cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
MOESM2 of RADAR: differential analysis of MeRIP-seq data with a random effect model
Creators: name: Zhang, Zijie
name: Zhan, Qi
name: Eckert, Mark
name: Zhu, Allen
name: Chryplewicz, Agnieszka
name: De Jesus, Dario
name: Ren, Decheng
name: Kulkarni, Rohit
name: Lengyel, Ernst
name: He, Chuan
name: Chen, Mengjie
Publisher: name: figshare
Year: 2019
Subjects: subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Additional file 2. Review history.
Quasi-static microdroplet production in a capillary trap
Creators: name: Valet, M.
name: Pontani, L. -L.
name: Prevost, A. M.
name: Wandersman, E.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: We have developed a method to produce aqueous microdroplets in an oil phase, based on the periodic extraction of a pending droplet across the oil/air interface. This interface forms a capillary trap inside which a droplet can be captured and detached. This process is found to be capillary- based and quasi-static. The droplet size and emission rate are independently governed by the injected volume per cycle and the extraction frequency. We find that the minimum droplet diameter is close to the injection glass capillary diameter and that variations in surface tension moderately perturb the droplet size. A theoretical model based on surface energy minimization in the oil/water/air phases was derived and captures the experimental results. This method enables robust, versatile and tunable production of microdroplets at low production rates.
Grasping asymmetric information in market impacts
Creators: name: Wang, Shanshan
name: Neusüß, Sebastian
name: Guhr, Thomas
Publisher: name: arXiv
Year: 2017
Subjects: subject: Trading and Market Microstructure (q-fin.TR)
subject: Statistical Finance (q-fin.ST)
subject: FOS: Economics and business

description: The price impact for a single trade is estimated by the immediate response on an event time scale, i.e., the immediate change of midpoint prices before and after a trade. We work out the price impacts across a correlated financial market. We quantify the asymmetries of the distributions and of the market structures of cross-impacts, and find that the impacts across the market are asymmetric and non-random. Using spectral statistics and Shannon entropy, we visualize the asymmetric information in price impacts. Also, we introduce an entropy of impacts to estimate the randomness between stocks. We show that the useful information is encoded in the impacts corresponding to small entropy. The stocks with large number of trades are more likely to impact others, while the less traded stocks have higher probability to be impacted by others.
Nonstandard methods in large-scale topology
Creators: name: Imamura, Takuma
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Topology (math.GN)
subject: FOS: Mathematics
subject: 54J05, 46A08, 53C23

description: We develop some nonstandard techniques for bornological and coarse spaces. We first generalise the notion of bornology to prebornology, which better fits to coarse spaces. We then give nonstandard characterisations of some basic large-scale notions in terms of galaxies and finite closeness relations, concepts that have been developed for metric spaces. Some hybrid notions that involve both small-scale and large-scale are also discussed. Finally we illustrate an application of our nonstandard characterisations to prove some elementary facts in large-scale topology and functional analysis, e.g., the fact that the class of Higson functions forms a $C^{\ast}$-algebra.
description: Accepted by Topology and its Applications; corrigendum added
Additional file 7: of Epigenetic regulation of placental gene expression in transcriptional subtypes of preeclampsia
Creators: name: Leavey, Katherine
name: Wilson, Samantha
name: Bainbridge, Shannon
name: Robinson, Wendy
name: Cox, Brian
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Developmental Biology
subject: Cancer
subject: Plant Biology
subject: Computational Biology

