem are conserved down to round-off errors. Our results show that the change in the topology of the magnetic field lines is exclusively due to the presence of electron inertia. The computed reconnection rates remain a fair fraction of the Alfvén velocity, which therefore qualifies as fast reconnection.
Hall conductance and topological invariant for open systems
Creators: name: Shen, H. Z.
name: Wang, W.
name: Yi, X. X.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The Hall conductivity given by the Kubo formula is a linear response of the quantum transverse transport to a weak electric field. It has been intensively studied for a quantum system without decoherence, but it is barely explored for systems subject to decoherence. In this paper, we develop a formalism to deal with this issue for topological insulators. The Hall conductance for a topological insulator coupled to an environment is derived, the derivation is based on a linear response theory of open system. As an application, the Hall conductance of a two-band topological insulator and a two-dimensional lattice is presented and discussed.
description: 33 manuscript pages, 4 figures, http://www.nature.com/srep/2014/140924/srep06455/full/srep06455.html
Dirichlet eigenfunctions of the square membrane: Courant's property, and A. Stern's and Å. Pleijel's analyses
Creators: name: Bérard, Pierre
name: Helffer, Bernard
Publisher: name: arXiv
Year: 2014
Subjects: subject: Analysis of PDEs (math.AP)
subject: Spectral Theory (math.SP)
subject: FOS: Mathematics

description: In this paper, we revisit Courant's nodal domain theorem for the Dirichlet eigenfunctions of a square membrane, and the analyses of A. Stern and Å. Pleijel.
description: To appear in Springer Proceedings in Mathematics \& Statistics (2015), MIMS-GGTM conference in memory of M. S. Baouendi. Ali Baklouti, Aziz El Kacimi, Sadok Kallel, and Nordine Mir Editors
Gray-body factor and infrared divergences in 1D BEC acoustic black holes
Creators: name: Anderson, Paul R.
name: Balbinot, Roberto
name: Fabbri, Alessandro
name: Parentani, Renaud
Publisher: name: arXiv
Year: 2014
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Quantum Gases (cond-mat.quant-gas)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: It is shown that the gray-body factor for a one-dimensional elongated Bose-Einstein condensate (BEC) acoustic black hole with one horizon does not vanish in the low-frequency ($ω\to 0$) limit. This implies that the analog Hawking radiation is dominated by the emission of an infinite number ($\frac{1}ω$) of soft phonons in contrast with the case of a Schwarzschild black hole where the gray-body factor vanishes as $ω\to 0$ and the spectrum is not dominated by low-energy particles. The infrared behaviors of certain correlation functions are also discussed.
description: 6 pages, 2 figures. Final version. A double misprint in Eq. (21) of the published version has been corrected here