cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
An in-silico approach to drug design and development of Trelagliptin and its analogues against DPP-4 for treatment of T2DM
Creators: name: Bhuia, Md. Shimul
Publisher: name: figshare
Year: 2023
Subjects: classificationCode: 310201
subject: Bioinformatic methods development

description: Diabetes mellitus is now considered as an arising endemic. Majority of diabetic patients have type 2 diabetes (T2DM). Diabetic patients may require to modify their lifestyles and hold to their everyday medications which may cause non-compliance. Trelagliptin (TG) is a long-acting dipeptidyl peptidase-4 (DPP-4) inhibitor that is administered once a week. In this study, we have designed certain new chemical entities from trelagliptin and analyzed them through in silico methods. Canonical SMILES of Trelagliptin was collected from the PubChem database, and the target proteins (4J3J, 5T4E, 5T4F, 5T4H and 5Y7K) were predicted by SwissTargetPrediction; a web tool by the Swiss Institute of Bioinformatics. The structure of TG was altered with C4H8NF, C4H8NCL, C4H8NCF3, C4H8NCH3, and C4H8NCH2F. AutoDockVina in PyRx-Python Prescription 0.8 was utilized for molecular docking of TG and its designed derivatives against the target proteins. The TG-C4H8NCL altered TG revealed the highest binding affinity value-9.0 kcal/mol against 5T4F protein, and the parent drug TG revealed binding affinity value-7.3 kcal/mol against the respective protein. Toxicity and pharmacokinetic data were predicted and analyzed by preADMET, admetSAR@LMMD-2.0 web tools and MedChem Designer 5.5.0.11. Density functional theory (DFT) analysis was applied by Gaussian 05 to predict the reactivity of ligands. According to our findings in this study, we claim that, TG containing modified pyrrole ring with chlorine will be a better DPP-4 inhibitor for the treatment of type 2 diabetes.
Images of adelic Galois representations for modular forms
Creators: name: Loeffler, David
Publisher: name: arXiv
Year: 2014
Subjects: subject: Number Theory (math.NT)
subject: FOS: Mathematics
subject: 11F80, 11R56

description: We show that the image of the adelic Galois representation attached to a non-CM modular form is open in the adelic points of a suitable algebraic group. We also show a similar result for the adelic Galois representation attached to a finite set of modular forms.
description: Updated version, to appear in Glasgow J Math
On the Emergent Dynamics of Fermions in Curved Spacetime
Creators: name: Palumbo, Giandomenico
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Relativistic spin-1/2 particles in curved spacetime are naturally described by Dirac theory, which is a dynamical and Lorentz-invariant field theory. In this work, we propose a non-dynamical fermion theory in 3+1 dimensions dubbed spinor topological field theory, built in terms of a spinor field and a Cartan connection related to de Sitter group. We show that our model gives rise to the Dirac theory in curved spacetime when the local de Sitter gauge invariance of the model breaks down to the Lorentz gauge invariance, providing also a geometric origin to the fermion mass. Finally, we show that other gauge fields and suitable four-fermion interactions can be included in a straightforward way.
description: 3 pages, published version
Contemporary Clinical and Molecular Epidemiology of Vancomycin-Resistant Enterococcal Bacteremia: A Prospective Multicenter Cohort Study (VENOUS I)
Creators: name: Zervos M.
name: Misikir H.M.
name: Sanchez-Petitto G.
name: Tran T.T.
name: Shimose L.
name: Dinh A.Q.
name: Luterbach C.
name: Barberis F.
name: Reyes K.
name: Diaz L.
name: Van Duin D.
name: Abbo L.M.
name: Doi Y.
name: Shelburne S.A.
name: Gudiol C.
name: Aitken S.L.
name: Hanson B.M.
name: Liu C.
name: Simar S.
name: Contreras G.A.
name: Munita J.M.
name: Arias C.A.
name: Sahasrabhojane P.V.
name: Rios R.
name: Rydell K.
name: Pedroza C.
name: Seifert H.
Publisher: name: Oxford University Press
Year: 2022

description: Background: Vancomycin-resistant enterococci (VRE) are major therapeutic challenges. Prospective contemporary data characterizing the clinical and molecular epidemiology of VRE bloodstream infections (BSIs) are lacking. Methods: The Vancomycin-Resistant Enterococcal BSI Outcomes Study (VENOUS I) is a prospective observational cohort of adult patients with enterococcal BSI in 11 US hospitals. We included patients with Enterococcus faecalis or Enterococcus faecium BSI with ≥1 follow-up blood culture(s) within 7 days and availability of isolate(s) for further characterization. The primary study outcome was in-hospital mortality. Secondary outcomes were mortality at days 4, 7, 10, 12, and 15 after index blood culture. A desirability of outcome ranking was constructed to assess the association of vancomycin resistance with outcomes. All index isolates were subjected to whole genome sequencing. Results: Forty-two of 232 (18%) patients died in hospital and 39 (17%) exhibited microbiological failure (lack of clearance in the first 4 days). Neutropenia (hazard ratio [HR], 3.13), microbiological failure (HR, 2.4), VRE BSI (HR, 2.13), use of urinary catheter (HR, 1.85), and Pitt BSI score ≥2 (HR, 1.83) were significant predictors of in-hospital mortality. Microbiological failure was the strongest predictor of in-hospital mortality in patients with E faecium bacteremia (HR, 5.03). The impact of vancomycin resistance on mortality in our cohort changed throughout the course of hospitalization. Enterococcus faecalis sequence type 6 was a predominant multidrug-resistant lineage, whereas a heterogeneous genomic population of E faecium was identified. Conclusions: Failure of early eradication of VRE from the bloodstream is a major factor associated with poor outcomes.
Cusp forms for exceptional group of type $E_{7}$
Creators: name: Kim, Henry H.
name: Yamauchi, Takuya
Publisher: name: arXiv
Year: 2014
Subjects: subject: Number Theory (math.NT)
subject: FOS: Mathematics

