julilili42/papers huggingface dataset:
Investigating social comparison behaviour in an immersive virtual reality classroom based on eye-movement data
2023-09-06

Abstract Higher-achieving peers have repeatedly been found to negatively impact students’ evaluations of their own academic abilities (i.e., Big-Fish-Little-Pond Effect). Building on social comparison theory, this pattern is assumed to result from students comparing themselves to their classmates; however, based on existing research designs, it remains unclear how exactly students make use of social comparison information in the classroom. To determine the extent to which students ( N = 353 sixth graders) actively attend and respond to social comparison information in the form of peers’ achievement-related behaviour, we used eye-tracking data from an immersive virtual reality (IVR) classroom. IVR classrooms offer unprecedented opportunities for psychological classroom research as they allow to integrate authentic classroom scenarios with maximum experimental control. In the present study, we experimentally varied virtual classmates’ achievement-related behaviour (i.e., their hand-raising in response to the teacher’s questions) during instruction, and students’ eye and gaze data showed that they actively processed this social comparison information. Students who attended more to social comparison information (as indicated by more frequent and longer gaze durations at peer learners) had less favourable self-evaluations. We discuss implications for the future use of IVR environments to study behaviours in the classroom and beyond.
Genetic background modulates phenotypic expressivity in OPA1 mutated mice, relevance to DOA pathogenesis
2023-09-06

Dominant optic atrophy (DOA) is mainly caused by OPA1 mutations and is characterized by the degeneration of retinal ganglion cells (RGCs), whose axons form the optic nerve. The penetrance of DOA is incomplete and the disease is marked by highly variable expressivity, ranging from asymptomatic patients to some who are totally blind or who suffer from multisystemic effects. No clear genotype–phenotype correlation has been established to date. Taken together, these observations point toward the existence of modifying genetic and/or environmental factors that modulate disease severity. Here, we investigated the influence of genetic background on DOA expressivity by switching the previously described DOA mouse model bearing the c.1065 + 5G → A Opa1 mutation from mixed C3H; C57BL/6 J to a pure C57BL/6 J background. We no longer observed retinal and optic nerve abnormalities; the findings indicated no degeneration, but rather a sex-dependent negative effect on RGC connectivity. This highlights the fact that RGC synaptic alteration might precede neuronal death, as has been proposed in other neurodegenerative diseases, providing new clinical considerations for early diagnosis as well as a new therapeutic window for DOA. Furthermore, our results demonstrate the importance of secondary genetic factors in the variability of DOA expressivity and offer a model for screening for aggravating environmental and genetic factors.
Obesity is the main driver of altered gut microbiome functions in the metabolically unhealthy
2023-09-07

Obesity (OB) and cardiometabolic disease are major public health issues linked to changes in the gut microbiome. OB and poor cardiometabolic health status (CHS) are often comorbid, which hinders efforts to identify components of the microbiome uniquely linked to either one. Here, we used a deeply phenotyped cohort of 408 adults from Colombia, including subjects with OB, unhealthy CHS, or both, to validate previously reported features of gut microbiome function and diversity independently correlated with OB or CHS using fecal metagenomes. OB was defined by body mass index, waist circumference, and body fat; CHS as healthy or unhealthy according to blood biochemistry and anthropometric data. We found that OB, more so than metabolic status, drove associations with gut microbiome structure and functions. The microbiome of obese individuals with and without co-existing unhealthy CHS was characterized by reduced metagenomic diversity, reduced fermentative potential and elevated capacity to respond to oxidative stress and produce bacterial antigens. Disease-linked features were correlated with increased host blood pressure and inflammatory markers, and were mainly contributed by members of the family <i>Enterobacteriaceae</i>. Our results link OB with a microbiome able to tolerate an inflammatory and oxygenated gut state, and suggest that OB is the main driver of microbiome functional differences when poor CHS is a comorbidity.
Stress Urinary Incontinence: An Unsolved Clinical Challenge
2023-09-07

