cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Limit fluctuations for density of asymmetric simple exclusion processes with open boundaries
Creators: name: Bryc, Włodzimierz
name: Wang, Yizao
Publisher: name: arXiv
Year: 2017
Subjects: subject: Probability (math.PR)
subject: FOS: Mathematics

description: We investigate the fluctuations of cumulative density of particles in the asymmetric simple exclusion process with respect to the stationary distribution (also known as the steady state), as a stochastic process indexed by $[0,1]$. In three phases of the model and their boundaries within the fan region, we establish a complete picture of the scaling limits of the fluctuations of the density as the number of sites goes to infinity. In the maximal current phase, the limit fluctuation is the sum of two independent processes, a Brownian motion and a Brownian excursion. This extends an earlier result by Derrida et al. (2004) for totally asymmetric simple exclusion process in the same phase. In the low/high density phases, the limit fluctuations are Brownian motion. Most interestingly, at the boundary of the maximal current phase, the limit fluctuation is the sum of two independent processes, a Brownian motion and a Brownian meander (or a time-reversal of the latter, depending on the side of the boundary). Our proofs rely on a representation of the joint generating function of the asymmetric simple exclusion process with respect to the stationary distribution in terms of joint moments of a Markov processes, which is constructed from orthogonality measures of the Askey--Wilson polynomials.
description: 31 pages; minor revision
Discontinuous Skeletal Gradient Discretisation Methods on polytopal meshes
Creators: name: Di Pietro, Daniele A.
name: Droniou, Jérôme
name: Manzini, Gianmarco
Publisher: name: arXiv
Year: 2017
Subjects: subject: Numerical Analysis (math.NA)
subject: FOS: Mathematics
subject: 65N08, 65N30, 65N12

description: In this work we develop arbitrary-order Discontinuous Skeletal Gradient Discretisations (DSGD) on general polytopal meshes. Discontinuous Skeletal refers to the fact that the globally coupled unknowns are broken polynomial on the mesh skeleton. The key ingredient is a high-order gradient reconstruction composed of two terms: (i) a consistent contribution obtained mimicking an integration by parts formula inside each element and (ii) a stabilising term for which sufficient design conditions are provided. An example of stabilisation that satisfies the design conditions is proposed based on a local lifting of high-order residuals on a Raviart-Thomas-Nédélec subspace. We prove that the novel DSGDs satisfy coercivity, consistency, limit-conformity, and compactness requirements that ensure convergence for a variety of elliptic and parabolic problems. Links with Hybrid High-Order, non-conforming Mimetic Finite Difference and non-conforming Virtual Element methods are also studied. Numerical examples complete the exposition.
Classification of non-Riemannian doubled-yet-gauged spacetime
Creators: name: Morand, Kevin
name: Park, Jeong-Hyuck
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Assuming $\mathbf{O}(D,D)$ covariant fields as the `fundamental' variables, Double Field Theory can accommodate novel geometries where a Riemannian metric cannot be defined, even locally. Here we present a complete classification of such non-Riemannian spacetimes in terms of two non-negative integers, $(n,\bar{n})$, $0\leq n+\bar{n}\leq D$. Upon these backgrounds, strings become chiral and anti-chiral over $n$ and $\bar{n}$ directions respectively, while particles and strings are frozen over the $n+\bar{n}$ directions. In particular, we identify $(0,0)$ as Riemannian manifolds, $(1,0)$ as non-relativistic spacetime, $(1,1)$ as Gomis-Ooguri non-relativistic string, $(D{-1},0)$ as ultra-relativistic Carroll geometry, and $(D,0)$ as Siegel's chiral string. Combined with a covariant Kaluza-Klein ansatz which we further spell, $(0,1)$ leads to Newton-Cartan gravity. Alternative to the conventional string compactifications on small manifolds, non-Riemannian spacetime such as $D=10$, $(3,3)$ may open a new scheme of the dimensional reduction from ten to four.
description: 1+41 pages; v2) Refs added; v3) Published version; v4) Sign error in (2.51) corrected
Understanding Cross-modal Interactions in V&L Models that Generate Scene Descriptions
Creators: name: Michele Cafagna
name: Kees van Deemter
name: Albert Gatt
Publisher: name: Association for Computational Linguistics
Year: 2022
Subjects: multimodal grounding
vision and language
image captioning