description: Let $\bf{G}$ be the connected reductive group of type $E_{7,3}$ over $\mathbb{Q}$ and $\mathfrak{T}$ be the corresponding symmetric domain in $\mathbb{C}^{27}$. Let $Γ=\bf{G}(\mathbb{Z})$ be the arithmetic subgroup defined by Baily. In this paper, for any positive integer $k\ge 10$, we will construct a (non-zero) holomorphic cusp form on $\mathfrak{T}$ of weight $2k$ with respect to $Γ$ from a Hecke cusp form in $S_{2k-8}(SL_2(\mathbb{Z}))$. This lift is an analogue of Ikeda's construction.
description: 41 pages, to appear in compositio math
Homological epimorphisms, recollements and Hochschild cohomology - with a conjecture by Snashall-Solberg in view
Creators: name: Hermann, Reiner
Publisher: name: arXiv
Year: 2014
Subjects: subject: Rings and Algebras (math.RA)
subject: K-Theory and Homology (math.KT)
subject: Representation Theory (math.RT)
subject: FOS: Mathematics
subject: 16E40 (Primary) 14F35, 16T05, 18D10, 18E10, 18G15 (Secondary)

description: We show that recollements of module categories give rise to homomorphisms between the associated Hochschild cohomology algebras which preserve the strict Gerstenhaber structure, i.e., the cup product, the graded Lie bracket and the squaring map. We review various long exact sequences in Hochschild cohomology and apply our results in order to realise that the occurring maps preserve the strict Gerstenhaber structure as well. As a byproduct, we generalise a known long exact cohomology sequence of Koenig-Nagase to arbitrary surjective homological epimorphisms. We use our observations to motivate and formulate a variation of the finite generation conjecture by Snashall-Solberg.
description: 47 pages. Final version, to appear in "Advances in Mathematics". Rearranged and fixed Section 9, made minor changes and insertions throughout in accordance with the suggestions of the referees
Additional file 2: of Associations between prevalent multimorbidity combinations and prospective disability and self-rated health among older adults in Europe
Creators: name: Sheridan, Paige
name: Mair, Christine
name: QuiĂąones, Ana
Publisher: name: Figshare
Year: 2019
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy

description: Table S4. Nested Comparisons: Unadjusted Logistic Regression and Negative Binomial models of Poor Self-Rated Health and ADL-IADL Index on Multimorbidity Group, SHARE 2013â 2015. (DOCX 17 kb)
Homeostatic and Adaptive Energetics: Nonequilibrium Fluctuations Beyond Detailed Balance in Voltage-Gated Ion Channels
Creators: name: Semaan, Mikhael T.
name: Crutchfield, James P.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Adaptation and Self-Organizing Systems (nlin.AO)
subject: Biological Physics (physics.bio-ph)
subject: Neurons and Cognition (q-bio.NC)
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: Stochastic thermodynamics has largely succeeded in characterizing both equilibrium and far-from-equilibrium phenomena. Yet many opportunities remain for application to mesoscopic complex systems -- especially biological ones -- whose effective dynamics often violate detailed balance and whose microscopic degrees of freedom are often unknown or intractable. After reviewing excess and housekeeping energetics -- the adaptive and homeostatic components of a system's dissipation -- we extend stochastic thermodynamics with a trajectory class fluctuation theorem for nonequilibrium steady-state, nondetailed-balanced complex systems. We then take up the neurobiological examples of voltage-gated sodium and potassium ion channels to apply and illustrate the theory, elucidating their nonequilibrium behavior under a biophysically plausible action potential drive. These results uncover challenges for future experiments and highlight the progress possible understanding the thermodynamics of complex systems -- without exhaustive knowledge of every underlying degree of freedom.
description: 17 pages, 9 figures; http://csc.ucdavis.edu/~cmg/compmech/pubs/toic.htm
Domain wall of a ferromagnet on a three-dimensional topological insulator
Creators: name: Wakatsuki, Ryohei
name: Ezawa, Motohiko
name: Nagaosa, Naoto
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Topological insulators (TIs) show rich phenomena and functions which can never be realized in ordinary insulators. Most of them come from the peculiar surface or edge states. Especially, the quantized anomalous Hall effect (QAHE) without an external magnetic field is realized in the two-dimensional ferromagnet on a three-dimensional TI which supports the dissipationless edge current. Here we demonstrate theoretically that the domain wall of this ferromagnet, which carries edge current, is charged and can be controlled by the external electric field. The chirality and relative stability of the Neel wall and Bloch wall depend on the position of the Fermi energy as well as the form of the coupling between the magnetic moments and orbital of the host TI. These findings will pave a path to utilize the magnets on TI for the spintronics applications.
description: 17 pages, 11 figures
Exploring the acceptability, feasibility, and appropriateness of a communication-friendly classroom tool for use in Irish schools: A qualitative inquiry
Creators: name: GALLAGHER, AOIFE
name: Murphy, Rachel
name: Fitzgerald, Johanna
name: MURPHY, CAROL-ANNE
name: Law, James
Publisher: name: University of Limerick
Year: 2023
Subjects: classificationCode: 39
subject: Education