Stress urinary incontinence is still a frequent problem for women and men, which leads to pronounced impairment of the quality of life and withdrawal from the social environment. Modern diagnostics and therapy improved the situation for individuals affected. But there are still limits, including the correct diagnosis of incontinence and its pathophysiology, as well as the therapeutic algorithms. In most cases, patients are treated with a first-line regimen of drugs, possibly in combination with specific exercises and electrophysiological stimulation. When conservative options are exhausted, minimally invasive surgical therapies are indicated. However, standard surgeries, especially the application of implants, do not pursue any causal therapy. Non-absorbable meshes and ligaments have fallen into disrepute due to complications. In numerous countries, classic techniques such as colposuspension have been revived to avoid implants. Except for tapes in the treatment of stress urinary incontinence in women, the literature on randomized controlled studies is insufficient. This review provides an update on pharmacological and surgical treatment options for stress urinary incontinence; it highlights limitations and formulates wishes for the future from a clinical perspective.
A conserved extracellular Ribo1 with broad‐spectrum cytotoxic activity enables smut fungi to compete with host‐associated bacteria
2023-09-07

Summary Ribotoxins are secreted ribonucleases that specifically target and cleave the universally conserved sarcin–ricin loop sequence of rRNA, which leads to inhibition of protein biosynthesis and subsequently to cell death. We have identified and characterized a secreted Ribo1 protein of plant pathogenic smut fungi. Heterologous expression in different model systems showed that smut Ribo1 has cytotoxic activity against bacteria, yeast, host and nonhost plants. Recombinant expression of Ribo1 in Nicotiana benthamiana induced plant cell death; however, an active site mutant induced cell death only when expressed as a secreted protein. In the maize smut Ustilago maydis , transcription of Ribo1 is specifically induced in early infection stages. While a knockout mutant revealed that Ribo1 is dispensable for U. maydis virulence, the overexpression of Ribo1 in planta had a strong dominant negative effect on virulence and induced host defense responses including cell death. Our findings suggest a function of Ribo1 during the epiphytic development rather than for invasive colonization of the host. Accordingly, in the presence of the biocontrol bacteria Pantoea sp., which were isolated from maize leaves, the ribo1 knockout mutant was significantly impaired in virulence. Together, we conclude that Ribo1 enables smut fungi to compete with host‐associated bacteria during epiphytic development.
A Case Study from the Past: “The RGC-5 vs. the 661W Cell Line: Similarities, Differences and Contradictions—Are They Really the Same?”
2023-09-07

In the pursuit of identifying the underlying pathways of ocular diseases, the use of cell lines such as (retinal ganglion cell-5) RGC-5 and 661W became a valuable tool, including pathologies like retinal degeneration and glaucoma. In 2001, the establishment of the RGC-5 cell line marked a significant breakthrough in glaucoma research. Over time, however, concerns arose about the true nature of RGC-5 cells, with conflicting findings in the literature regarding their identity as retinal ganglion cells or photoreceptor-like cells. This study aimed to address the controversy surrounding the RGC-5 cell line’s origin and properties by comparing it with the 661W cell line, a known cone photoreceptor model. Both cell lines were differentiated according to two prior published redifferentiation protocols under the same conditions using 500 nM of trichostatin A (TSA) and investigated for their morphological and neuronal marker properties. The results demonstrated that both cell lines are murine, and they exhibited distinct morphological and neuronal marker properties. Notably, the RGC-5 cells showed higher expression of the neuronal marker β-III tubulin and increased Thy-1-mRNA compared with the 661W cells, providing evidence of their different properties. The findings emphasize the importance of verifying the authenticity of cell lines used in ocular research and highlight the risks of contamination and altered cell properties.
Intra- & Extra-Source Exemplar-Based Style Synthesis for Improved Domain Generalization
2023-09-07

