julilili42/papers huggingface dataset:
Long‐Period Astronomical Forcing of Westerlies' Strength in Central Asia During Miocene Climate Cooling
2019-11-01

Abstract The continental expression of global cooling during the Miocene Climate Transition in Central Asia is poorly documented, as the tectonically active setting complicates the correlation of Neogene regional and global climatic developments. This study presents new geochemical data (CaSO 4 content, carbonate δ 13 C and δ 18 O) from the endorheic alluvial‐lacustrine Aktau succession (Ili Basin, south‐east Kazakhstan) combined with findings from the previously published facies evolution. Time series analysis revealed long‐eccentricity forcing of the paleohydrology throughout the entire succession, split into several facies‐dependent segments. Orbital tuning, constrained by new laser ablation U‐Pb dates and a preexisting magnetostratigraphy, places the succession in a 5.0 Ma long interval in the middle to late Miocene (15.6 to 10.6 Ma). The long‐term water accumulation in the Ili Basin followed the timing of the Miocene Climate Transition, suggesting increased precipitation in the catchment area in response to climate cooling and stronger westerly winds. This was paced by minima of the 2.4 Ma eccentricity cycle, which favored the establishment of a discharge playa (~14.3 Ma) and a perennial lake (12.6 to 11.8 Ma). Furthermore, low obliquity amplitudes (nodes) caused a transient weakening of the westerlies at ~13.7 to 13.5 Ma and at ~12.7 Ma, resulting in negative hydrological budgets and salinization. Flooding of the windward Ili Basin coeval with aridification in the leeward basins suggests that the Tian Shan was a climate boundary already in the middle Miocene. Our results emphasize the impact of climate fluctuations on the westerlies' strength and thus on Central Asian hydrology.
Effects of task type on morphosyntactic complexity across proficiency
2019-11-01

This study investigates the effect of instructional design on (morpho)syntactic complexity in second language (L2) writing development. We operationalised instructional design in terms of task type and empirically based the investigation on a large subcorpus (669,876 writings by 119,960 learners from 128 tasks at all Common European Framework of Reference for Languages levels) of the EF-Cambridge Open Language Database (EFCAMDAT; Geertzen, Alexopoulou and Korhonen 2014). First, the 128 task prompts were manually categorised for task type (e.g. argumentation, description). Next, developmental trajectories of syntactic complexity from A1 to C2 were established using a variety of global (e.g. mean length of clause) and specific (e.g. non-third person singular present tense verbs) measures extracted using natural language processing techniques. The effects of task type were analysed using the categorisation from the first step. Finally, tasks that showed atypical behaviour for a measure given their task type were explored qualitatively. Our results partially confirm earlier experimental and corpus-based studies (e.g. subordination associated with argumentative tasks). Going beyond, our large-scale data-driven analysis made it possible to identify specific measures that were naturally prompted by instructional design (e.g. narrations eliciting wh-phrases). We discuss which measures typically align with certain task types and highlight how instructional design relates to L2 developmental trajectories over time. Winner of the 2021 Best Article Award from the International Association for Task-Based Language Teaching (IATBLT).
Global Transcriptional Analysis of Nontransformed Human Intestinal Epithelial Cells (FHs 74 Int) after Exposure to Selected Drinking Water Disinfection By-Products
2019-11-01

Our results suggest that alterations to genes associated with immune and inflammatory pathways play an important role in the potential adverse health effects of exposure to DBPs. The interrelationship between these pathways and the production of reactive oxygen species (ROS) may explain the common occurrence of oxidative stress in other studies exploring DBP toxicity. Finally, transcriptional changes and shared induction of toxicity pathways observed for all DBPs caution of additive effects of mixtures and suggest further assessment of adverse health effects of mixtures is warranted. https://doi.org/10.1289/EHP4945.
Design and Analysis of the 4‐Anilinoquin(az)oline Kinase Inhibition Profiles of GAK/SLK/STK10 Using Quantitative Structure‐Activity Relationships
2019-11-01

Abstract The 4‐anilinoquinoline and 4‐anilinoquinazoline ring systems have been the focus of significant efforts in prior kinase drug discovery programs, which have led to approved medicines. Broad kinome profiles of these compounds have now been assessed with the advent of advanced screening technologies. These ring systems, while originally designed for specific targets including epidermal growth factor receptor (EGFR), but actually display a number of potent collateral kinase targets, some of which have been associated with negative clinical outcomes. We have designed and synthesized a series of 4‐anilinoquin(az)olines in order to better understand the structure‐activity relationships of three main collateral kinase targets of quin(az)oline‐based kinase inhibitors: cyclin G associated kinase (GAK), STE20‐like serine/threonine‐protein kinase (SLK) and serine/threonine‐protein kinase 10 (STK10). This was achieved through a series of quantitative structure‐activity relationship (QSAR) analysis, water mapping of the kinase ATP binding sites and extensive small‐molecule X‐ray structural analysis.
No Difference in the Neural Underpinnings of Number and Letter Copying in Children: Bayesian Analysis of Functional Near‐Infrared Spectroscopy Data
2019-11-01