description: Ten percent of the school-aged population have speech, language, and communication needs (SLCN) that impact access to the curriculum. Successful implementation of class-room-based SLCN interventions can reduce barriers to learning, thereby improving educational outcomes for this vulnerable population. The challenges of implementing innovations in educational settings are well-documented, yet limited studies have addressed such considerations when developing, and piloting universal level SLCN interventions for use in Irish schools Methods A qualitative exploratory study was undertaken to establish the acceptability, feasibility, and appropriateness of a universal level SLCN intervention. An advisory panel of teachers (n = 8) and children with SLCN (n = 2) were engaged as co-researchers in the study. The Communication Supporting Classrooms Observation Tool, developed as part of the Better Communication Project in the UK, was trialled across a diverse sample of school settings (n = 5). Semi-structured interviews were conducted with school practitioners and school leaders, and a deductive content analysis was undertaken using the domains of the Consolidation Framework for Implementation Research Discussion The observation tool was viewed as acceptable with suggested additions. Integrating use of the tool within existing data-informed, school self-evaluation processes aimed at supporting school improvement was noted as a potential means of supporting implementation. A knowledge gap in relation to school-based models of support for SLCN was identified which may negatively impact implementation. An implementation strategy targeting coherence, cognitive engagement and contextual integration is indicated if the tool is to be normalised into routine practice in Irish classrooms. Implementation needs appeared to vary at the school level. Conclusions The importance of early-stage exploration to guide implementation planning with regards to developing and testing universal level interventions for SLCN in schools is highlighted. Engaging an advisory panel provides important insights to guide implementation decisions. Findings suggest an adaptive design is required when planning implementation studies targeting classroom setting.
Enhanced Dip Coating on a Soft Substrate
Creators: name: Bertin, Vincent
name: Snoeijer, Jacco
name: Raphaël, Elie
name: Salez, Thomas
Publisher: name: arXiv
Year: 2022
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: A solid, withdrawn from a liquid bath, entrains a thin liquid film. This simple process, first described by Landau, Levich and Derjaguin (LLD), is commonly observed in everyday life. It also plays a central role in liquid capture by animals, and is widely used for surface-coating purposes in industry. Motivated by the emerging interest in the mechanics of very soft materials, and in particular the resulting elastocapillary coupling, we develop a dip-coating model that accounts for the additional presence of a soft solid layer atop the rigid plate. The elastic response of this soft layer is described by a Winkler's foundation. Using a combination of numerical, scaling and asymptotic-matching methods, we find a new softness-dependent power-law regime for the thickness of entrained liquid at small capillary number, which corresponds to a modified physics at play in the dynamic meniscus. The crossover between this regime and the classical dip-coating one occurs when the substrate's deformation is comparable to the thickness of the entrained liquid film.
Multilevel ensemble Kalman filtering
Creators: name: Hoel, Håkon
name: Law, Kody J. H.
name: Tempone, Raul
Publisher: name: arXiv
Year: 2015
Subjects: subject: Numerical Analysis (math.NA)
subject: Probability (math.PR)
subject: Computation (stat.CO)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences

description: This work embeds a multilevel Monte Carlo sampling strategy into the Monte Carlo step of the ensemble Kalman filter (EnKF) in the setting of finite dimensional signal evolution and noisy discrete-time observations. The signal dynamics is assumed to be governed by a stochastic differential equation (SDE), and a hierarchy of time grids is introduced for multilevel numerical integration of that SDE. The resulting multilevel EnKF is proved to asymptotically outperform EnKF in terms of computational cost versus approximation accuracy. The theoretical results are illustrated numerically.
Role of the basin boundary conditions in gravity wave turbulence
Creators: name: Deike, Luc
name: Miquel, Benjamin
name: Gutiérrez-Matus, Pablo
name: Jamin, Timothée
name: Semin, Benoit
name: Berhanu, Michael
name: Falcon, Eric
name: Bonnefoy, Félicien
Publisher: name: arXiv
Year: 2014
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Chaotic Dynamics (nlin.CD)
subject: Classical Physics (physics.class-ph)
subject: FOS: Physical sciences

