julilili42/papers huggingface dataset:
“Better place no wit can finde”: The Compiler as Author in Early Modern Verse Miscellanies
2023-02-02

This paper reflects on concepts of early modern authorship during the early modern period based on miscellanies and the roles of their compilors. The statement "I Compyle: I make a boke as an auctor doth" from&amp;nbsp;Palsgrave’s Dictionary of French and English serves as a starting point: here, the compiler becomes a co-creative agent in that he plays with identities in composing the collection of poetry as much as with concepts and notions of individuality and community. This will be illustrated on the basis of a single poem, "Harpalus‘ Complaint" from Tottel’s Miscellany (1557) up unto the second edition of Englands Helicon (1614). A variety of interaction between several roles can be observed: compilors become co-authors themselves but also do readers when poems are newly arranged and integrated into a narrative. While Tottel’s Miscellany plays with identities and attributions, in Englands Helicon the (re)contextualisation of poems within newly created narratives is central. The paper thus shows that concepts of authorship around 1600 go beyond our contemporary notions that are often based on ideas of the creative genius: compilation becomes authorial business, and is creative.
Extreme rainfall propagation within Boreal Summer Intraseasonal Oscillation modulated by Pacific sea surface temperature
2023-02-02

Intraseasonal variations of the South Asian Summer Monsoon (SASM) contain alternating extreme rainfall (active) and low rainfall (break) phases impacting agriculture and economies. Their timing and spatial location are dominated by the Boreal Summer Intraseasonal Oscillation (BSISO), a quasi-periodic movement of convective precipitation from the equatorial Indian Ocean to the Western Pacific. However, observed deviations from the BSISO's canonical north-eastward propagation are poorly understood. Utilizing climate networks to characterize how active phases propagate within the SASM domain and using clustering analysis, we reveal three distinct modes of BSISO propagation: north-eastward, eastward-blocked, and stationary. We further show that Pacific sea surface temperatures modulate the modes - with El Niño- (La Niña-) like conditions favoring the stationary (eastward-blocked) - by changing local zonal and meridional overturning circulations and the BSISO Kelvin wave component. Using these insights, we demonstrate the potential for early warning signals of extreme rainfall until four weeks in advance.
Expedient and efficient: an Early Mesolithic composite implement from Krzyż Wielkopolski
2023-02-02

The Northern European Mesolithic is well known for the manufacture of composite tools and weapons for specialised purposes. A composite implement recovered from the Early Holocene site of Krzyż Wielkopolski 7 in Poland, dated to the Preboreal/Boreal transition, raises questions about expediency versus efficiency in the fabrication of these artefacts. Here, the authors characterise its materials and production: a bone splinter mounted on a shaft of pine wood, secured with bast ligatures coated in birch bark tar. While the manufacture of the implement's individual components can be characterised as ‘expedient’, the finished implement is, however, complex, efficient and durable.
Episignature analysis of moderate effects and mosaics
2023-02-02

Abstract Background: DNA methylation classifiers (“episignatures”) help to determine the pathogenicity of variants of uncertain significance (VUS). However, their sensitivity is limited due to their training on unambiguous cases with strong-effect variants so that the classification of variants with reduced effect size or in mosaic state may fail. Moreover, episignature evaluation of mosaics as a function of their degree of mosaicism has not been developed so far. Results: We improved episignatures with respect to three categories. Applying (i) a minimum-redundancy-maximum-relevance feature selection we reduced their length by up to one order of magnitude without loss of accuracy. Performing (ii) repeated retraining of a support vector machine classifier by step-wise inclusion of cases in the training set that reached probability scores larger than 0.5, we increased the sensitivity of the episignature classifiers by 30%. In the newly diagnosed patients we confirmed the association between DNA methylation aberration and age at onset of KMT2B-deficient dystonia. Moreover, we found evidence for allelic series in KMT2B down to moderate effect variants associated with comparatively mild phenotypes such as late-onset focal dystonia. Retrained classifiers also can detect mosaics that previously remained below the 0.5-threshold, as we showed for KMT2D -associated Kabuki syndrome. Conversely, episignature classifiers are able to revoke erroneous exome calls of mosaicism, as we demonstrated by (iii) comparing presumed mosaic cases with a distribution of artificial in silico mosaics that represented all the possible variation in degree of mosaicism, variant read sampling, and methylation analysis.
Characterisation of Physiological Responses to Odours in Autism Spectrum Disorders: A Preliminary Study
2023-02-02