description: Image captioning models tend to describe images in an object-centric way, emphasising visible objects. But image descriptions can also abstract away from objects and describe the type of scene depicted. In this paper, we explore the potential of a state of the art Vision and Language model, VinVL, to caption images at the scene level using (1) a novel dataset which pairs images with both object-centric and scene descriptions. Through (2) an in-depth analysis of the effect of the fine-tuning, we show (3) that a small amount of curated data suffices to generate scene descriptions without losing the capability to identify object-level concepts in the scene; the model acquires a more holistic view of the image compared to when object-centric descriptions are generated. We discuss the parallels between these results and insights from computational and cognitive science research on scene perception.
Assessing metacognition of voluntary hand movement: a tablet-based paradigm
Creators: name: Verrel, Julius
Publisher: name: Open Science Framework
Year: 2023
Subjects: subject: Cognitive Neuroscience
subject: Neuroscience and Neurobiology
subject: Life Sciences
subject: Experimental Analysis of Behavior
subject: Motor Control
subject: Social and Behavioral Sciences
subject: Psychology
subject: FOS: Psychology
subject: Medicine and Health Sciences
subject: Psychology of Movement
subject: Kinesiology

description: Experimental paradigm assing metacognition of target-directed hand movements on a digitizing tablet.
Additional file 3: of BCN057 induces intestinal stem cell repair and mitigates radiation-induced intestinal injury
Creators: name: Payel Bhanja
name: Norris, Andrew
name: Gupta-Saraf, Pooja
name: Hoover, Andrew
name: Subhrajit Saha
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Table S2. Stem cell marker genes and primer sequences (human). (DOC 29 kb)
DROP: Dimensionality Reduction Optimization for Time Series
Creators: name: Suri, Sahaana
name: Bailis, Peter
Publisher: name: arXiv
Year: 2017
Subjects: subject: Databases (cs.DB)
subject: FOS: Computer and information sciences

description: Dimensionality reduction is a critical step in scaling machine learning pipelines. Principal component analysis (PCA) is a standard tool for dimensionality reduction, but performing PCA over a full dataset can be prohibitively expensive. As a result, theoretical work has studied the effectiveness of iterative, stochastic PCA methods that operate over data samples. However, termination conditions for stochastic PCA either execute for a predetermined number of iterations, or until convergence of the solution, frequently sampling too many or too few datapoints for end-to-end runtime improvements. We show how accounting for downstream analytics operations during DR via PCA allows stochastic methods to efficiently terminate after operating over small (e.g., 1%) subsamples of input data, reducing whole workload runtime. Leveraging this, we propose DROP, a DR optimizer that enables speedups of up to 5x over Singular-Value-Decomposition-based PCA techniques, and exceeds conventional approaches like FFT and PAA by up to 16x in end-to-end workloads.
ClaimChain: Improving the Security and Privacy of In-band Key Distribution for Messaging
Creators: name: Kulynych, Bogdan
name: Lueks, Wouter
name: Isaakidis, Marios
name: Danezis, George
name: Troncoso, Carmela
Publisher: name: arXiv
Year: 2017
Subjects: subject: Cryptography and Security (cs.CR)
subject: FOS: Computer and information sciences

description: The social demand for email end-to-end encryption is barely supported by mainstream service providers. Autocrypt is a new community-driven open specification for e-mail encryption that attempts to respond to this demand. In Autocrypt the encryption keys are attached directly to messages, and thus the encryption can be implemented by email clients without any collaboration of the providers. The decentralized nature of this in-band key distribution, however, makes it prone to man-in-the-middle attacks and can leak the social graph of users. To address this problem we introduce ClaimChain, a cryptographic construction for privacy-preserving authentication of public keys. Users store claims about their identities and keys, as well as their beliefs about others, in ClaimChains. These chains form authenticated decentralized repositories that enable users to prove the authenticity of both their keys and the keys of their contacts. ClaimChains are encrypted, and therefore protect the stored information, such as keys and contact identities, from prying eyes. At the same time, ClaimChain implements mechanisms to provide strong non-equivocation properties, discouraging malicious actors from distributing conflicting or inauthentic claims. We implemented ClaimChain and we show that it offers reasonable performance, low overhead, and authenticity guarantees.
description: Appears in 2018 Workshop on Privacy in the Electronic Society (WPES'18)
High resolution UPLC-MS/MS method for simultaneous separation and determination of six flavonoids from semen cuscutae extract in rat plasma: application to comparative pharmacokinetic studies in normal and kidney-deficient rats
Creators: name: Zhang, Wei
name: Fu, Zhi-Tian
name: Xie, Yao
name: Duan, Zhi-Wen
name: Wang, Yu
name: Fan, Rong-Hua
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: Mathematical Sciences not elsewhere classified
subject: Marine Biology