description: Gravity wave turbulence is studied experimentally in a large wave basin where irregular waves are generated unidirectionally. The role of the basin boundary conditions (absorbing or reflecting) and of the forcing properties are investigated. To that purpose, an absorbing sloping beach opposite to the wavemaker can be replaced by a reflecting vertical wall. We observe that the wave field properties depend strongly on these boundary conditions. Quasi-one dimensional field of nonlinear waves propagate before to be damped by the beach whereas a more multidirectional wave field is observed with the wall. In both cases, the wave spectrum scales as a frequency-power law with an exponent that increases continuously with the forcing amplitude up to a value close to -4, which is the value predicted by the weak turbulence theory. The physical mechanisms involved are probably different according to the boundary condition used, but cannot be easily discriminated with only temporal measurements. We have also studied freely decaying gravity wave turbulence in the closed basin. No self-similar decay of the spectrum is observed, whereas its Fourier modes decay first as a time power law due to nonlinear mechanisms, and then exponentially due to linear viscous damping. We estimate the linear, nonlinear and dissipative time scales to test the time scale separation that highlights the important role of a large scale Fourier mode. By estimation of the mean energy flux from the initial decay of wave energy, the Kolmogorov-Zakharov constant is evaluated and found to be compatible with a recent theoretical value.
description: Journal of Fluid Mechanics, Cambridge University Press (CUP), 2015, in press in JFM
title: Anlage von Dauerbeobachtungsflächen für eine räumlich verdichtete Stichprobe zur Waldzustandserhebung auf standörtlicher Grundlage im Stadtforst Jena: Erarbeitung für den Kommunalwald der Stadt Jena
Creators: name: Ixas, Moritz
Publisher: name: Fachhochschule Erfurt
Year: 2023
Subjects: subject: 630

description: Der Stadtforst Jena hat in Zusammenarbeit mit dem Institut für Ökologie und Evolution der Friedrich-Schiller-Universität Jena und dem Autor dieser Arbeit eine eigene Stichprobe für die Waldzustandserhebung auf den Flächen des Kommunalwaldes erarbeitet. Die Inventur hat ergeben, dass die untersuchten Probebäume eine mittlere Kronenverlichtung von knapp 50% sowie weitere biotische und abiotische Schädigungen aufweisen. Im Vergleich zum Waldzustand von Thüringen und der Bundesrepublik Deutschland ist der Vitalitätszustand des Stadtwaldes deutlich vermindert. Allerdings gibt es auch zwischen den divergierenden FFH-Lebensraumtypen und Waldbiotoptypen innerhalb des Stadtforstes erhebliche Abweichungen. Als Ursachen dafür sind in dieser Arbeit das Waldinnenklima, Bodentypen und Humusformen, sowie weiterer Faktoren des Standortes untersucht worden. Eine statistisch gesicherte Ursachenforschung kann diese Arbeit nicht liefern. Vielmehr werden die 20 Dauerbeobachtungsflächen im Projektgebiet ausgewiesen, instrumentalisiert, ersterfasst und die Grundlage für nachfolgende Forschungsprojekte gelegt.
Early appropriate diagnostics and treatment of MDR Gram-negative infections
Creators: name: Rodrigues C.
name: Kiratisin P.
name: Bassetti M.
name: Kanj S.S.
name: van Duin D.
name: Villegas M.V.
name: Yu Y.
Publisher: name: Oxford University Press
Year: 2022

description: The term difficult-to-treat resistance has been recently coined to identify Gram-negative bacteria exhibiting resistance to all fluoroquinolones and all β-lactam categories, including carbapenems. Such bacteria are posing serious challenges to clinicians trying to identify the best therapeutic option for any given patient. Delayed appropriate therapy has been associated with worse outcomes including increase in length of stay, increase in total in-hospital costs and ∼20% increase in the risk of in-hospital mortality. In addition, time to appropriate antibiotic therapy has been shown to be an independent predictor of 30 day mortality in patients with resistant organisms. Improving and anticipating aetiological diagnosis through optimizing not only the identification of phenotypic resistance to antibiotic classes/agents, but also the identification of specific resistance mechanisms, would have a major impact on reducing the frequency and duration of inappropriate early antibiotic therapy. In light of these considerations, the present paper reviews the increasing need for rapid diagnosis of bacterial infections and efficient laboratory workflows to confirm diagnoses and facilitate prompt de-escalation to targeted therapy, in line with antimicrobial stewardship principles. Rapid diagnostic tests currently available and future perspectives for their use are discussed. Early appropriate diagnostics and treatment of MDR Gram-negative infections require a multidisciplinary approach that includes multiple different diagnostic methods and further consensus of algorithms, protocols and guidelines to select the optimal antibiotic therapy.
Additional file 3 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
Creators: name: Djemiel, Christophe
name: Dequiedt, Samuel
name: Karimi, Battle
name: Cottin, Aurélien
name: Girier, Thibault
name: Djoudi, Yassin El
name: Wincker, Patrick
name: Lelièvre, Mélanie
name: Mondy, Samuel
name: Prévost-Bouré, Nicolas Chemidlin
name: Pierre-Alain Maron
name: Ranjard, Lionel
name: Terrat, Sébastien
Publisher: name: figshare
Year: 2020
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Information Systems
subject: FOS: Computer and information sciences