Abnormal sensory perception is among the earliest symptoms of autism spectrum disorders (ASD). Despite mixed findings, olfactory perception seems to be altered in ASD. There is also evidence that automatic responses to odours can serve as biomarkers of ASD. However, this potential use of odour-based biomarkers for ASD is still underexplored. In this study, we aimed to investigate whether physiological responses to social and non-social odours, measured with electrocardiography (ECG) and facial electromyography (EMG), can be used to characterise and predict ASD in adults. For that, we extracted 32 signal features from a previously collected database of 11 adults with ASD and 48 adults with typical development (TD). Firstly, non-parametric tests were performed, showing significant differences between the ASD and the TD groups in 10 features. Secondly, a k-nearest-neighbour classifier with a leave-one-out strategy was employed, obtaining an F1-score of 67%. Although caution is needed due to the small sample size, this study provides preliminary evidence supporting the use of physiological responses to social and non-social odours as a potential diagnostic tool for ASD in adults.
No such Thing as Bad Birding Weather, but Depends on Personal Experience
2023-02-03

Weather importantly affects leisure, especially outdoor activities, like birding, which can be recognized as serious leisure. Outdoor attractive and feasible activities throughout the year, also in adverse weather conditions, are extremely sought after by therapists and leisure organizers. Then, we asked 388 Polish birders how their activity was related to weather and then analyzed how experience, age and gender may modify birding behavior. As might be predicted, more advanced birders not only ignored bad weather but also enjoyed observations during storms and other bad weather events. We discuss how teaching birding and making this activity are potentially useable for leisure organizations, and they may recommend birding places as available also during bad weather. Obviously, our study has limits: a correlational character and the results were obtained in the temperate zone of Europe, and the situation in other places in the globe may look much different.
Suitability of R. pulmo Jellyfish-Collagen-Coated Well Plates for Cytocompatibility Analyses of Biomaterials
2023-02-03

Cytocompatibility analyses of new implant materials or biomaterials are not only prescribed by the Medical Device Regulation (MDR), as defined in the DIN ISO Norm 10993-5 and -12, but are also increasingly replacing animal testing. In this context, jellyfish collagen has already been established as an alternative to mammalian collagen in different cell culture conditions, but a lack of knowledge exists about its applicability for cytocompatibility analyses of biomaterials. Thus, the present study was conducted to compare well plates coated with collagen type 0 derived from Rhizostoma pulmo with plates coated with bovine and porcine collagen. The coated well plates were analysed in vitro for their cytocompatibility, according to EN ISO 10993-5/−12, using both L929 fibroblasts and MC3T3 pre-osteoblasts. Thereby, the coated well plates were compared, using established materials as positive controls and a cytotoxic material, RM-A, as a negative control. L929 cells exhibited a significantly higher viability (#### p &lt; 0.0001), proliferation (## p &lt; 0.01), and a lower cytotoxicity (## p &lt; 0.01 and # p &lt; 0.05)) in the Jellagen® group compared to the bovine and porcine collagen groups. MC3T3 cells showed similar viability and acceptable proliferation and cytotoxicity in all collagen groups. The results of the present study revealed that the coating of well plates with collagen Type 0 derived from R. pulmo leads to comparable results to the case of well plates coated with mammalian collagens. Therefore, it is fully suitable for the in vitro analyses of the cytocompatibility of biomaterials or medical devices.
The COVID-19 Pandemic and Chinese Trade Relations
2023-02-03

Abstract This paper presents an analysis of the effects of non-pharmaceutical interventions on countries’ bilateral trade with China. Our panel regression results suggest a reduction in monthly Chinese exports to countries that introduced more stringent lockdown measures. We extend our analysis by decomposing observed trade flows into gravity and residual trade components. More stringent lockdowns are associated with less residual trade. Moreover, an event study approach reveals a negative effect of the Covid-19 outbreak in China but this effect vanishes after only 2 months.
Navigating the Social Environment: Linking Motivations, Impressions, and Behaviors Via Sampling Approach
2023-02-03

Our current understanding of impression formation is based on experiments in which participants have no control over the information they receive. This limits the ecological realism of experimental situations upon which scientific claims are based. We present a research paradigm that gives participants control over the information search by allowing them to collect their own information samples. The present work investigates how people explore the social environment and how the sampled information informs the impressions that people form. Four experiments tested theoretically driven predictions related to information sampling patterns under interested and disinterested information search targeting the trustworthiness of several social targets. Under interested information search, we documented the early truncation of the sampling of social targets that showed untrustworthy behavior early on. Under disinterested information search, participants sampled the social targets more extensively and systematically, avoiding small sample biases. Our experiments further show that, once obtained, the sampled information accurately determines the final impression. Moreover, we document a direct link between the sampled information and subsequent behaviors consisting of trustworthiness predictions and choosing a partner with whom to play a trust game. By investigating the emergence of trustworthiness impressions by means of sampling, the present research informs two lines of research, the origins of trustworthiness and sampling accounts of judgment and decision-making.
Structure-based discovery of thiosemicarbazones as SARS-CoV-2 main protease inhibitors
2023-02-03