description: Semen Cuscutae, which mainly consisted of flavonoids, is a traditional Chinese herbal medicine and used for nourishing the liver and kidneys. The aim of this study was to develop a sensitive and selective UPLC-MS/MS method for simultaneous separation and determination of six main active renoprotective components of Hyperoside, Astragalin, Isoquercitrin, Quercitrin, Quercetin, and Kaempferol from Semen Cuscutae in rat plasma, and to reveal the pharmacokinetic differences between normal and kidney deficient rats. The validated method has been successfully applied to comparing pharmacokinetic profiles of the six analytes in rat plasma. The results indicated that there was significant difference in pharmacokinetic parameters of the six analytes between two groups, while absorptions in kidney deficient group were significantly lower than those in normal group. This study would be helpful for evaluating the Semen Cuscutae as renoprotective drug candidates for pre-clinical and clinical research.
Observation of a phononic quadrupole topological insulator
Creators: name: Serra-Garcia, Marc
name: Peri, Valerio
name: Süsstrunk, Roman
name: Bilal, Osama R.
name: Larsen, Tom
name: Villanueva, Luis Guillermo
name: Huber, Sebastian D.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The modern theory of charge polarization in solids is based on a generalization of Berry's phase. Its possible quantization lies at the heart of our understanding of all systems with topological band structures that were discovered over the last decades. While based on the concept of the "charge" polarization, the same theory can be used as an elegant tool to characterize the Bloch bands of neutral bosonic systems such as photonic or phononic crystals. Recently, the theory of this quantized polarization was extended from the dipole- to higher multipole-moments. In particular, a two-dimensional quantized quadrupole insulator is predicted to have gapped yet topological one-dimensional edge-modes, which in turn stabilize zero-dimensional in-gap corner states. However, such a state of matter has not been observed experimentally. Here, we provide the first measurements of a phononic quadrupole insulator. We experimentally characterize the bulk, edge, and corner physics of a mechanical metamaterial and find the predicted gapped edge and in-gap corner states. We further corroborate our findings by comparing the mechanical properties of a topologically non-trivial system to samples in other phases predicted by the quadrupole theory. From an application point of view, these topological corner states are an important stepping stone on the way to topologically protected wave-guides in higher dimensions and thereby open a new design path for metamaterials.
description: Submitted to journal on July 15, 2017
Jet-associated resonance spectroscopy
Creators: name: Englert, Christoph
name: Ferretti, Gabriele
name: Spannowsky, Michael
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 present a model-independent study aimed at characterizing the nature of possible resonances in the jet-photon or jet-$Z$ final state at hadron colliders. Such resonances are expected in many models of compositeness and would be a clear indication of new physics. At leading order, in the narrow width approximation, the matrix elements are parameterized by just a few constants describing the coupling of the various helicities to the resonance. We present the full structure of such amplitudes up to spin two and use them to simulate relevant kinematic distributions that could serve to constrain the coupling structure. This also generalizes the signal generation strategy that is currently pursued by ATLAS and CMS to the most general case in the considered channels. While the determination of the P/CP properties of the interaction seems to be out of reach within this framework, there is a wealth of information to be gained about the spin of the resonance and the relative couplings of the helicities.
description: 20 pages, 8 figures, v2: journal version
Uniform energy bound and Morawetz estimate for extreme components of spin fields in the exterior of a slowly rotating Kerr black hole II: linearized gravity
Creators: name: Ma, Siyuan
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Mathematical Physics (math-ph)
subject: Analysis of PDEs (math.AP)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 83C57

description: This second part of the series treats spin $\pm2$ components (or extreme components), that satisfy the Teukolsky master equation, of the linearized gravity in the exterior of a slowly rotating Kerr black hole. For each of these two components, after performing a first-order differential operator once and twice, the resulting equations together with the Teukolsky master equation itself constitute a linear spin-weighted wave system. An energy and Morawetz estimate for spin $\pm 2$ components is proved by treating this system. This is a first step in a joint work (Andersson et al. in Stability for linearized gravity on the Kerr spacetime, arXiv:1903.03859, 2019) in addressing the linear stability of slowly rotating Kerr metrics.
description: published version
Additional file 10: Figure S6. of Individual and household attributes influence the dynamics of the personal skin microbiota and its association network
Creators: name: Leung, Marcus
name: Xinzhao Tong
name: Wilkins, David
name: Cheung, Hedwig
name: Lee, Patrick
Publisher: name: figshare
Year: 2018
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Density plots of pairwise weighted UniFrac distances between samples of the same (red) and different (blue) seasons. Density plots faceted according to each individual. Only within-individual pairwise comparisons were included in analysis. (PDF 3915Â kb)
A Polynomial-Time Algorithm for Solving the Minimal Observability Problem in Conjunctive Boolean Networks
Creators: name: Weiss, Eyal
name: Margaliot, Michael
Publisher: name: arXiv
Year: 2017
Subjects: subject: Optimization and Control (math.OC)
subject: Systems and Control (eess.SY)
subject: Dynamical Systems (math.DS)
subject: Quantitative Methods (q-bio.QM)
subject: FOS: Mathematics
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Biological sciences