description: Additional file 3. Figure S2. Folder structure of BIOCOM-PIPE analysis.
Analytic approach to the formation of a three-dimensional black string from a dust cloud
Creators: name: Eom, Hwajin
name: Kim, Wontae
Publisher: name: arXiv
Year: 2022
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In three-dimensional low-energy string theory, we study the formation of a black string from a dust cloud. We analytically obtain two distinct classes of exact solutions with arbitrary functions responsible for mass distributions of the dust cloud. The first and second kinds of solutions may describe collapsing dusts but the first kind is only for inhomogeneous dust distribution while the second kind has a homogeneous limit. The finite collapse time and the Israel junction conditions tell us that the first kind solution describes a desired collapsing phenomenon, whereas the scale factor in the inner spacetime for the second kind turns out to be trivial. In the first kind solution, specific collapsing models can be realized by choosing an appropriate inhomogeneous dust distribution consistent with the Israel junction conditions. Consequently, the inhomogeneous dust cloud eventually collapses to the black string although the homogeneous dust cloud does not guarantee the formation of the black string in our setting. The space-like curvature singularities occur at the finite collapse time and they can be cloaked by the horizon of the black string.
description: 18 pages, 1 figure, comments and references added
Poor outcomes in both infection and colonization with carbapenem-resistant Enterobacterales
Creators: name: Kim A.
name: van Duin D.
name: Bonomo R.A.
name: Gallagher J.C.
name: Earley M.
name: Abbo L.
name: Komarow L.
name: Muñoz-Price L.S.
name: Jacob J.T.
name: Grant M.
name: Howard-Anderson J.R.
name: Anderson D.J.
Publisher: name: Cambridge University Press
Year: 2022

description: Objectives: To describe the epidemiology of patients with nonintestinal carbapenem-resistant Enterobacterales (CRE) colonization and to compare clinical outcomes of these patients to those with CRE infection. Design: A secondary analysis of Consortium on Resistance Against Carbapenems in Klebsiella and other Enterobacteriaceae 2 (CRACKLE-2), a prospective observational cohort. Setting: A total of 49 US short-term acute-care hospitals. Patients: Patients hospitalized with CRE isolated from clinical cultures, April, 30, 2016, through August 31, 2017. Methods: We described characteristics of patients in CRACKLE-2 with nonintestinal CRE colonization and assessed the impact of site of colonization on clinical outcomes. We then compared outcomes of patients defined as having nonintestinal CRE colonization to all those defined as having infection. The primary outcome was a desirability of outcome ranking (DOOR) at 30 days. Secondary outcomes were 30-day mortality and 90-day readmission. Results: Of 547 patients with nonintestinal CRE colonization, 275 (50%) were from the urinary tract, 201 (37%) were from the respiratory tract, and 71 (13%) were from a wound. Patients with urinary tract colonization were more likely to have a more desirable clinical outcome at 30 days than those with respiratory tract colonization, with a DOOR probability of better outcome of 61% (95% confidence interval [CI], 53%-71%). When compared to 255 patients with CRE infection, patients with CRE colonization had a similar overall clinical outcome, as well as 30-day mortality and 90-day readmission rates when analyzed in aggregate or by culture site. Sensitivity analyses demonstrated similar results using different definitions of infection. Conclusions: Patients with nonintestinal CRE colonization had outcomes similar to those with CRE infection. Clinical outcomes may be influenced more by culture site than classification as "colonized"or "infected."
Does simulation-based training in medical education need additional stressors? An experimental study
Creators: name: Ontrup, Greta
name: Vogel, Miriam
name: Wolf, Oliver T.
name: Zahn, Peter K.
name: Kluge, Annette
name: Hagemann, Vera
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Simulation-based training
subject: high-fidelity simulator
subject: stress response
subject: performance
subject: learning
subject: 610

description: The increased curricular integration of simulation-based training (SBT) in medical education is accompanied by researchers’ calls to examine the effectiveness of SBT. We address conflicting results regarding effects of an added stressor on learning outcomes. In an experimental setting, one group of medical students (N = 20) performed cardiopulmonary resuscitation on a patient simulator. For a second group (N = 21) the scenario differed in that they encountered a defect defibrillator. We found participants of both groups to show increased biological stress-levels, independent of group allocation. Paradoxically, participants who encountered the equipment failure subjectively reported less stress. We discuss the implications of the comparable high stress levels in both groups with regards to future studies. We further discuss the result regarding subjective stress levels within the framework of attribution theory. Practitioner summary: The results of our experimental study underline the need for evidence-based choices of additional stressors for the design of simulation scenarios. We describe the choice of stimuli and setting in detail to maximise practical value for the construction of simulation-based medical trainings.
Exponential precision by reaching a quantum critical point
Creators: name: Garbe, Louis
name: Abah, Obinna
name: Felicetti, Simone
name: Puebla, Ricardo
Publisher: name: arXiv
Year: 2021
Subjects: subject: Quantum Physics (quant-ph)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Quantum metrology shows that by exploiting nonclassical resources it is possible to overcome the fundamental limit of precision found for classical parameter-estimation protocols. The scaling of the quantum Fisher information -- which provides an upper bound to the achievable precision -- with respect to the protocol duration is then of primarily importance to assess its performances. In classical protocols the quantum Fisher information scales linearly with time, while typical quantum-enhanced strategies achieve a quadratic (Heisenberg) or even higher-order polynomial scalings. Here we report a protocol that is capable of surpassing the polynomial scaling, and yields an exponential advantage. Such exponential advantage is achieved by approaching, but without crossing, the critical point of a quantum phase transition of a fully-connected model in the thermodynamic limit. The exponential advantage stems from the breakdown of the adiabatic condition close to a critical point. As we demonstrate, this exponential scaling is well captured by the new bound derived in arXiv:2110.04144, which in turn allows us to obtain approximate analytical expressions for the quantum Fisher information that agree with exact numerical simulations. In addition, we discuss the limitations to the exponential scaling when considering a finite-size system as well as its robustness against decoherence effects. Hence, our findings unveil a novel quantum metrological protocol whose precision scaling goes beyond the paradigmatic Heisenberg limit with respect to the protocol duration.
description: 12 pages, 4 figures; comments welcome!
Spin transport in intermediate-energy heavy-ion collisions as a probe of in-medium spin-orbit interactions
Creators: name: Xia, Yin
name: Xu, Jun
name: Li, Bao-An
name: Shen, Wen-Qing
Publisher: name: arXiv
Year: 2014
Subjects: subject: Nuclear Theory (nucl-th)
subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: The spin up-down splitting of collective flows in intermediate-energy heavy-ion collisions as a result of the nuclear spin-orbit interaction is investigated within a spin- and isospin-dependent Boltzmann-Uehing-Uhlenbeck transport model SIBUU12. Using a Skyrme-type spin-orbit coupling quadratic in momentum, we found that the spin splittings of the directed flow and elliptic flow are largest in peripheral Au+Au collisions at beam energies of about 100-200 MeV/nucleon, and the effect is considerable even in smaller systems especially for nucleons with high transverse momenta. The collective flows of light clusters of different spin states are also investigated using an improved dynamical coalescence model with spin. Our study can be important in understanding the properties of in-medium nuclear spin-orbit interactions once the spin-dependent observables proposed in this work can be measured.
description: 23 pages, 10 figures, version to appear in Nucl. Phys. A
6D Rotation Representation For Unconstrained Head Pose Estimation
Creators: name: Hempel, Thorsten
name: Abdelrahman, Ahmed A.
name: Al-Hamadi, Ayoub
Publisher: name: arXiv
Year: 2022
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Artificial Intelligence (cs.AI)
subject: Machine Learning (cs.LG)
subject: Robotics (cs.RO)
subject: FOS: Computer and information sciences