Those files comprise trajectories of MD simulations of Mpro dimers in presence of covalently bound ligands of interest. We also provide the data for the simulation interactions and RMSD/RMSF as raw data here enclosed. Methods and ligand specifications are provided in the respective manuscript.Trajectories were generated in Desmond and are provided in this format, alternative formats or specific frames are available upon request.
Report on 2206.14167v3
2023-02-03

We introduce a new universal framework describing fluctuations and correlations in quantum and classical many-body systems, at the Euler hydrodynamic scale of space and time.The framework adapts the ideas of the conventional macroscopic fluctuation theory (MFT) to systems that support ballistic transport.The resulting "ballistic MFT" (BMFT) is solely based on the Euler hydrodynamics data of the many-body system.Within this framework, mesoscopic observables are classical random variables depending only on the fluctuating conserved densities, and Euler-scale fluctuations are obtained by deterministically transporting thermodynamic fluctuations via the Euler hydrodynamics.Using the BMFT, we show that long-range correlations in space generically develop over time from long-wavelength inhomogeneous initial states in interacting models.This result, which we verify by numerical calculations, challenges the long-held paradigm that at the Euler scale, fluid cells may be considered uncorrelated.We also show that the Gallavotti-Cohen fluctuation theorem for non-equilibrium ballistic transport follows purely from time-reversal invariance of the Euler hydrodynamics.We check the validity of the BMFT by applying it to integrable systems, and in particular the hard-rod gas, with extensive simulations that confirm our analytical results.
Transferability of Covariates to Predict Soil Organic Carbon in Cropland Soils
2023-02-04

Precise knowledge about the soil organic carbon (SOC) content in cropland soils is one requirement to design and execute effective climate and food policies. In digital soil mapping (DSM), machine learning algorithms are used to predict soil properties from covariates derived from traditional soil mapping, digital elevation models, land use, and Earth observation (EO). However, such DSM models are trained for a specific dataset and region and have so far only allowed limited general statements to be made that would enable the models to be transferred to different regions. In this study, we test the transferability of SOC models for cropland soils using five different covariate groups: multispectral soil reflectance composites (satellite), soil legacy data (soil), digital elevation model derivatives (terrain), climate parameters (climate), and combined models (combined). The transferability was analyzed using data from two federal states in southern Germany: Bavaria and Baden-Wuerttemberg. First, baseline models were trained for each state with combined models performing best in both cases (R2 = 0.68/0.48). Next, the models were transferred and tested with soil samples from the other state whose data were not used during model calibration. Only satellite and combined models were transferable, but accuracy declined in both cases. In the final step, models were trained with samples from both states (mixed-data models) and applied to each state separately. This process significantly improved the accuracies of satellite, terrain, and combined models, while it showed no effect on climate models and decreased the models based on soil covariates. The experiment underlines the importance of EO for the transfer and extrapolation of DSM models.
The Non-JAZ TIFY Protein TIFY8 of Arabidopsis thaliana Interacts with the HD-ZIP III Transcription Factor REVOLUTA and Regulates Leaf Senescence
2023-02-04

The HD-ZIP III transcription factor REVOLUTA (REV) is involved in early leaf development, as well as in leaf senescence. REV directly binds to the promoters of senescence-associated genes, including the central regulator WRKY53. As this direct regulation appears to be restricted to senescence, we aimed to characterize protein-interaction partners of REV which could mediate this senescence-specificity. The interaction between REV and the TIFY family member TIFY8 was confirmed by yeast two-hybrid assays, as well as by bimolecular fluorescence complementation in planta. This interaction inhibited REV’s function as an activator of WRKY53 expression. Mutation or overexpression of TIFY8 accelerated or delayed senescence, respectively, but did not significantly alter early leaf development. Jasmonic acid (JA) had only a limited effect on TIFY8 expression or function; however, REV appears to be under the control of JA signaling. Accordingly, REV also interacted with many other members of the TIFY family, namely the PEAPODs and several JAZ proteins in the yeast system, which could potentially mediate the JA-response. Therefore, REV appears to be under the control of the TIFY family in two different ways: a JA-independent way through TIFY8, which controls REV function in senescence, and a JA-dependent way through PEAPODs and JAZ proteins.
The trilinear Higgs self-couplings at $$\\mathcal {O}(\\alpha _t^2)$$ in the CP-violating NMSSM
2023-02-04