description: Many complex systems in biology, physics, and engineering include a large number of state-variables, and measuring the full state of the system is often impossible. Typically, a set of sensors is used to measure part of the state-variables. A system is called observable if these measurements allow to reconstruct the entire state of the system. When the system is not observable, an important and practical problem is how to add a \emph{minimal} number of sensors so that the system becomes observable. This minimal observability problem is practically useful and theoretically interesting, as it pinpoints the most informative nodes in the system. We consider the minimal observability problem for an important special class of Boolean networks, called conjunctive Boolean networks (CBNs). Using a graph-theoretic approach, we provide a necessary and sufficient condition for observability of a CBN with $n$ state-variables, and an efficient~$O(n^2)$-time algorithm for solving the minimal observability problem. We demonstrate the usefulness of these results by studying the properties of a class of random CBNs.
description: Revised version. Date: Dec 6, 2017
Additional file 3: Table S2. of Evaluation of the psychometric properties of self-reported measures of alcohol consumption: a COSMIN systematic review
Creators: name: McKenna, Hannah
name: Treanor, Charlene
name: O’Reilly, Dermot
name: Donnelly, Michael
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Psychometric properties of included studies grouped into results reported by study authors and COSMIN quality ratings assigned by review authors (n = 28). (DOCX 41 kb)
Synthesis, Electronic Structure, UV–Vis, Wave Function, and Molecular Docking Studies of Schiff Base (Z)-N-(Thiazol-2-yl)-4-((Thiophene-2-ylmethylene)Amino)Benzenesulfonamide
Creators: name: Kanagavalli, A.
name: Thilagavathi, G.
name: Jayachitra, R.
name: Elangovan, N.
name: Sowrirajan, S.
name: Murthy, K. R. Shadakshara
name: Thomas, Renjith
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified

description: The (Z)-N-(thiazol-2-yl)-4-((thiophene-2-ylmethylene)amino)benzenesulfonamide (TH2TH) were synthesized. The geometry was optimized by density functional theory (DFT) method. The titled compound week interaction and main binding areas confirmed by topological analysis. The simulated UV–Vis spectrum was calculated by TD-DFT method using IEFPCM solvation model. The HOMO-LUMO, molecular electrostatic potential, and nonlinear optical properties were carried out in the DFT method using gas phase. The pharmacological properties and toxicity were carried out using Swiss-ADME online tools, this result shows titled compound good drug-likeness properties. The molecular docking done using autodock software, against 5LOF protein.
title: ADCO, Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Cart. 143 (7 H 7), 153 fol, f. 0153v
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2009
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Archives départementales de la Côte-d'Or, Cart. 143 (7 H 7), 153 fol, f. 0153v, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Archives départementales de la Côte-d'Or, Cart. 143 (7 H 7), 153 fol, f. 0153v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb137389344
description: Provenance: abbaye de Molesme
description: Provenance: http://www.wikidata.org/entity/Q334044
Wavevector-dependent optical properties from wavevector-independent proper conductivity tensor
Creators: name: Starke, Ronald
name: Schober, Giulio A. H.
name: Wirnata, René
name: Kortus, Jens
Publisher: name: arXiv
Year: 2017
Subjects: subject: Optics (physics.optics)
subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: We discuss the calculation of the refractive index by means of the ab initio scalar dielectric function and point out its inherent limitations. To overcome these, we start from the recently proposed fundamental, microscopic wave equation in materials in terms of the frequency- and wavevector-dependent dielectric tensor, and investigate under which conditions the standard treatment can be justified. Thereby, we address the question of neglecting the wavelength dependence of microscopic response functions. Furthermore, we analyze in how far the fundamental, microscopic wave equation is equivalent to the standard wave equation used in theoretical optics. In particular, we clarify the relation of the "effective" dielectric tensor used there to the microscopic dielectric tensor defined in ab initio physics.
description: consistent with published version in Eur. Phys. J. B (2020)
Additional information about the treatment group and the controls from The importance of population heterogeneities in detecting social learning as the foundation of animal cultural transmission
Creators: name: Nöbel, Sabine
name: Wang, Xiaobo
name: Talvard, Laurine
name: Tariel, Juliette
name: Lille, Maëva
name: Cucherousset, Julien
name: Roussigné, Myriam
name: Danchin, Etienne
Publisher: name: The Royal Society
Year: 2022