description: Figure S3. Distribution of significantly differentially methylated positions in transcriptional cluster 3 (versus transcriptional cluster 1) compared to the full set of possible methylation probes. (PDF 560Â kb)
Bootstrapping the QCD soft anomalous dimension
Creators: name: Almelid, Øyvind
name: Duhr, Claude
name: Gardi, Einan
name: McLeod, Andrew
name: White, Chris D.
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The soft anomalous dimension governs the infrared singularities of scattering amplitudes to all orders in perturbative quantum field theory, and is a crucial ingredient in both formal and phenomenological applications of non-abelian gauge theories. It has recently been computed at three-loop order for massless partons by explicit evaluation of all relevant Feynman diagrams. In this paper, we show how the same result can be obtained, up to an overall numerical factor, using a bootstrap procedure. We first give a geometrical argument for the fact that the result can be expressed in terms of single-valued harmonic polylogarithms. We then use symmetry considerations as well as known properties of scattering amplitudes in collinear and high-energy (Regge) limits to constrain an ansatz of basis functions. This is a highly non-trivial cross-check of the result, and our methods pave the way for greatly simplified higher-order calculations.
description: 37 pages, 1 figure
Additional file 1: of Adiposity and the isotemporal substitution of physical activity, sedentary time and sleep among school-aged children: a compositional data analysis approach
Creators: name: Dumuid, Dorothea
name: Tyman Stanford
name: Željko Pedišić
name: Maher, Carol
name: Lewis, Lucy
name: Josep-Antoni Martín-Fernández
name: Katzmarzyk, Peter
name: Jean-Philippe Chaput
name: Fogelholm, Mikael
name: Standage, Martyn
name: Tremblay, Mark
name: Olds, Timothy
Publisher: name: figshare
Year: 2018
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Compositional Data Analysis Description and Sample R Code (PDF 2113 kb)
The first all-sky view of the Milky Way stellar halo with Gaia+2MASS RR Lyrae
Creators: name: Iorio, G.
name: Belokurov, V.
name: Erkal, D.
name: Koposov, S. E.
name: Nipoti, C.
name: Fraternali, F.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We exploit the first \gaia data release to study the properties of the Galactic stellar halo as traced by RR Lyrae. We demonstrate that it is possible to select a pure sample of RR Lyrae using only photometric information available in the Gaia+2MASS catalogue. The final sample contains about 21600 RR Lyrae covering an unprecedented fraction ($\sim60\%$) of the volume of the Galactic inner halo ($\text{R}<28$ kpc). We study the morphology of the stellar halo by analysing the RR Lyrae distribution with parametric and non-parametric techniques. Taking advantage of the uniform all-sky coverage, we test halo models more sophisticated than usually considered in the literature, such as those with varying flattening, tilt and/or offset of the halo with respect to the Galactic disc. A consistent picture emerges: the inner halo is well reproduced by a smooth distribution of stars settled on triaxial ellipsoids. The minor axis is perpendicular to the Milky Ways disc, while the major axis is misaligned by $\sim20^{\circ}$ from the Galactic Y axis. The elongation along the major axis is mild ($\text{p}=1.27$), and the vertical flattening is shown to evolve from a squashed state with $\text{q}\approx0.57$ in the centre to a more spherical $\text{q}\approx0.75$ at the outer edge of our dataset. The density slope is well approximated by a single power-law with exponent $α=-2.96$. Within the range probed, we see no significant evidence for a change of the radial density slope, out of the plane tilt or an offset of the halo with respect to the Galaxy's centre.
description: Accepted for publication in MNRAS
Additional file 2: of The Strengthening Exercises in Shoulder Impingement trial (The SExSI-trial) investigating the effectiveness of a simple add-on shoulder strengthening exercise programme in patients with long-lasting subacromial impingement syndrome: Study protocol for a pragmatic, assessor blinded, parallel-group, randomised, controlled trial
Creators: name: Clausen, Mikkel
name: Bandholm, Thomas
name: Rathleff, Michael Skovdal
name: Christensen, Karl
name: Zebis, Mette
name: Graven-Nielsen, Thomas
name: Hรถlmich, Per
name: Thorborg, Kristian
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: TIDieR control, usual care. (PDF 113 kb)
Sensitivity analysis on chaotic dynamical systems by Finite Difference Non-Intrusive Least Squares Shadowing (FD-NILSS)
Creators: name: Ni, Angxiu
name: Wang, Qiqi
name: Fernandez, Pablo
name: Talnikar, Chaitanya
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computational Physics (physics.comp-ph)
subject: Numerical Analysis (math.NA)
subject: Chaotic Dynamics (nlin.CD)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: We present the Finite Difference Non-Intrusive Least Squares Shadowing (FD-NILSS) algorithm for computing sensitivities of long-time averaged quantities in chaotic dynamical systems. FD-NILSS does not require tangent solvers, and can be implemented with little modification to existing numerical simulation software. We also give a formula for solving the least-squares problem in FD-NILSS, which can be applied in NILSS as well. Finally, we apply FD-NILSS for sensitivity analysis of a chaotic flow over a 3-D cylinder at Reynolds number 525, where FD-NILSS computes accurate sensitivities and the computational cost is in the same order as the numerical simulation.
description: 20 pages, 8 figures
An isogeometric finite element formulation for phase transitions on deforming surfaces
Creators: name: Zimmermann, Christopher
name: Toshniwal, Deepesh
name: Landis, Chad M.
name: Hughes, Thomas J. R.
name: Mandadapu, Kranthi K.
name: Sauer, Roger A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Numerical Analysis (math.NA)
subject: FOS: Mathematics