Abstract The generalization with respect to domain shifts, as they frequently appear in applications such as autonomous driving, is one of the remaining big challenges for deep learning models. Therefore, we propose an exemplar-based style synthesis pipeline to improve domain generalization in semantic segmentation. Our method is based on a novel masked noise encoder for StyleGAN2 inversion. The model learns to faithfully reconstruct the image, preserving its semantic layout through noise prediction. Random masking of the estimated noise enables the style mixing capability of our model, i.e. it allows to alter the global appearance without affecting the semantic layout of an image. Using the proposed masked noise encoder to randomize style and content combinations in the training set, i.e., intra-source style augmentation ( <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mtext>ISSA</mml:mtext> </mml:math> ) effectively increases the diversity of training data and reduces spurious correlation. As a result, we achieve up to <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mn>12.4</mml:mn> <mml:mo>%</mml:mo> </mml:mrow> </mml:math> mIoU improvements on driving-scene semantic segmentation under different types of data shifts, i.e., changing geographic locations, adverse weather conditions, and day to night. <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mtext>ISSA</mml:mtext> </mml:math> is model-agnostic and straightforwardly applicable with CNNs and Transformers. It is also complementary to other domain generalization techniques, e.g., it improves the recent state-of-the-art solution RobustNet by <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mn>3</mml:mn> <mml:mo>%</mml:mo> </mml:mrow> </mml:math> mIoU in Cityscapes to Dark Zürich. In addition, we demonstrate the strong plug-n-play ability of the proposed style synthesis pipeline, which is readily usable for extra-source exemplars e.g., web-crawled images, without any retraining or fine-tuning. Moreover, we study a new use case to indicate neural network’s generalization capability by building a stylized proxy validation set. This application has significant practical sense for selecting models to be deployed in the open-world environment. Our code is available at https://github.com/boschresearch/ISSA .
The Early Independent Problem Solving Survey (EIPSS): Its psychometric properties in children aged 12–47 months
2023-09-07

Independent problem solving (IPS) involves solving problems alone; with motivation and persistence; without watching others; or requesting or receiving help. The Early Independent Problem Solving Survey (EIPSS) was developed for 12- to 47-month-olds. &#13;\\n&#13;\\nStudy 1 (N = 272) found good internal reliability and a 2-factor structure: Repetitive (repeatedly solvable problems, e.g., jigsaws) and Novel IPS (one-off problems, e.g., reaching out-of-reach toys). Study 2 (N = 567) confirmed good internal reliability and the 2-factor structure. Study 3 (N = 85) found a positive correlation between a divergent thinking lab measure and Novel IPS. Study 4 found good 6-month-longitudinal stability (N = 110) for the EIPSS and its subscales; and good agreement between parents (N = 32) for the Repetitive subscale. Study 5 (all data combined) demonstrated no item functioning differences across demographic variables. Differences for child age, child gender, parent age, and parent education were found for the EIPSS and subscales.
The neutral condition in conflict tasks: On the violation of the midpoint assumption in reaction time trends
2023-09-07

Although the relation between congruent and incongruent conditions in conflict tasks has been the primary focus of cognitive control studies, the neutral condition is often set as a baseline directly between the two conditions. However, empirical evidence suggests that the average neutral reaction time (RT) is not placed evenly between the two opposing conditions. This article set out to establish two things: First, to reinforce the informative nature of the neutral condition and second, to highlight how it can be useful for modelling. We explored how RT in the neutral condition of conflict tasks (Stroop, Flanker, and Simon Tasks) deviated from the predictions of current diffusion models. Current diffusion models of conflict tasks predict a neutral RT that is the average of the congruent and incongruent RT, called the midpoint assumption. To investigate this, we first conducted a cursory limited search that recorded the average RT’s of conflict tasks with neutral conditions. Upon finding evidence of a midpoint assumption violation which showed a larger disparity between average neutral and incongruent RT, we tested the previously mentioned conflict tasks with two different sets of stimuli to establish the robustness of the effect. The midpoint assumption violation is sometimes inconsistent with the prediction of diffusion models of conflict processing (e.g., the Diffusion Model of Conflict), suggesting possible elaborations of such models.
Pregnancies in women with antineutrophil cytoplasmatic antibody associated vasculitis
2023-09-07