description: High levels of within-population behavioural variation can have drastic demographic consequences, thus changing the evolutionary fate of populations. A major source of within-population heterogeneity is personality. Nonetheless, it is still relatively rarely accounted for in social learning studies that constitute the most basic process of cultural transmission. Here, we perform in female mosquitofish (Gambusia holbrooki), a social learning experiment in the context of mate choice, a situation called mate copying (MC), and for which there is strong evidence that it can lead to the emergence of persistent traditions of preferring a given male phenotype. When accounting for the global tendency of females to prefer larger males but ignoring differences in personality, we detected no evidence for MC. However, when accounting for the bold-shy dichotomy, we found that bold females did not show any evidence for MC, while shy females showed significant amounts of MC. This illustrates how the presence of variation in personality can hamper our capacity to detect MC. We conclude that MC may be more widespread than we thought because many studies ignored the presence of within-population heterogeneities.
title: ADCO, Premier cartulaire de l'abbaye de Molesmes (XIIe siècle), Cart. 142 (7 H 6), 128 pages, f. 0022v
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2009
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: cartulaire
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge

description: Premier cartulaire de l'abbaye de Molesmes (XIIe siècle), Archives départementales de la Côte-d'Or, Cart. 142 (7 H 6), 128 pages, f. 0022v, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Premier cartulaire de l'abbaye de Molesmes (XIIe siècle), Archives départementales de la Côte-d'Or, Cart. 142 (7 H 6), 128 pages, f. 0022v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb137389344
description: Provenance: abbaye de Molesme
description: Provenance: http://www.wikidata.org/entity/Q334044
MOESM3 of Combining laser-assisted microdissection (LAM) and RNA-seq allows to perform a comprehensive transcriptomic analysis of epidermal cells of Arabidopsis embryo
Creators: name: Sakai, Kaori
name: Taconnat, Ludivine
name: Nero Borrega
name: Yansouni, Jennifer
name: VĂŠronique Brunaud
name: Roux, Christine Paysant-Le
name: Delannoy, Etienne
name: Marie-Laure Martin Magniette
name: LoĂŻc Lepiniec
name: Faure, Jean
name: Balzergue, Sandrine
name: Dubreucq, Bertrand
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plant Biology

description: Additional file 3: Fig. S3. Principal Components Analysis (PCA) on normalized counts of the comparison between Epidermis vs Mesophyll tissues. First and second components are shown, along the percentage of the variance explained.
ReproHack 15/03/2022 by TKFDM, ORDS and Microverse with Jupyter Notebook and RStudio
Creators: name: Lang, Kevin
name: Gerlach, Roman
name: Rex, Jessica
Publisher: name: Zenodo
Year: 2022
Subjects: reprohack
tkfdm
ords
microverse cluster

description: In cooperation with the Open Reproducible Data Science and Statistics group (ORDS) at the University of Rostock, TKFDM organized its 2nd ReproHack on March 15, 2022. This time, the Microverse Cluster at FSU Jena joined in for support. In our ReproHack, we briefly discussed the importance of the topic "reproducibility of data" and then introduced the platform Jupyter Notebook. In the actual hackathon, breakout sessions were formed depending on the programming language and selected paper. Finally, the results and experiences were shared with the group. In this repositorium you find the presentation slides of the event and the pad, which was used during the event. It contains some meta information, prepared virtual rooms and work spaces and the insights of the evaluated papers. Participants were anonymized and outdated links removed or replaced. You can reuse the pad (e.g. with the "20220315_reprohack_markdown.md" file) in your Markdown-Editor as a template for your own ReproHack event or simply open the "20220315_reprohack_html.html" file if you are interested in the comments and experiences collected during the event.
Exploring Potential Signatures of QGP in UHECR Ground Profiles
Creators: name: LaHurd, Danielle
name: Covault, Corbin E.
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: In this work we explore the possibility that the formation of Quark Gluon Plasma (QGP) during the first interactions of Ultra High Energy Cosmic Rays (UHECRs) may result in observable signatures in ground profile and shower particle composition that could conceivably be detectable by an air shower array experiment such as the Pierre Auger Observatory. Knowledge of whether QGP formation affects the properties of UHECR development will further the understanding of both UHECR behavior and high energy hadronic interaction behavior. We find that for the vast majority of showers signals of QGP do not manifest themselves in ways that are observable, but on rare occasion, such as within deeply penetrating showers, observable signals can be seen. Results show potential for QGP detection at 100 PeV initial energy at an initial interaction event height of 12 km through a $μ^{\pm}$ excess at 10 GeV between 100 - 300 m from the shower core favoring QGP forming events. In contrast, higher initial interaction heights of 24 and 36 km at 100 PeV initial energy show no significant potential for QGP detection. Unfortunately at present, the 12 km observable signals cannot be seen with current detectors, such as the Pierre Auger Observatory[1]; however, there may be potential for detection in future experiments.
description: 16 pages, 8 figures, 1 table; to be submitted to JCAP
Synthesis of Highly Functionalized Imidazopyridine: A Simple One-Pot Three-Component Synthesis of 6-Hydroxy-5 -(3-Phenylimidazo[1,2-a]Pyridin-2-yl)-2-Thioxo-2, 3-Dihydropyrimidin-4(1H)-Ones
Creators: name: Asadi, Sara
name: Zebarjad, Maedeh
name: Mehrabi, Hossein
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Statistics
subject: FOS: Mathematics
subject: Mental Health