description: This paper presents a general theory and isogeometric finite element implementation for studying mass conserving phase transitions on deforming surfaces. The mathematical problem is governed by two coupled fourth-order nonlinear partial differential equations (PDEs) that live on an evolving two-dimensional manifold. For the phase transitions, the PDE is the Cahn-Hilliard equation for curved surfaces, which can be derived from surface mass balance in the framework of irreversible thermodynamics. For the surface deformation, the PDE is the (vector-valued) Kirchhoff-Love thin shell equation. Both PDEs can be efficiently discretized using $C^1$-continuous interpolations without derivative degrees-of-freedom (dofs). Structured NURBS and unstructured spline spaces with pointwise $C^1$-continuity are utilized for these interpolations. The resulting finite element formulation is discretized in time by the generalized-$α$ scheme with adaptive time-stepping, and it is fully linearized within a monolithic Newton-Raphson approach. A curvilinear surface parameterization is used throughout the formulation to admit general surface shapes and deformations. The behavior of the coupled system is illustrated by several numerical examples exhibiting phase transitions on deforming spheres, tori and double-tori.
description: fixed typos, extended literature review, added clarifying notes to the text, added supplementary movie files
$f(T)$ gravity and energy distribution in Landau-Lifshitz prescription
Creators: name: Ganiou, M. G.
name: Houndjo, M. J. S.
name: Tossa, J.
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Physics (physics.gen-ph)
subject: FOS: Physical sciences

description: We investigate in this paper the Landau-Lifshitz energy distribution in the framework of $f(T)$ theory view as a modified version of Teleparallel theory. From some important Teleparallel theory results on the localization of energy, our investigations generalize the Landau-Lifshitz prescription from the computation of the energy-momentum complex to the framework of $f (T)$ gravity as it is done in the modified versions of General Relativity. We compute the energy density in the first step for three plane symmetric metrics in vacuum. We find for the second metric that the energy density vanishes independently of $f (T)$ models. These metrics provide results in perfect agreement with those mentioned in literature. In the second step the calculations are performed for the Cosmic String Spacetime metric. It results that the energy distribution depends on the mass $M$ of cosmic string and it is strongly affected by the parameter of the considered $f (T)$ quadratic model.
description: 23 pages, 4 figures
Proximity-induced superconductivity and quantum interference in topological crystalline insulator SnTe thin film devices
Creators: name: Klett, Robin-Pierre
name: Schönle, Joachim
name: Becker, Andreas
name: Dyck, Denis
name: Rott, Karsten
name: Haskenhoff, Jan
name: Krieft, Jan
name: Hübner, Torsten
name: Reimer, Oliver
name: Shekhar, Chandra
name: Schmalhorst, Jan-Michael
name: Hütten, Andreas
name: Felser, Claudia
name: Wernsdorfer, Wolfgang
name: Reiss, Günter
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: Topological crystalline insulators represent a new state of matter, in which the electronic transport is governed by mirror-symmetry protected Dirac surface states. Due to the helical spin-polarization of these surface states, the proximity of topological crystalline matter to a nearby superconductor is predicted to induce unconventional superconductivity and thus to host Majorana physics. We report on the preparation and characterization of Nb-based superconducting quantum interference devices patterned on top of topological crystalline insulator SnTe thin films. The SnTe films show weak antilocalization and the weak links of the SQUID fully-gapped proximity induced superconductivity. Both properties give a coinciding coherence length of 120 nm. The SQUID oscillations induced by a magnetic field show 2$π$ periodicity, possibly dominated by the bulk conductivity.
A Monte Carlo study of the relevance of fluorescence radiation in VHE gamma ray observations with Cherenkov telescopes
Creators: name: Morcuende, Daniel
name: Contreras, José Luis
name: Rosado, Jaime
name: Saha, Lab
name: de Souza, Vitor
Publisher: name: arXiv
Year: 2017
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: It is generally assumed that fluorescence radiation does not play a significant role in the performance of Cherenkov telescopes. However, this assumption is required to be verified using detailed Monte Carlo simulations. In order to do this, we have implemented the production and tracking of fluorescence radiation inside the CORSIKA code, and simulated gamma-ray induced showers in the very high energy range. The most accurate fluorescence-yield data available so far was used for this purpose. The distribution of both light components on the ground has been studied as a function of various parameters affecting the detection and reconstruction of gamma-ray showers such as the angular aperture. From these distributions, we determined the conditions under which fluorescence radiation becomes significant. These results will also be useful to estimate the corresponding systematic errors in Cherenkov telescope observations. The full simulation results have been cross-checked, on a small sample of events, against numerical calculations based on a one-dimension shower profile and found to be compatible with each other. Both tools can be used for further investigations, like studying the possibility to modify Cherenkov telescopes for the measurement of fluorescence induced by extensive air showers.
description: 8 pages, 4 figures, contribution to 35th International Cosmic Ray Conference (ICRC2017), 10-20 July, 2017
Poisson-Boltzmann theory with non-linear ion correlations
Creators: name: Su, Mao
name: Xu, Zhijie
name: Wang, Yanting
Publisher: name: arXiv
Year: 2017
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The Poisson-Boltzmann (PB) theory is widely used to depict ionic systems. As a mean-field theory, the PB theory neglects the correlation effect in the ionic atmosphere and leads to deviations from experimental results as the concentration or charge valance increases. A modified PB theory including ion correlation effect while retaining its simplicity is critical for many important applications in which ion correlation effect can be significant. In this paper, we present a new model to incorporate ion correlations into the original PB equation by utilizing the Green's function with a non-linear form of the self-energy, which is different from the linear self-energy equation obtained by the Field-Theoretic (FT) approach. Both equations are solved numerically and compared with our molecular dynamics (MD) simulation. The co-ion distribution calculated by the FT approach deviates significantly from the MD simulation, while our results for both counter-ion and co-ion distributions are justified by the MD simulation.
description: 8 pages, 5 figures
Influencing factors for placenta accreta in recent 5 years: a systematic review and meta-analysis
Creators: name: Hou, Yi-Ping
name: Lommel, Lisa
name: Wiley, James
name: Zhou, Xi-Hong
name: Yao, Min
name: Liu, Sai
name: Peng, Jin-Li
Publisher: name: Taylor & Francis
Year: 2020
Subjects: Chemical Sciences not elsewhere classified
Developmental Biology
Science Policy