ABSTRACT It is under debate whether the neural representation of numbers and letters might rely on distinct neural correlates, or on a mostly shared neural network. In the present study, a total of 47 children in fifth grade (Experiment 1) and sixth grade (Experiment 2) simply copied numbers and letters on a touch screen while brain activation changes were recorded by means of functional near‐infrared spectroscopy (fNIRS). fNIRS data of both experiments and a joint analysis revealed that a shared neural network, particularly in the left hemisphere, was activated in response to both number and letter copying. Interestingly, no difference was observed in brain activation patterns between these two stimuli, as revealed by Bayesian analysis. Our findings indicate that both number and letter copying lead to similar brain activation in children. We further suggest methodological and applied applications of these findings in the frame of educational neuroscience.
A new take on the low-mass brown dwarf companions on wide orbits in Upper-Scorpius
2019-11-01

Context. The Upper-Scorpius association (5–11 Myr) contains a unique population of low-mass ( M ≤ 30 M Jup ) brown dwarfs either free-floating, forming wide pairs, or on wide orbits around solar-type and massive stars. The detailed relative characterization of their physical properties (mass, radius, temperature, composition, and ongoing accretion) offers the opportunity to potentially explore their origin and mechanisms of formation. Aims. In this study, we aim to characterize the chemical and physical properties of three young, late-M brown dwarfs claimed to be companions of the Upper-Scorpius stars USco 161031.9-16191305, HIP 77900, and HIP 78530 using medium-resolution spectroscopy at UV (0.30−0.56 μ m; R λ ~ 3300), optical (0.55−1.02 μ m; R λ ~ 5400), and NIR (1.02−2.48 μ m; R λ ~ 4300) wavelengths. The spectra of six free-floating analogs from the same association are analyzed for comparison and to explore the potential physical differences between these substellar objects found in different configurations. We also aim to examine and analyze hydrogen emission lines at UV and optical wavelengths to investigate the presence of ongoing accretion processes. Methods. The X-shooter spectrograph at VLT was used to obtain the spectra of the nine young brown dwarfs over the 0.3−2.5 μ m range simultaneously. Performing a forward modeling of the observed spectra with the ForMoSA code, we infer the T eff , log ( g ), and radius of our objects. The code compares here the BT-SETTL15 models to the observed spectra using the Nested Sampling Bayesian inference method. Mass is determined using evolutionary models, and a new analysis of the physical association is presented based on Gaia -DR2 astrometry. Results. The T eff and log ( g ) determined for our companions are compatible with those found for free-floating analogs of the Upper-Scorpius association and with evolutionary model predictions at the age of the association. However the final accuracy on the T eff estimates is strongly limited by nonreproducibility of the BT-SETTL15 models in the range of T eff corresponding to the M8–M9 spectral types. We identified H α , H β , H γ , and Ca II H and K emission lines in the spectrum of several objects. We attribute these lines to chromospheric activity except for the free-floating object USco 1608-2315 for which they are indicative of active accretion ( M ̇ ≤ 10 −10.76 M ⊙ yr −1 ). We confirm the four-fold over-luminosity of USco 161031.9-16191305 B down to 0.3 μ m, which could be explained in part by the activity of this object and if the companion is an unresolved multiple system.
Assessing the quality of medication documentation: development and feasibility of the MediDocQ instrument for retrospective chart review in the hospital setting
2019-11-01

Objective The medication process requires clear and transparent documentation in patient records. Incomplete or incorrect medication documentation may contribute to inappropriate clinical decision-making and adverse events. To comprehensively assess the quality of in-hospital medication documentation, we developed a retrospective chart review (RCR) instrument. We report on the development process, the feasibility of the instrument and describe our application of the instrument to a sample of patient records. Design Cross-sectional study using an RCR instrument to evaluate paper-based, non-standardised prescription and medication administration charts (MediDocQ). Setting Two German university hospitals. Participants Records from 1361 patients admitted between April and July 2015 were evaluated. Methods The MediDocQ development process comprised six consecutive stages: focused literature review, web-based search, initial patient record screening, review by project advisory board, focus groups with professionals and pilot testing. The final 54-item RCR instrument covers three key components of medication documentation: (1) completeness of documented information (including prescription, medication administration and pro re nata (PRN) medication), (2) quality of transcriptions and (3) compliance with chart structure, legibility, handling of deletions and chart corrections. Descriptive statistics are presented as mean values, SD, median and interquartile ranges for individual items. Results Overall, 33 out of 54 items resulted in mean values above 0.75, indicating high-quality medication documentation. Documentation quality was particularly compromised for verbal and PRN orders (which involve more steps than standard orders) and when documentation was not completed at the same time as medication administration. Conclusions MediDocQ is a patient safety instrument that can be used to evaluate the quality of medication documentation and identify components of the process where intervention is required. In our setting, standardisation of medication documentation, particularly regarding medication administration and PRN medication is a priority.
Chromatin organization in early land plants reveals an ancestral association between H3K27me3, transposons, and constitutive heterochromatin
2019-11-01