description: In this paper, we present a method for unconstrained end-to-end head pose estimation. We address the problem of ambiguous rotation labels by introducing the rotation matrix formalism for our ground truth data and propose a continuous 6D rotation matrix representation for efficient and robust direct regression. This way, our method can learn the full rotation appearance which is contrary to previous approaches that restrict the pose prediction to a narrow-angle for satisfactory results. In addition, we propose a geodesic distance-based loss to penalize our network with respect to the SO(3) manifold geometry. Experiments on the public AFLW2000 and BIWI datasets demonstrate that our proposed method significantly outperforms other state-of-the-art methods by up to 20\%. We open-source our training and testing code along with our pre-trained models: https://github.com/thohemp/6DRepNet.
description: ICIP 2022
Additional file 1: of Process evaluation of a cluster randomised intervention in Swedish primary care: using care managers in collaborative care to improve care quality for patients with depression
Creators: name: I. Svenningsson
name: E-L Petersson
name: C. Udo
name: J. Westman
name: C. BjĂśrkelund
name: L. Wallin
Publisher: name: Figshare
Year: 2019
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Marine Biology
subject: Science Policy

description: Information to the patient. (DOCX 45 kb)
Graph Neural Networks for Multimodal Single-Cell Data Integration
Creators: name: Wen, Hongzhi
name: Ding, Jiayuan
name: Jin, Wei
name: Wang, Yiqi
name: Xie, Yuying
name: Tang, Jiliang
Publisher: name: arXiv
Year: 2022
Subjects: subject: Machine Learning (cs.LG)
subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences

description: Recent advances in multimodal single-cell technologies have enabled simultaneous acquisitions of multiple omics data from the same cell, providing deeper insights into cellular states and dynamics. However, it is challenging to learn the joint representations from the multimodal data, model the relationship between modalities, and, more importantly, incorporate the vast amount of single-modality datasets into the downstream analyses. To address these challenges and correspondingly facilitate multimodal single-cell data analyses, three key tasks have been introduced: $\textit{modality prediction}$, $\textit{modality matching}$ and $\textit{joint embedding}$. In this work, we present a general Graph Neural Network framework $\textit{scMoGNN}$ to tackle these three tasks and show that $\textit{scMoGNN}$ demonstrates superior results in all three tasks compared with the state-of-the-art and conventional approaches. Our method is an official winner in the overall ranking of $\textit{Modality prediction}$ from NeurIPS 2021 Competition, and all implementations of our methods have been integrated into DANCE package~\url{https://github.com/OmicsML/dance}.
description: Accepted by KDD 2022 Applied Data Science Track
Torrenticola (Torrenticola) tetrapora K. Viets 1935
Creators: name: Pešić, Vladimir
name: Chatterjee, Tapas
name: Bordoloi, Sabitry
Publisher: name: Zenodo
Year: 2010
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Trombidiformes
Torrenticolidae
Torrenticola
Torrenticola tetrapora

description: Torrenticola (Torrenticola) tetrapora (K. Viets, 1935)
Records from the study area: Maharashtra—“ Torrenticola tetraporella ” Cook (1967); “ T. tetraporella ” Prasad (1974); Pešić & Ranga Reddy (2009); Uttaranchal—“ T. tetraporella ” Kumar & Dobriyal (1992).
Remarks: Wiles (1997a) synonymized Torrenticola tetraporella Cook, 1967 with T. tetrapora.
Habitat: Streams; probably hyporheophilous.
Distribution: India, Burma, Thailand, Peninsular Malaysia, Indonesia, Brunei.
description: Published as part of Pešić, Vladimir, Chatterjee, Tapas & Bordoloi, Sabitry, 2010, A checklist of the water mites (Acari: Hydrachnidia) of India, with new records and description of one new species, pp. 1-54 in Zootaxa 2617 (1) on page 16, DOI: 10.11646/zootaxa.2617.1.1, http://zenodo.org/record/197964
A multiscale model of cell mobility: From a kinetic to a hydrodynamic description
Creators: name: Nieto, J.
name: Urrutia, L.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics
subject: 35Q92, 92C17