description: Assess influencing factors for placenta accreta in pregnant women documented in recent literature. A systematic review and meta-analysis were conducted based on English- and Chinese-language articles published from January 2014 to June 2019. Articles were retrieved from the following Chinese databases, CNKI, Wanfang Data, China Science and Technology Journal Database, CBM and English databases, PubMed, Web of Science, the Cochrane Library and Embase. Eleven studies with 2,152,014 cases were included in the meta-analysis. The odds ratios of influencing factors were as follows: hypertension 2.51 (95% CI, 1.50–4.20), multifetal gestations 1.90 (95% CI, 1.26–2.88), male fetus 0.79 (95% CI, 0.74–0.84), and low socioeconomic status 0.51 (95% CI, 0.37–0.71). Evidence from English- and Chinese-language literature indicates that hypertension and multifetal gestations are risk factors for placenta accreta, while male fetus and low socioeconomic status are protective factors.
Angular momentum transport with twisted exciton wave packets
Creators: name: Zang, Xiaoning
name: Lusk, Mark T.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Other Condensed Matter (cond-mat.other)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: A chain of cofacial molecules with CN or CNh symmetry supports excitonic states with a screw-like structure. These can be quantified with the combination of an axial wavenumber and an azimuthal winding number. Combinations of these states can be used to construct excitonic wave packets that spiral down the chain with well-determined linear and angular momenta. These twisted exciton wave packets can be created and annihilated using laser pulses, and their angular momentum can be optically modified during transit. This allows for the creation of opto-excitonic circuits in which information, encoded in the angular momentum of light, is converted into excitonic wave packets that can be manipulated, transported, and then re-emitted. A tight-binding paradigm is used to demonstrate the key ideas. The approach is then extended to quantify the evolution of twisted exciton wave packets in a many-body, multi-level time-domain density functional theory setting. In both settings, numerical methods are developed that allow the site-to-site transfer of angular momentum to be quantified.
description: 10 pages, 11 figures
Additional file 3: of Factors driving metabolic diversity in the budding yeast subphylum
Creators: name: Opulente, Dana
name: Rollinson, Emily
name: Cleome Bernick-Roehr
name: Hulfachor, Amanda
name: Rokas, Antonis
name: Kurtzman, Cletus
name: Hittinger, Chris
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 60506 Virology

description: Figure S1. Hierarchical cluster analysis of traits, using similarities among trait associations. The different colors represent selected significant clusters. Biologically meaningful clusters were named accordingly. Note that the strengths of the positive and negative associations with fermentation and with growth at high temperatures (37 Â°C) lead to clustering, which, in some cases, obscures the subtler associations among carbon source utilization traits that are readily observed in the network analysis presented in Fig. 6. (PDF 285 kb)
Sparse-then-Dense Alignment based 3D Map Reconstruction Method for Endoscopic Capsule Robots
Creators: name: Turan, Mehmet
name: Pilavci, Yusuf Yigit
name: Ganiyusufoglu, Ipek
name: Araujo, Helder
name: Konukoglu, Ender
name: Sitti, Metin
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences

description: Since the development of capsule endoscopcy technology, substantial progress were made in converting passive capsule endoscopes to robotic active capsule endoscopes which can be controlled by the doctor. However, robotic capsule endoscopy still has some challenges. In particular, the use of such devices to generate a precise and globally consistent three-dimensional (3D) map of the entire inner organ remains an unsolved problem. Such global 3D maps of inner organs would help doctors to detect the location and size of diseased areas more accurately, precisely, and intuitively, thus permitting more accurate and intuitive diagnoses. The proposed 3D reconstruction system is built in a modular fashion including preprocessing, frame stitching, and shading-based 3D reconstruction modules. We propose an efficient scheme to automatically select the key frames out of the huge quantity of raw endoscopic images. Together with a bundle fusion approach that aligns all the selected key frames jointly in a globally consistent way, a significant improvement of the mosaic and 3D map accuracy was reached. To the best of our knowledge, this framework is the first complete pipeline for an endoscopic capsule robot based 3D map reconstruction containing all of the necessary steps for a reliable and accurate endoscopic 3D map. For the qualitative evaluations, a real pig stomach is employed. Moreover, for the first time in literature, a detailed and comprehensive quantitative analysis of each proposed pipeline modules is performed using a non-rigid esophagus gastro duodenoscopy simulator, four different endoscopic cameras, a magnetically activated soft capsule robot (MASCE), a sub-millimeter precise optical motion tracker and a fine-scale 3D optical scanner.
description: arXiv admin note: text overlap with arXiv:1705.06524
Bayesian adaptive selection of basis functions for functional data representation
Creators: name: Sousa, Pedro Henrique T. O.
name: de Souza, Camila P. E.
name: Dias, Ronaldo
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Neuroscience
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Cancer

description: Considering the context of functional data analysis, we developed and applied a new Bayesian approach via the Gibbs sampler to select basis functions for a finite representation of functional data. The proposed methodology uses Bernoulli latent variables to assign zero to some of the basis function coefficients with a positive probability. This procedure allows for an adaptive basis selection since it can determine the number of bases and which ones should be selected to represent functional data. Moreover, the proposed procedure measures the uncertainty of the selection process and can be applied to multiple curves simultaneously. The methodology developed can deal with observed curves that may differ due to experimental error and random individual differences between subjects, which one can observe in a real dataset application involving daily numbers of COVID-19 cases in Brazil. Simulation studies show the main properties of the proposed method, such as its accuracy in estimating the coefficients and the strength of the procedure to find the true set of basis functions. Despite having been developed in the context of functional data analysis, we also compared the proposed model via simulation with the well-established LASSO and Bayesian LASSO, which are methods developed for non-functional data.
Selection of the optimal personalized treatment from multiple treatments with right-censored multivariate outcome measures
Creators: name: Siriwardhana, Chathura
name: Kulasekera, K.B.
name: Datta, Somnath
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: We propose a novel personalized concept for the optimal treatment selection for a situation where the response is a multivariate vector that could contain right-censored variables such as survival time. The proposed method can be applied with any number of treatments and outcome variables, under a broad set of models. Following a working semiparametric Single Index Model that relates covariates and responses, we first define a patient-specific composite score, constructed from individual covariates. We then estimate conditional means of each response, given the patient score, correspond to each treatment, using a nonparametric smooth estimator. Next, a rank aggregation technique is applied to estimate an ordering of treatments based on ranked lists of treatment performance measures given by conditional means. We handle the right-censored data by incorporating the inverse probability of censoring weighting to the corresponding estimators. An empirical study illustrates the performance of the proposed method in finite sample problems. To show the applicability of the proposed procedure for real data, we also present a data analysis using HIV clinical trial data, that contained a right-censored survival event as one of the endpoints.
Discrete versions of some Dirac type equations and plane wave solutions
Creators: name: Sushch, Volodymyr
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences
subject: 81Q05, 39A12, 39A70

description: A discrete version of the plane wave solution to some discrete Dirac type equations in the spacetime algebra is established. The conditions under which a discrete analogue of the plane wave solution satisfies the discrete Hestenes equation are briefly discussed.
description: 12 pages. arXiv admin note: text overlap with arXiv:1609.04594
Additional file 1: of The Strengthening Exercises in Shoulder Impingement trial (The SExSI-trial) investigating the effectiveness of a simple add-on shoulder strengthening exercise programme in patients with long-lasting subacromial impingement syndrome: Study protocol for a pragmatic, assessor blinded, parallel-group, randomised, controlled trial
Creators: name: Clausen, Mikkel
name: Bandholm, Thomas
name: Rathleff, Michael Skovdal
name: Christensen, Karl
name: Zebis, Mette
name: Graven-Nielsen, Thomas
name: Hรถlmich, Per
name: Thorborg, Kristian
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Populated SPIRIT checklist (PDF 172 kb)
Relatório Técnico - Índice Mackenzie de Liberdade Econômica Estadual (2021)
Creators: name: Maciel, Vladimir Fernandes
name: De Gamboa, Ulisses Monteiro Ruiz
name: Portillo, Julian Alexienco
Publisher: name: Zenodo
Year: 2021
Subjects: Liberdade Econômica
Gasto do governo
Tributação
Regulamentação
Mercados estaduais de trabalho