description: In this research, synthesis of different imidazopyridine derivatives was performed using aryl glyoxals, thiobarbituric acid, and 2-aminopyridine in the presence of acetic acid in ethanol at 80 °C. Different aryl glyoxals can be used in this method. Finally, the desired products were separated by simple filtration in excellent yields. The salient features of this protocol are a simple operation, mild reaction conditions, simple work up, easy product isolation, and preparation of potentially bioactive compounds.
Additional file 1: of Incidence, aetiology and outcomes of obstetric-related acute kidney injury in Malawi: a prospective observational study
Creators: name: Cooke, William
name: HemmilĂ¤, Ulla
name: Craik, Alison
name: Chimwemwe Mandula
name: Mvula, Priscilla
name: Ausbert Msusa
name: Dreyer, Gavin
name: Evans, Rhys
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Marine Biology

description: Definitions â Acute Kidney Injury, Acute Kidney Disorder, Chronic Kidney Disease, No Kidney Disease. Definitions from Kidney Disease: Improving Global Outcomes (KDIGO) criteria [15]. (DOCX 77Â kb)
Stability of Effective Thin-shell Wormholes Under Lorentz Symmetry Breaking Supported by Dark Matter and Dark Energy
Creators: name: Övgün, Ali
name: Jusufi, Kimet
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: In this paper, we construct generic, spherically symmetric thin-shell wormholes and check their stabilities using the unified dark sector, including dark energy and dark matter. We give a master equation, from which one can recover, as a special case, other stability solutions for generic spherically symmetric thin-shell wormholes. In this context, we consider a particular solution; namely we construct an effective thin-shell wormhole under Lorentz symmetry breaking. We explore stability analyses using different models of the modified Chaplygin gas with constraints from cosmological observations such as seventh-year full Wilkinson microwave anisotropy probe data points, type Ia supernovae, and baryon acoustic oscillation. In all these models we find stable solutions by choosing suitable values for the parameters of the Lorentz symmetry breaking effect.
description: 13 pages, 9 figures, accepted for publication in Eur. Phys. J. Plus
Additional file 2: Table S1. of Evaluation of the psychometric properties of self-reported measures of alcohol consumption: a COSMIN systematic review
Creators: name: McKenna, Hannah
name: Treanor, Charlene
name: O’Reilly, Dermot
name: Donnelly, Michael
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Science Policy

description: Characteristics of included studies. A full description of the characteristics of each study which met the review inclusion criteria (n = 28). (DOCX 25 kb)
MOESM1 of Changes in lipid metabolism convey acid tolerance in Saccharomyces cerevisiae
Creators: name: Guo, Zhong-peng
name: Khoomrung, Sakda
name: Nielsen, Jens
name: Olsson, Lisbeth
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Hematology

description: Additional file 1: Fig S1. Comparison of the ethanol and biomass production, and glucose consumption of the yeast strain during aerobic culture without acid (a), and with the addition of 180 mM acetic acid (b), 180 mM formic acid (c), 260 mM levulinic acid (d) and 0.7 mM cinnamic acid (e), at pH 5.0. The first dashed line on the left shows the time at which the acid was pulsed into the culture. Typically, growth phases are defined as: phase 0 (P0), the exponential growth phase before acid addition; phase 1 (P1), the adaptation phase on glucose after acid addition; phase 2 (P2), the exponential growth phase on glucose; phase 3 (P3), the adaptation phase on ethanol; phase 4 (P4), the exponential growth phase on ethanol; and phase 5 (P5), the stationary phase, as has been indicated (b). Fig S2. Viable fractions of the S. cerevisiae control strain and recombinant strains CEN-RO1 (PTEF-OLE1-reverse) and CEN-O1 (PTEF-OLE1), under stress resulting from (a) 150 mM acetic acid, (b) 150 mM formic acid, (c) 200 mM levulinic acid and (d) 0.8 mM cinnamic acid, at pH 5.0. Fig S3. Expression levels of the key genes in lipid metabolism of S. cerevisiae CEN.PK 113-7D in aerobic cultures before (CT, control condition, exponential growth phase) and after the addition of 180 mM acetic acid (AC), 180 mM formic acid (FA), 260 mM levulinic acid (LA) and 0.7 mM cinnamic acid (CA), at pH5.0 (samples were taken 1 h after the addition of the acid). The qPCR results were normalized to TAF10 and compared with the expression level of each target gene under non-stressed condition. Fig S4. Intracellular oxidation level of S. cerevisiae CEN.PK 113-7D in aerobic cultures without acid and with the addition of 180 mM acetic acid, 180 mM formic acid, 260 mM levulinic acid and 0.7 mM cinnamic acid, at pH5.0. (a) Adaptation phase on glucose, (b) glucose growth phase, (c) adaptation phase on ethanol, (d) ethanol growth phase and (e) stationary phase. Table S1. Lipid classes in S. cerevisiae
Ionic Liquid Catalyzed One-Pot Synthesis of 5-(4-Substituted-Phenyl)-1,3,4-Thiadiazole-2-Amines
Creators: name: Pahade, Nayana
name: Wagare, Devendra
name: Shinde, D. W.
name: Lingampalle, Dinesh
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified

description: A highly efficient ionic liquid catalyzed protocol has been investigated for the synthesis of 5-(4-substituted-phenyl)-1,3,4-thiadiazole-2-amine derivatives from the cyclocondensation of diversely substituted aromatic carboxylic acid and thiosemicarbazide by using recyclable N-methylpyridiniumtosylate as an ionic liquid. Highly efficient, inexpensive, solvent and metal free, high step and atom efficiency and excellent yield (95%–98%) are remarkable features of present protocol.
Synthesis, Spectroscopic, Quantum Chemical, and Molecular Docking Studies of 2-Cyano-N-Cyclopropylacetamide and 2-Cyano-N-(1-Phenylethyl)Acetamide
Creators: name: Khanum, Ghazala
name: Fatima, Aysha
name: Rather, Rafiq Ahmad
name: Siddiqui, Nazia
name: Muthu, Sambanthan
name: Srivastava, Sanjay Kumar
name: Javed, Saleem
Publisher: name: Taylor & Francis
Year: 2022
Subjects: Biophysics
Biochemistry
Physical Sciences not elsewhere classified
Cell Biology
Pharmacology
Biotechnology
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Cancer
Computational Biology

description: 2-Cyano-N-cyclopropylacetamide (2CCPA) and 2-cyano-N-(1-phenylethyl) acetamide (2CPEA) compounds were synthesized and characterized by FT-IR, FT-Raman, UV-Vis, 1H NMR, and 13C NMR spectrum analyses. Density functional theory (DFT) B3LYP and HF techniques with 6-31++G(d,p) and 6-311++G(d,p) basis sets were used to determine the optimal molecular geometry, vibrational wavenumbers, infrared intensities, and Raman scattering activities. To get better results for the computed data, the vibrational wavenumbers are additionally adjusted with a scaling factor. 2CCPA and 2CPEA were investigated for their MEP, NBO analysis, NLO behavior, and thermodynamic characteristics. To determine the chemically active locations, the MEP and ELF have been illustrated. Fukui functions have shown the electrophilic and nucleophilic areas. The (GIAO) technique was used to compute the molecule 1H and 13C Nuclear Magnetic Resonance (NMR) chemical shifts. UV-Vis and HOMO-LUMO studies, which characterize charge transfer between atoms in a molecule, have been used to elucidate the electronic characteristics of 2CCPA and 2CPEA molecules. The minimal binding energy was obtained using 2D and 3D molecular docking calculations on 2CCPA and 2CPEA to examine hydrogen bond interactions. Molecular docking methods were employed with 2CCPA and 2CPEA molecules with the different protein receptors (1H23, 1QXK, 1ZXM, 3PTA, 4JS9, 2C5Y, ABW, 3RDE, 6GU7, and 6J7A) t and -o find the best of two molecules for drug identification and binding energy was found to be −5.8 and −7.5 kcal/mol. A molecular dynamics simulation was used to explore biomolecular stability.
title: ADCO, Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Cart. 29 (G 134), 996 folios, f. 0759
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2012
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Chartes de la Bourgogne du Moyen Âge
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: cartulaire
subject: Corpus Burgundiae Medii Aevi

description: Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Archives départementales de la Côte-d'Or, Cart. 29 (G 134), 996 folios, f. 0759, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Archives départementales de la Côte-d'Or, Cart. 29 (G 134), 996 folios, f. 0759, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: abbaye Saint-Étienne de Dijon
description: Provenance: http://www.wikidata.org/entity/Q15945019
The non-orientable 4-genus for knots with 8 or 9 crossings
Creators: name: Jabuka, Stanislav
name: Kelly, Tynan
Publisher: name: arXiv
Year: 2017
Subjects: subject: Geometric Topology (math.GT)
subject: FOS: Mathematics
subject: 57M25, 57M27