description: This paper concerns a model for tumor cell migration through the surrounding extracellular matrix by considering mass balance phenomena involving the chemical interactions produced on the cell surface. The well-posedness of this model is proven. An asymptotic analysis via a suitable hydrodynamic limit completes the description of the macroscopic behaviour.
Dynamic Backdoors with Global Average Pooling
Creators: name: Koffas, Stefanos
name: Picek, Stjepan
name: Conti, Mauro
Publisher: name: arXiv
Year: 2022
Subjects: subject: Cryptography and Security (cs.CR)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: Outsourced training and machine learning as a service have resulted in novel attack vectors like backdoor attacks. Such attacks embed a secret functionality in a neural network activated when the trigger is added to its input. In most works in the literature, the trigger is static, both in terms of location and pattern. The effectiveness of various detection mechanisms depends on this property. It was recently shown that countermeasures in image classification, like Neural Cleanse and ABS, could be bypassed with dynamic triggers that are effective regardless of their pattern and location. Still, such backdoors are demanding as they require a large percentage of poisoned training data. In this work, we are the first to show that dynamic backdoor attacks could happen due to a global average pooling layer without increasing the percentage of the poisoned training data. Nevertheless, our experiments in sound classification, text sentiment analysis, and image classification show this to be very difficult in practice.
Additional file 1 of BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
Creators: name: Djemiel, Christophe
name: Dequiedt, Samuel
name: Karimi, Battle
name: Cottin, Aurélien
name: Girier, Thibault
name: Djoudi, Yassin El
name: Wincker, Patrick
name: Lelièvre, Mélanie
name: Mondy, Samuel
name: Prévost-Bouré, Nicolas Chemidlin
name: Pierre-Alain Maron
name: Ranjard, Lionel
name: Terrat, Sébastien
Publisher: name: figshare
Year: 2020
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Information Systems
subject: FOS: Computer and information sciences

description: Additional file 1. Doc S1. BIOCOM-PIPE user guide.
Clinical challenges treating Stenotrophomonas maltophilia infections: An update
Creators: name: Mathers A.J.
name: Bonomo R.A.
name: Shelburne S.A.
name: Mojica M.F.
name: Humphries R.
name: Fouts D.E.
name: Rao G.G.
name: Van Duin D.
name: Lipuma J.J.
Publisher: name: Oxford University Press
Year: 2022

description: Stenotrophomonas maltophilia is a non-fermenting, Gram-negative bacillus that has emerged as an opportunistic nosocomial pathogen. Its intrinsic multidrug resistance makes treating infections caused by S. maltophilia a great clinical challenge. Clinical management is further complicated by its molecular heterogeneity that is reflected in the uneven distribution of antibiotic resistance and virulence determinants among different strains, the shortcomings of available antimicrobial susceptibility tests and the lack of standardized breakpoints for the handful of antibiotics with in vitro activity against this microorganism. Herein, we provide an update on the most recent literature concerning these issues, emphasizing the impact they have on clinical management of S. maltophilia infections.
PENJELASAN RPS, RPP, KONTRAK, KULIAH , SPM 19NSEPTEMBER 2022
Creators: name: Dr. Rusdiyanto, SE,. M. Ak,. CH,. CHt
Publisher: name: Zenodo
Year: 2022
Subjects: RPS, RPP, KONTRAK, KULIAH, SPM

description: Capaian Pembelajaran Lulusan (CPL) Program Studi : 1. Sikap: Berkontribusi dalam peningkatan mutu kehidupan bermasyarakat, berbangsa, bernegara, dan peradaban berdasarkan Pancasila dan menunjukkan sikap bertanggungjawab atas pekerjaan di bidang keahliannya secara mandiri. : Menguasai konsep teoritis secara mendalam tentang lingkungan pengendalian manajemen, proses pengendalian manajemen dan variasi dalam pengendalian manajemen untuk mendisain dan memanfaatkan system pengendalian manajemen secara optimal. Keterampilan Umum: Mampu memanfaatkan sistem pengendalian manajemen (SPM) sebagai pedoman menjalankan fungsi general manager dan konsultan manajemen, memanfaatkan SPM untuk mendisain system pengendalian berbasis teknologi, serta sebagai controller. Keterampilan Khusus: Mampu berkontribusi dalam tim untuk memilih dan menggunakan lingkungan pengendalian manajemen yang berpengaruh terhadap proses pengendalian manajemen, mampu mengidentifikasi dan mengimplementasikan aspek-aspek penilaian yang mempengaruhi lingkungan dan proses pengendalain manajemen. Capaian Pembelajaran Mata Kuliah (CPMK) : Setelah menempuh mata kulian ini mahasiswa mampu menganalisis lingkungan pengendalian manajemen, proses pengendalain manajemen dan variasi dalam pengendalain manajemen dan mampu mendesain serta mampu memanfaatkan secara optimal sistem pengendalian manajemen untuk mendukung fungsi Controller..
The BioWipe: a non-invasive method to detect intestinal carriage of multi-drug resistant GRAM-negative bacteria
Creators: name: Bonomo R.A.
name: Zhu Y.
name: Srivastava J.C.
name: Naziripour A.
name: Zhu X.B.
name: Sobsey M.D.
name: Ruegsegger L.
name: van Duin D.
name: Marshall S.H.
name: Kanumuambidi T.
name: Brown D.
name: Sozzi E.
name: Rudin S.D.
name: Williams F.
name: Xiao J.
name: Prakash T.
name: Stallard M.A.
name: Wood B.
name: Bartelt L.
Publisher: name: Taylor and Francis Ltd.
Year: 2022