description: Índice Mackenzie de Liberdade Econômica Estadual (IMLEE) é um índice de natureza subnacional que tem como finalidade a comparação de jurisdições estaduais do Brasil a fim de fomentar o debate sobre a liberdade econômica no Brasil por meio de elementos objetivos, assim como estimular a adoção de políticas públicas que ampliem a liberdade econômica e permitam maior crescimento e prosperidade da economia brasileira e de seus cidadãos. Com base na metodologia do Fraser Institute no Economic Freedom of North America1, o IMLEE 2021 apontou piora no ambiente de negócios de todos os estados brasileiros, porém o desempenho é bem distinto entre eles. O ano base dos dados utilizados é 2019. O que é o IMLEE? É um indicador sintético que mede em que medida as políticas das UF (estados e municípios) e as suas conjunturas específicas foram, em 2019, capazes de apoiar a liberdade econômica - a capacidade dos indivíduos agirem na esfera econômica sem restrições indevidas. É um índice inédito no Brasil e que ajuda a avaliar as condições de se empreender nos diferentes estados brasileiros e o grau de interferência estatal. O índice varia de zero (menos liberdade) a dez (mais liberdade) e é uma medida relativa de desempenho dos estados e do distrito federal. De acordo com estudo publicado com o IMLEE, as unidades federativas que se encontram no grupo de maior nível de liberdade econômica contam com maior PIB per-capita e menor informalidade no mercado de trabalho2. Resultados em 2021 A nota média do conjunto das unidades federativas do Brasil caiu para 6,37 ante 7,66 do relatório passado. É uma redução compatível com a estagnação e a perda de algumas posições que o país obteve no Economic Freedom of the World 2021 do Fraser Institute - elaborado também com base nos dados de 2019. O Gráfico 1 mostra as notas das unidades federativas em nesta edição de 2021.
A noncommutative catenoid
Creators: name: Arnlind, Joakim
name: Holm, Christoffer
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Algebra (math.QA)
subject: Mathematical Physics (math-ph)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 46L87

description: A noncommutative algebra corresponding to the classical catenoid is introduced together with a differential calculus of derivations. We prove that there exists a unique metric and torsion-free connection that is compatible with the complex structure, and the curvature is explicitly calculated. A noncommutative analogue of the fact that the catenoid is a minimal surface is studied by constructing a Laplace operator from the connection and showing that the embedding coordinates are harmonic. Furthermore, an integral is defined and the total curvature is computed. Finally, classes of left and right modules are introduced together with constant curvature connections, and bimodule compatibility conditions are discussed in detail.
Modeling the spatial patterns of antenatal care utilization in Nigeria with inference based on Pólya-Gamma mixtures
Creators: name: Egbon, Osafu Augustine
name: Gayawan, Ezra
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Science Policy

description: Despite the vast advantages of making antenatal care visits, the service utilization among pregnant women in Nigeria is suboptimal. A five-year monitoring estimate indicated that about 24% of the women who had live births made no visit. The non-utilization induced excessive zeroes in the outcome of interest. Thus, this study adopted a zero-inflated negative binomial model within a Bayesian framework to identify the spatial pattern and the key factors hindering antenatal care utilization in Nigeria. We overcome the intractability associated with posterior inference by adopting a Pólya-Gamma data-augmentation technique to facilitate inference. The Gibbs sampling algorithm was used to draw samples from the joint posterior distribution. Results revealed that type of place of residence, maternal level of education, access to mass media, household work index, and woman's working status have significant effects on the use of antenatal care services. Findings identified substantial state-level spatial disparity in antenatal care utilization across the country. Cost-effective techniques to achieve an acceptable frequency of utilization include the creation of a community-specific awareness to emphasize the importance and benefits of the appropriate utilization. Special consideration should be given to older pregnant women, women in poor antenatal utilization states, and women residing in poor road network regions.
1.2 The Role of Libraries in the Adoption of Research Data Management
Creators: name: Verheul, Ingeborg; Ringersma, Jacquelijn
Publisher: name: Zenodo
Year: 2017
Subjects: research data, management, libraries