Summary Genome packaging by nucleosomes is a hallmark of eukaryotes. Histones and the pathways that deposit, remove, and read histone modifications are deeply conserved. Yet, we lack information regarding chromatin landscapes in extant representatives of ancestors of the main groups of eukaryotes and our knowledge of the evolution of chromatin related processes is limited. We used the bryophyte Marchantia polymorpha , which diverged from vascular plants 400 Mya, to obtain a whole chromosome genome assembly and explore the chromatin landscape and three-dimensional organization of the genome of early land plants. Based on genomic profiles of ten chromatin marks, we conclude that the relationship between active marks and gene expression is conserved across land plants. In contrast, we observed distinctive features of transposons and repeats in Marchantia compared with flowering plants. Silenced transposons and repeats did not accumulate around centromeres, and a significant proportion of transposons were marked by H3K27me3, which is otherwise dedicated to the transcriptional repression of protein coding genes in flowering plants. Chromatin compartmentalization analyses of Hi-C data revealed that chromatin regions belonging to repressed heterochromatin were densely decorated with H3K27me3 but not H3K9 or DNA methylation as reported in flowering plants. We conclude that in early plants, H3K27me3 played an essential role in heterochromatin function, suggesting an ancestral role of this mark in transposon silencing.
Physiological assessment of high glucose neurotoxicity in mouse and rat retinal explants
2019-11-01

Abstract One of the tissues of the central nervous system most affected by diabetes is the retina. Despite a growing understanding of the biochemical processes involved in glucose toxicity, little is known about the physiological consequences of chronic high glucose (HG) on individual neurons and neuronal circuits. Electroretinogram recordings suggest that retinal bipolar cells (BCs), which filter and transmit photoreceptor output to the inner retina, are among the first cells affected by diabetic conditions, and may therefore serve as sensitive early biomarkers for incipient neuronal damage caused in diabetes. Here, we comparatively assessed retinal integrity, calcium responses, and the electrophysiological profiles of specific BC types of mouse and rat organotypic retinal explants after 1 to 3 weeks in tissue culture, under moderate glucose (MG) and HG conditions. While the retinal layers of both rodent species displayed a progressively reduced thickness in culture, BCs retained their electrophysiological profiles and remained morphologically identifiable for up to 2 weeks. Responses to glutamate and endogenous inhibitory responses were routinely observed, indicating that the retinal circuitry remained intact during this period. Significant physiological differences between MG and HG conditions were evident in calcium signals and in the time course of responses to glutamate, but the voltage‐gated current profiles of BCs displayed only minor variations. Overall, rat retina appeared slightly more sensitive to HG levels compared with mouse. In conclusion, electrophysiological analysis of neuronal function in rodent retinal explants is useful for the study of early damage due to HG neurotoxicity.
ARMCL: ARM Contact point Localization via Monte Carlo Localization
2019-11-01

Detecting and localizing contacts acting on a manipulator is a relevant problem for manipulation tasks like grasping, since contact information can be helpful for recovering from collisions or for improving the grasping performance itself. In this work, we present a solution for contact point localization, which is based on Monte Carlo Localization. Usually, an Articulated Robotic Manipulator (ARM) is not equipped with tactile skin, but with proprioceptive sensors, which we assume as an input for our method. In our experiments, we compare our method with a direct optimization method, machine learning approaches and another particle filter method, both on simulated and real world data from a Kinova Jaco2. While our proposed method clearly outperforms the other optimization approaches, it performs about equally well as Random Forest (RF) classifiers, although both methods have their strengths on different parts of the manipulator, and even achieves better results than multi-layer perceptions (MLPs) on the links farthest from the manipulator base.
Characterizing dielectric properties of ultra-thin films using superconducting coplanar microwave resonators
2019-11-01

We present an experimental approach for cryogenic dielectric measurements on ultrathin insulating films. Based on a coplanar microwave waveguide design, we implement superconducting quarter-wave resonators with inductive coupling, which allows us to determine the real part ε1 of the dielectric function at gigahertz frequencies and sample thicknesses down to a few nanometers. We perform simulations to optimize resonator coupling and sensitivity, and we demonstrate the possibility to quantify ε1 with a conformal mapping technique in a wide sample-thickness and ε1-regime. Experimentally, we determine ε1 for various thin-film samples (photoresist, MgF2, and SiO2) in the thickness regime of nanometer up to micrometer. We find good correspondence with nominative values, and we identify the precision of the film thickness as our predominant error source. Additionally, we present a temperature-dependent measurement for a SrTiO3 bulk sample, using an in situ reference method to compensate for the temperature dependence of the superconducting resonator properties.
Great tits encode contextual information in their food and mobbing calls
2019-11-01