description: The non-orientable 4-genus of a knot in the 3-sphere is defined as the smallest first Betti number of any non-orientable surface smoothly and properly embedded in the 4-ball, with boundary the given knot. We compute the non-orientable 4-genus for all knots with crossing number 8 or 9. As applications we prove a conjecture of Murakami's and Yasuhara's, and give a new lower bound for the slicing number of knot.
description: Fixed two values of $\gamma_4$ arising from a typographical error. Updated references. Added Journal Ref
Quantum Monte Carlo calculations of light nuclei with local chiral two- and three-nucleon interactions
Creators: name: Lynn, J. E.
name: Tews, I.
name: Carlson, J.
name: Gandolfi, S.
name: Gezerlis, A.
name: Schmidt, K. E.
name: Schwenk, A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Nuclear Theory (nucl-th)
subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: Local chiral effective field theory interactions have recently been developed and used in the context of quantum Monte Carlo few- and many-body methods for nuclear physics. In this work, we go over detailed features of local chiral nucleon-nucleon interactions and examine their effect on properties of the deuteron, paying special attention to the perturbativeness of the expansion. We then turn to three-nucleon interactions, focusing on operator ambiguities and their interplay with regulator effects. We then discuss the nuclear Green's function Monte Carlo method, going over both wave-function correlations and approximations for the two- and three-body propagators. Following this, we present a range of results on light nuclei: Binding energies and distribution functions are contrasted and compared, starting from several different microscopic interactions.
description: 21 pages, 14 figures, published version, Editor's Suggestion
Occurrence and human health risks of twenty-eight common antibiotics in wild freshwater products from the Xiangjiang River and comparison with the farmed samples from local markets
Creators: name: Chen, Leilei
name: Li, Haipu
name: Liu, Yang
name: Li, Yue
name: Yang, Zhaoguang
Publisher: name: Taylor & Francis
Year: 2020
Subjects: subject: Neuroscience
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: The occurrence of 28 common antibiotics in wild and farmed aquatic products from different species was comprehensively investigated in the present study. The results showed that a larger number of antibiotics could be detected quantitatively in wild samples, while the farmed samples had higher concentrations. Twenty, 17, and 14 target compounds were found in the muscles of wild molluscs, wild fish and farmed fish with total concentrations of 2.02–16.4 ng g–1, 0.51–11.9 ng g–1, and –1, respectively. Quinolones could be frequently detected in all investigated samples with higher concentrations, while sulphonamides were only detected more frequently in wild molluscs. For wild samples, sulfamethoxazole, sulphamethazine, clarithromycin, and ciprofloxacin are the main antibiotics that were detected in molluscs and fish with different residues. However, there was almost no significant residue difference among different wild fish. Compared with other studies in China or overseas, antibiotic residues in the investigated fish were almost always at a relative low level. Monte Carlo simulation showed that the farmed fish posed higher health risks than the wild fish, while the proportion of the consumers with chronic toxic risk (HI) of farmed fish higher than 0.05 (a distinct risk) was only 1.15 %.
Highly Efficient Microwave-Assisted Synthesis of 2-Arylimidazo[1,2-a]Pyridine-3-Carbaldehydes in PEG-400
Creators: name: Atif, Hani Yeslam Saeed
name: Mohsin, Mohammad
name: Durrani, Ayesha N.
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: We have designed a simple and efficient method for the synthesis of 2-Arylimidazo[1,2-a]pyridine-3-carbaldehyde from imidazo[1,2-a]pyridines with a mixture of DMF and POCl3 in presence of PEG-400 as a green reaction medium under microwave irradiation at 400 watt, and 90 0C. The main advantages of this protocol compared to other previously developed methods, were its mild reaction condition, high yield percentage, short reaction time, clean reaction profile, and avoidance of toxic catalysts, hazardous organic solvents, and waste production.
MOESM2 of Combining laser-assisted microdissection (LAM) and RNA-seq allows to perform a comprehensive transcriptomic analysis of epidermal cells of Arabidopsis embryo
Creators: name: Sakai, Kaori
name: Taconnat, Ludivine
name: Nero Borrega
name: Yansouni, Jennifer
name: Brunaud, Véronique
name: Roux, Christine Paysant-Le
name: Delannoy, Etienne
name: Marie-Laure Martin Magniette
name: Lepiniec, Loïc
name: Faure, Jean
name: Balzergue, Sandrine
name: Dubreucq, Bertrand
Publisher: name: figshare
Year: 2018
Subjects: subject: Biophysics
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Plant Biology

description: Additional file 2: Fig. S2. Sample clustering based on normalized counts of the 6 samples of the pilot experiment (RNA quantity from 5 ng to 10 pg) after a transformation of the counted reads data as moderated log-counts-per-million. A Euclidean distance is computed between samples, and the dendrogram is built upon the Ward criterion.