description: About 5 years ago the first societal demands for Research Data Management (RDM) were heard. Since then, RDM has been a topic of growing interest for Universities and their Library & IT services. Motivations for RDM were, and still are: scientific integrity, improvement of the verification process, research continuity and financial/funding. In the Netherlands, most University Libraries played a major role in RDM awareness amongst researchers. Libraries developed a series of RDM services, and at the same time Libraries have built RDM capacity in their Library staff. At the same time, a national initiative to facilitate cooperation, knowledge sharing and enhancing the development of RDM-policy was launched in the Netherlands, in the form of the National Coordination Point Research Data Management (https://www.surf.nl/en/lcrdm). University libraries are the linking pins in the current working groups of the LCRDM, who work at a national level on topics such as legal aspects and ownership of RDM, financing of RDM, facilities and data infrastructure for RDM, research support and advise and awareness raising/engagement. However, despite the efforts and growing awareness, we still observe a relatively low adoption of RDM by the scientific community. Our presentation is twofold. After an introduction of the national initiative in the Netherlands and a comparison with the national initiatives in the UK and in Germany we want to dive deeper into the issue of how libraries can contribute to a better adoption of RDM by the research communities through improved RDM services, facilitating the findability (and re-use) of data, and communication. Libraries cannot work alone in achieving this. In our presentation we show that collaboration with IT, Legal Services and the Research Community is pre-requisite for a successful RDM adoption, both on a national level and within individual universities. In our presentation we will give some concrete working examples, based on experiences in Wageningen University, especially on how the Library at Wageningen University & Research facilitates the registration of research data, thus making the data findable and citable. RDM services cannot be developed by Libraries only. A close and trusted collaboration with IT services and Legal/policy services is required. RDM demands many types of expertise. We present how to create a collaborative Data Management Support Unit, in which all three services work together. With a single point of entry for the Researcher. Finally: an increased adoption of RDM can only be achieved when we communicate a lot. And not just within the Library community, but with our researchers! The main sender of the message is however, preferably not the Library or the IT services, but the research community spokes persons themselves. To obtain this, we work closely together with the Graduate Schools, who take the lead in the communication.
Additional file 5: of Epigenetic regulation of placental gene expression in transcriptional subtypes of preeclampsia
Creators: name: Leavey, Katherine
name: Wilson, Samantha
name: Bainbridge, Shannon
name: Robinson, Wendy
name: Cox, Brian
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Developmental Biology
subject: Cancer
subject: Plant Biology
subject: Computational Biology

description: Figure S2. Distribution of significantly differentially methylated positions in transcriptional cluster 2 (versus transcriptional cluster 1) compared to the full set of possible methylation probes. (PDF 559Â kb)
Fast gradient descent method for convex optimization problems with an oracle that generates a $(δ,L)$-model of a function in a requested point
Creators: name: Tyurin, Alexander
name: Gasnikov, Alexander
Publisher: name: arXiv
Year: 2017
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics

description: In this article we propose a new concept of a $(δ,L)$-model of a function which generalizes the concept of the $(δ,L)$-oracle (Devolder-Glineur-Nesterov). Using this concept we describe the gradient descent method and the fast gradient descent method and we show that many popular methods (composite optimization methods, level methods, conjugate gradient methods, proximal methods) are special cases of proposed methods in this article.
description: in Russian
Relatório Técnico - Índice Mackenzie de Liberdade Econômica Estadual (2020)
Creators: name: Maciel, Vladimir Fernandes
name: De Gamboa, Ulisses Monteiro Ruiz
name: Portillo, Julian Alexienco
Publisher: name: Zenodo
Year: 2020
Subjects: Liberdade Econômica
Gasto do Governo
Tributação
Regulamentação
Mercados de Trabalho Estaduais

description: O Índice Mackenzie de Liberdade Econômica Estadual (IMLEE) é um índice de natureza subnacional que tem como finalidade a comparação de jurisdições estaduais do Brasil a fim de fomentar o debate sobre a liberdade econômica no Brasil por meio de elementos objetivos, assim como estimular a adoção de políticas públicas que ampliem a liberdade econômica e permitam maior crescimento e prosperidade da economia brasileira e de seus cidadãos. Com base na metodologia do Fraser Institute no Economic Freedom of North America1, o IMLEE 2020 apontou melhoria no ambiente de negócios de boa parte dos estados brasileiros, porém o desempenho é bem distinto entre eles. O ano base dos dados utilizados é 2018. O que é o IMLEE? É um indicador sintético que mede em que medida as políticas das UF (estados e municípios) e as suas conjunturas específicas foram, em 2018, capazes de apoiar a liberdade econômica - a capacidade dos indivíduos agirem na esfera econômica sem restrições indevidas. É um índice inédito no Brasil e que ajuda a avaliar as condições de se empreender nos diferentes estados brasileiros e o grau de interferência estatal. O índice varia de zero (menos liberdade) a dez (mais liberdade) e é uma medida relativa de desempenho dos estados e do distrito federal. De acordo com estudo publicado com o IMLEE, as unidades federativas que se encontram no grupo de maior nível de liberdade econômica contam com maior PIB per-capita e menor informalidade no mercado de trabalho2. Resultados em 2020 A nota média do conjunto das unidades federativas do Brasil cresceu para 7,66 ante 7,09 do relatório passado. É um ligeiro aumento e compatível com a pequena melhoria que o país obteve no Economic Freedom of the World 2020 do Fraser Institute - elaborado também com base nos dados de 2018. O Gráfico 1 mostra as notas das unidades federativas em 2020
Tralokinumab in Atopic Dermatitis: A Profile of Its Use
Creators: name: Blair, Hannah A.
Publisher: name: Adis Journals
Year: 2022
Subjects: Medicine

description: Declarations
Funding The preparation of this review was not supported by any external funding.
Authorship and Conflict of interest Hannah Blair is a salaried employee of Adis International Ltd/Springer Nature, and declares no relevant conflicts of interest. All authors contributed to the review and are responsible for the article content.
Ethics approval, Consent to participate, Consent to publish, Availability of data and material, Code availability Not applicable.
Additional information about this Adis Drug Review can be found here.