The calling behaviour of Paridae species (i.e. titmice, tits and chickadees) in a predator-related context is well-studied. Parid species are known to alter call types, note composition or call duration according to predation risk. However, how these species encode information about a non-threatening context, such as food sources, has been subject to only few studies. Studies in Carolina chickadees ( Poecile carolinensis ) have shown that this species alters the ratio of C and D notes to encode information about the presence of food and/or the flight behaviour of the signaller. This suggests that parids also use graded signals to encode information about non-predatory contexts. No study to date has directly compared the calls of a feeding context with those of a predation (i.e. mobbing) context. Hence, the aim of this study was to compare the calling behaviour of these two situations in great tits ( Parus major ). Calls uttered at a feeder were recorded, analysed and compared with calls uttered in front of taxidermy mounts of sparrowhawks ( Accipiter nisus ). In the food context, great tits reduced the number of D notes and increased the number of B, C and E notes compared with the mobbing context. Furthermore, tits produced calls with longer D notes and shorter intervals between D notes than in the mobbing context. This indicates that great tits use two mechanisms of graded signals (i.e. note type and acoustic structure of D calls) to inform conspecifics about the nature of a situation.
Chance-Constrained Trajectory Optimization for Non-linear Systems with Unknown Stochastic Dynamics
2019-11-01

Iterative trajectory optimization techniques for non-linear dynamical systems are among the most powerful and sample-efficient methods of model-based reinforcement learning and approximate optimal control. By leveraging time-variant local linear-quadratic approximations of system dynamics and reward, such methods can find both a target-optimal trajectory and time-variant optimal feedback controllers. However, the local linear-quadratic assumptions are a major source of optimization bias that leads to catastrophic greedy updates, raising the issue of proper regularization. Moreover, the approximate models' disregard for any physical state-action limits of the system causes further aggravation of the problem, as the optimization moves towards unreachable areas of the state-action space. In this paper, we address the issue of constrained systems in the scenario of online-fitted stochastic linear dynamics. We propose modeling state and action physical limits as probabilistic chance constraints linear in both state and action and introduce a new trajectory optimization technique that integrates these probabilistic constraints by optimizing a relaxed quadratic program. Our empirical evaluations show a significant improvement in learning robustness, which enables our approach to perform more effective updates and avoid premature convergence observed in state-of-the-art algorithms.
MuSe: Multi-Sensor Integration Strategies Applied to Sequential Monte Carlo Methods
2019-11-01

Recursive state estimation is often used to estimate a probability density function of a specific state, e.g. a robot's pose, over time. Compared to Kalman filters, Sequential Monte Carlo (SMC) methods are less constrained in regard to state propagation and update model definition, which makes it easier to implement any suitable problem. In this work, we present a generic Sequential Monte Carlo framework, which uses abstract formulations for importance weighting, propagation and resampling and provides an independent core algorithm that is usable for any problem instantiation, such that diverse SMC problems can be implemented easily and quickly, since the basic algorithms are already provided. Current applications include 2D localization, 2D tracking in a SLAM system and contact point localization on a manipulator surface. Further, we introduce concepts to deal with data input synchronization and fair execution of different weighting models, which makes it possible to incorporate data from as many update sources, e.g. sensors, as desired. As a typical application scenario, we provide a plugin-based and hence easily extensible instantiation for 2D localization and demonstrate the capabilities of our framework and methods based on a well-known dataset.
ReMCW: Reduced Bandwidth FMCW Radar for Autonomous Driving
2019-11-01

Automotive radar is an all-weather sensing technology that makes direct measurements of target motion thereby aiding in unmanned driving. Continuous-wave (CW) radars which use linear frequency modulation (FM) have been the most popular automotive sensing systems because of lower cost, higher range resolution, and lower transmit power than a pulse Doppler radar. The available spectrum for vehicular systems is limited and, therefore, avoiding mutual interference from multiple automotive radars operating in the same spectrum in a crowded traffic scenario is a major challenge. To address this, we present a Reduced bandwidth FMCW (ReMCW) radar that consumes less spectral resources without decreasing the range resolution and enables interference-free operation. Our CW radar waveform transmits few randomly chosen slopes within the original FMCW sweep. This waveform avoids range- Doppler coupling encountered in conventional FMCW radars. The parameters used for the design of this waveform conform to current automotive radar requirements. Numerical experiments with ReMCW show great savings in spectrum over the conventional FMCW radar.