Purpose of review Antineutrophil cytoplasmatic antibody associated vasculitis (AAV) usually manifests after age fifty, thus making it very rare during reproductive age. Although rare, AAV, particularly eosinophilic granulomatosis with polyangiitis, can manifest at a younger age. AAV can also appear for the first time during pregnancy. Recent findings Data from pregnant patients with AAV mostly derive from case reports or retrospective studies, with an absolute number of &lt;100 published cases. Therefore, numbers of results of pregnancy outcome vary widely. Summary As with other chronic autoimmune diseases, patients and infants seem to be at a higher risk for preterm delivery, intrauterine growth retardation and preeclampsia. Possible treatment for AAV in pregnancy depends upon gestational age and include glucocorticosteroids, azathioprine, intravenous immunoglobulins, and in severe cases rituximab and even cyclophosphamide. Plasma exchange might be an option in selected patients. Aside from cyclophosphamide these medications can also be used during breastfeeding. Acetylsalicylic-acid 100–150 mg/day reduces the risk of preeclampsia, also in this population. Patients should be counseled prior to conception and medication that is suitable for pregnancy should be established early on. During pregnancy, we recommend close monitoring of disease activity, blood pressure and ideally to co-consult with a gynecologist in an interdisciplinary approach.
The Effect of mPEGA/EHA Ratio and Copolymer Composition on the Solution Behavior of Amphiphilic, Comb‐Shape Copolymers Synthesized via Cu(0)‐Mediated SET‐LRP for Potential Drug Delivery Applications
2023-09-07

Abstract Comb‐shape, block copolymers from hydrophilic poly(ethylenglycol) monomethyl ether acrylate (mPEGA, A) and hydrophobic 2‐ethylhexyl acrylate (EHA, B) are synthesized by copper(0)‐mediated single‐electron transfer living radical polymerization (SET‐LRP) via sequential addition of the two monomers, resulting in different compositions (AB, ABA, BAB, BA), molar masses, and mPEGA/EHA ratios. All polymers show narrow molar mass distributions and molecular weights of 7.7–25.50 kg mol −1 , demonstrating precise control over the polymerization and molecular weights through the utilization of SET‐LRP. Kinetic experiments are conducted to investigate the polymerization behavior of mPEGA and EHA in N,N ‐dimethylformamide as a rather uncommon solvent for SET‐LRP further underlining a living‐type polymerization. Amphiphilic properties are investigated by critical micelle concentration (CMC) measurements and formation of micelles in water. A reverse relation between mPEGA/EHA ratio and CMC values reveals that an increased hydrophobicity leads to decreased CMC values. The self‐assembly behavior of polymers in water confirms the formation of uniform and stable micelles in water with a size between 12 and 184 nm depending on the composition of the polymers. With increased hydrophilicity, micelle sizes increase as well. In vitro tests of the obtained polymers show excellent biocompatibility even at high concentrations further affirming their suitability for drug delivery applications.
Continental scientific drilling and microbiology: (extremely) low biomass in crystalline bedrock of central Sweden
2023-09-07

Abstract. Scientific drilling expeditions offer a unique opportunity to characterize the microbial communities in the subsurface that have been long-term isolated from the surface. With subsurface microbial biomass being low in general, biological contamination from the drilling fluid, sample processing, or molecular work is a major concern. To address this, characterization of the contaminant populations in the drilling fluid and negative extraction controls are essential for assessing and evaluating such sequencing data. Here, crystalline rock cores down to 2250 m depth, groundwater-bearing fractures, and the drilling fluid were sampled for DNA to characterize the microbial communities using a broad genomic approach. However, even after removing potential contaminant populations present in the drilling fluid, notorious contaminants were abundant and mainly affiliated with the bacterial order Burkholderiales. These contaminant microorganisms likely originated from the reagents used for isolating and amplifying DNA despite stringent quality standards during the molecular work. The detection of strictly anaerobic sulfate reducers such as Candidatus Desulforudis audaxviator suggested the presence of autochthonous deep biosphere taxa in the sequenced libraries, yet these clades represented only a minor fraction of the sequence counts (&lt; 0.1 %), hindering further ecological interpretations. The described methods and findings emphasize the importance of sequencing extraction controls and can support experimental design for future microbiological studies in conjunction with continental drilling operations.
On the Status of the Boar Tooth Artifact from the Backdirt of Vogelherd
2023-09-07