Abstract
Tralokinumab (tralokinumab-ldrm) [Adbry™ (USA); Adtralza® (EU)], a human IgG4 monoclonal antibody that binds specifically to interleukin (IL)-13, is an effective and generally well tolerated treatment option for adult patients with moderate to severe atopic dermatitis who are candidates for systemic therapy. In pivotal phase III trials, subcutaneous tralokinumab improved the clinical signs and symptoms of atopic dermatitis as well as quality of life (QOL). In ECZTRA 1 and 2, tralokinumab monotherapy was superior to placebo in the first 16 weeks of treatment, with improvements in pruritus and sleep scores seen as early as week 1. Many patients who met the criteria for clinical response at week 16 maintained this response at week 52. Tralokinumab was also more effective than placebo when used in combination with ‘as needed’ topical corticosteroids (TCS) in ECZTRA 3 and 7; most tralokinumab recipients used no or very little amounts of TCS. In an open-label extension trial, tralokinumab provided consistent symptom control over the longer term (up to 2 years). The majority of adverse events with tralokinumab, including injection-site reactions and conjunctivitis, were of mild to moderate severity. The tolerability profile of tralokinumab longer term was consistent with that in the phase III trials.

© Springer Nature Switzerland AG 2022
Collins azimuthal asymmetries of hadron production inside jets
Creators: name: Kang, Zhong-Bo
name: Prokudin, Alexei
name: Ringer, Felix
name: Yuan, Feng
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: We investigate the Collins azimuthal asymmetry of hadrons produced inside jets in transversely polarized proton-proton collisions. Recently, the quark transversity distributions and the Collins fragmentation functions have been extracted within global analyses from data of the processes semi-inclusive deep inelastic scattering and electron-positron annihilation. We calculate the Collins azimuthal asymmetry for charged pions inside jets using these extractions for RHIC kinematics at center-of-mass energies of 200 and 500 GeV. We compare our results with recent data from the STAR Collaboration at RHIC and find good agreement, which confirms the universality of the Collins fragmentation functions. In addition, we further explore the impact of transverse momentum dependent evolution effects.
description: 12 pages, 5 figures, expanded version published in PLB
Learning the structure of the mTOR protein signaling pathway from protein phosphorylation data
Creators: name: Salam, Abdul
name: Grzegorczyk, Marco
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Mathematical Sciences not elsewhere classified

description: Statistical learning of the structures of cellular networks, such as protein signaling pathways, is a topical research field in computational systems biology. To get the most information out of experimental data, it is often required to develop a tailored statistical approach rather than applying one of the off-the-shelf network reconstruction methods. The focus of this paper is on learning the structure of the mTOR protein signaling pathway from immunoblotting protein phosphorylation data. Under two experimental conditions eleven phosphorylation sites of eight key proteins of the mTOR pathway were measured at ten non-equidistant time points. For the statistical analysis we propose a new advanced hierarchically coupled non-homogeneous dynamic Bayesian network (NH-DBN) model, and we consider various data imputation methods for dealing with non-equidistant temporal observations. Because of the absence of a true gold standard network, we propose to use predictive probabilities in combination with a leave-one-out cross validation strategy to objectively cross-compare the accuracies of different NH-DBN models and data imputation methods. Finally, we employ the best combination of model and data imputation method for predicting the structure of the mTOR protein signaling pathway.
Tracing the nonequilibrium topological state of Chern insulators
Creators: name: Schüler, Michael
name: Werner, Philipp
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Chern insulators exhibit fascinating properties which originate from the topologically nontrivial state characterized by the Chern number. How these properties change if the system is quenched between topologically distinct phases has however not been systematically explored. In this work, we investigate the quench dynamics of the prototypical massive Dirac model for topological insu- lators in two dimensions. We consider both dissipation-less dynamics and the effect of electron- phonon interactions, and ask how the transient dynamics and nonequilibrium steady states affect simple observables. Specifically, we discuss a time-dependent generalization of the Hall effect and the dichroism of the photoexcitation probability between left and right circularly polarized light. We present optimized schemes based on these observables, which can reveal the evolution of the topological state of the quenched system.
description: 15 pages, 14 figures