description: Colonization precedes infection and facilitates spread of several clinically important multidrug resistant organisms (MDRO). Reliable detection of carriage is important to improve our understanding of risk factors and spread of MDRO. Bacterial culture of stool samples obtained from peri-rectal swabs or whole stool is often used for this purpose. The previously described BioWipe method is a non-invasive stool collection method that resembles the use of toilet paper, and can be self-administered. The BioWipe consists of a 100×160 mm square of soft, absorbent synthetic fiber material attached to a plastic backing layer (Fisher Scientific, USA). It is used prior to using toilet paper after a bowel movement. The wipe with collected stool sample is placed onto the surface of an absorbent pad (3M™ Petroleum Sorbent Pads, Fisher Scientific, USA) containing modified Cary Blair transport media. The two parts are then folded together and placed inside a plastic bag. Prior to use, both components are treated with ultraviolet light irradiation in a biological safety cabinet for 30 minutes. After sample collection, the BioWipe is eluted with 20 mL mix of Phosphate Buffer Saline solution (PBS, pH=7.2) and 0.1% Tween 80 (vol/vol) directly in its original bag in a biosafety cabinet, until the stool sample is completely eluted. The resulting suspended stool sample is used for further processing.
Planning for robotic exploration based on forward simulation
Creators: name: Lauri, Mikko
name: Ritala, Risto
Publisher: name: arXiv
Year: 2015
Subjects: subject: Robotics (cs.RO)
subject: Systems and Control (eess.SY)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: 90C40

description: We address the problem of controlling a mobile robot to explore a partially known environment. The robot's objective is the maximization of the amount of information collected about the environment. We formulate the problem as a partially observable Markov decision process (POMDP) with an information-theoretic objective function, and solve it applying forward simulation algorithms with an open-loop approximation. We present a new sample-based approximation for mutual information useful in mobile robotics. The approximation can be seamlessly integrated with forward simulation planning algorithms. We investigate the usefulness of POMDP based planning for exploration, and to alleviate some of its weaknesses propose a combination with frontier based exploration. Experimental results in simulated and real environments show that, depending on the environment, applying POMDP based planning for exploration can improve performance over frontier exploration.
description: 19 pages, 11 figures in Robotics and Autonomous Systems (2016)
Additional file 1: of Prioritising physical and psychological symptoms: what are the barriers and facilitators to the discussion of anxiety in the primary care consultation?
Creators: name: M. Barnes
name: D. Kessler
name: C. Archer
name: N. Wiles
Publisher: name: Figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Marine Biology

description: Topic guide. (DOCX 41 kb)
A Theory of Composing Protocols
Creators: name: Bocchi, Laura
name: Orchard, Dominic
name: Voinea, A. Laura
Publisher: name: arXiv
Year: 2022
Subjects: subject: Programming Languages (cs.PL)
subject: FOS: Computer and information sciences

description: In programming, protocols are everywhere. Protocols describe the pattern of interaction (or communication) between software systems, for example, between a user-space program and the kernel or between a local application and an online service. Ensuring conformance to protocols avoids a significant class of software errors. Subsequently, there has been a lot of work on verifying code against formal protocol specifications. The pervading approaches focus on distributed settings involving parallel composition of processes within a single monolithic protocol description. However we observe that, at the level of a single thread/process, modern software must often implement a number of clearly delineated protocols at the same time which become dependent on each other, e.g., a banking API and one or more authentication protocols. Rather than plugging together modular protocol-following components, the code must re-integrate multiple protocols into a single component. We address this concern of combining protocols via a novel notion of 'interleaving' composition for protocols described via a process algebra. User-specified, domain-specific constraints can be inserted into the individual protocols to serve as 'contact points' to guide this composition procedure, which outputs a single combined protocol that can be programmed against. Our approach allows an engineer to then program against a number of protocols that have been composed (re-integrated), reflecting the true nature of applications that must handle multiple protocols at once. We prove various desirable properties of the composition, including behaviour preservation: that the composed protocol implements the behaviour of both component protocols. We demonstrate our approach in the practical setting of Erlang, with a tool implementing protocol composition that both generates Erlang code from a protocol and generates a protocol from Erlang code. This tool shows that, for a range of sample protocols (including real-world examples), a modest set of constraints can be inserted to produce a small number of candidate compositions to choose from. As we increasingly build software interacting with many programs and subsystems, this new perspective gives a foundation for improving software quality via protocol conformance in a multi-protocol setting.