During the course of the excavations in the backdirt of Vogelherd in 2008, the crew recovered a tusk of a boar preserving clear signs of anthropogenic modification. In addition to the polishing that regularly occurs on tusks during the life of the animal, this specimen, showed signs of cut- ting, scraping and polish subsequent to the animal’s death. This artifact superficially resembles a Magdalenian female figurine with a triangular buttock and a stick-like torso, which led to the hypothesis that the find may be of Paleolithic origin and may be an artwork. Alternatively, the find was hypothesized to be an artifact of unknown function from the Holocene, based on the rarity of faunal remains of boar from the Paleolithic of the Swabian Jura. While the excavator always stressed the uncertainty related to the interpretation of the find, some colleagues ac- cepted the hypothesis that the find represented a Magdalenian female figurine. Thirteen years after its recovery, we have reexamined this artifact and conducted comparative studies that support the hypothesis that the find is of Holocene age. Based on similar finds, we conclude that, although the function of this class of artifact is not yet certain, this artifact is a Neolithic or Mesolithic tool with clear parallels in Germany, France and Switzerland. This class of artifact is rare in Central Europe, but our survey of Neolithic and Mesolithic publications allows us to reject the hypothesis, that this find represents a Magdalenian female figurine. This artifact, however, enriches the record of Holocene organic technology in southwestern Germany.
Embedding the de.NBI Cloud in the National Research Data Infrastructure Activities
2023-09-07

In recent years, modern life sciences research underwent a rapid development driven mainly by the technical improvements in analytical areas leading to miniaturization, parallelization, and high throughput processing of biological samples. This has led to the generation of huge amounts of experimental data. To meet these rising demands, the German Network for Bioinformatics Infrastructure (de.NBI) was established in 2015 as a national bioinformatics consortium aiming to provide high quality bioinformatics services, comprehensive training, powerful computing capacities (de.NBI Cloud) as well as connections to the European Life Science Infrastructure ELIXIR, with the goal to assist researchers in exploring and exploiting data more effectively. Since its foundation, de.NBI Cloud has formed the scientific and collaborative backbone for new major German initiatives like NFDI or EOSC-Life in the European sector of computational biosciences. Above all, the cooperation with various NFDI consortia such as NFDI4Biodiversity, DataPLANT, GHGA, FAIRagro or NFDI4Microbiota showcases the power, range and flexibility of the de.NBI Cloud, especially for the national life science community. In conclusion, the de.NBI Cloud provides the ability to unlock the full potential of research data and enables easier collaboration across different ecosystems and research areas, which in turn enables scientists to innovate and scale-up their data-driven research, not only in the life and computational biosciences, but across the different science domains addressed by the NFDI.
THE TRANSIENT ACCRETING X-RAY PULSAR XTE J1946+274: STABILITY OF X-RAY PROPERTIES AT LOW FLUX AND UPDATED ORBITAL SOLUTION
2023-09-07

We present a timing and spectral analysis of the X-ray pulsar XTE J1946+274 observed with Suzaku during an outburst decline in 2010 October and compare with previous results. XTE J1946+274 is a transient X-ray binary consisting of a Be-type star and a neutron star with a 15.75 s pulse period in a 172 days orbit with 2–3 outbursts per orbit during phases of activity. We improve the orbital solution using data from multiple instruments. The X-ray spectrum can be described by an absorbed Fermi–Dirac cut-off power-law model along with a narrow Fe Kα line at 6.4 keV and a weak Cyclotron Resonance Scattering Feature (CRSF) at ∼35 keV. The Suzaku data are consistent with the previously observed continuum flux versus iron line flux correlation expected from fluorescence emission along the line of sight. However, the observed iron line flux is slightly higher, indicating the possibility of a higher iron abundance or the presence of non-uniform material. We argue that the source most likely has only been observed in the subcritical (non-radiation dominated) state since its pulse profile is stable over all observed luminosities and the energy of the CRSF is approximately the same at the highest (∼5 × 1037 erg s−1) and lowest (∼5 × 1036 erg s−1) observed 3–60 keV luminosities.