Abstract In supersymmetric theories the Higgs boson masses are derived quantities where higher-order corrections have to be included in order to match the measured Higgs mass value at the precision of current experiments. Closely related through the Higgs potential are the Higgs self-interactions. In addition, the measurement of the trilinear Higgs self-coupling provides the first step towards the reconstruction of the Higgs potential and the experimental verification of the Higgs mechanism sui generis . In this paper, we advance our prediction of the trilinear Higgs self-couplings in the CP-violating Next-to-Minimal Supersymmetric extension of the SM (NMSSM). We provide the <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>O</mml:mi> <mml:mo>(</mml:mo> <mml:msubsup> <mml:mi>α</mml:mi> <mml:mi>t</mml:mi> <mml:mn>2</mml:mn> </mml:msubsup> <mml:mo>)</mml:mo> </mml:mrow> </mml:math> corrections in the gaugeless limit at vanishing external momenta. The higher-order corrections turn out to be larger than the corresponding mass corrections but show the expected perturbative convergence. The inclusion of the loop-corrected effective trilinear Higgs self-coupling in gluon fusion into Higgs pairs and the estimate of the theoretical uncertainty due to missing higher-order corrections indicate that the missing electroweak higher-order corrections may be significant.
On a large-stepsize integrator for charged-particle dynamics
2023-02-04

Abstract Xiao and Qin (Comput Phys Commun 265:107981, 2021) recently proposed a remarkably simple modification of the Boris algorithm to compute the guiding centre of the highly oscillatory motion of a charged particle with step sizes that are much larger than the period of gyrorotations. They gave strong numerical evidence but no error analysis. This paper provides an analysis of the large-stepsize modified Boris method in a setting that has a strong non-uniform magnetic field and moderately bounded velocities, considered over a fixed finite time interval. The error analysis is based on comparing the modulated Fourier expansions of the exact and numerical solutions, for which the differential equations of the dominant terms are derived explicitly. Numerical experiments illustrate and complement the theoretical results.
Optimized testing strategy for the diagnosis of GAA-FGF14ataxia
2023-02-04

Abstract Background Dominantly inherited GAA repeat expansions in FGF14 are a common cause of spinocerebellar ataxia (GAA- FGF14 ataxia; SCA27B, late-onset). Molecular confirmation of FGF14 GAA repeat expansions has thus far mostly relied on long-read sequencing, a technology that is not yet widely available in clinical laboratories. Methods We developed and validated a strategy to detect FGF14 GAA repeat expansions using long-range PCR, bidirectional repeat-primed PCRs, and Sanger sequencing. We compared this strategy to targeted nanopore sequencing in a cohort of 22 French Canadian patients and next validated it in a cohort of 53 French index patients with unsolved ataxia. Results Diagnosis was accurately confirmed for all 22 French Canadian patients using this strategy. Method comparison showed that capillary electrophoresis of long-range PCR products significantly underestimated expansion sizes compared to nanopore sequencing (slope, 0.87 [95% CI, 0.81 to 0.93]; intercept, 14.58 [95% CI, -2.48 to 31.12]) and gel electrophoresis (slope, 0.84 [95% CI, 0.78 to 0.97]; intercept, 21.34 [95% CI, -27.66 to 40.22]). The latter techniques yielded similar size estimates. Following calibration with internal controls, expansion size estimates were similar between capillary electrophoresis and nanopore sequencing (slope: 0.98 [95% CI, 0.92 to 1.04]; intercept: 10.62 [95% CI, -7.49 to 27.71]), and gel electrophoresis (slope: 0.94 [95% CI, 0.88 to 1.09]; intercept: 18.81 [95% CI, -41.93 to 39.15]). We identified 9 French patients (9/53; 17%) and 2 of their relatives who carried an FGF14 (GAA) ≥250 expansion. Conclusion This novel strategy reliably detected and sized FGF14 GAA expansions. It compared favorably to long-read sequencing and can readily be implemented in clinical laboratories.
Update on state‐of‐the‐art for arterial spin labeling (ASL) human perfusion imaging outside of the brain
2023-02-06

Abstract This review article provides an overview of developments for arterial spin labeling (ASL) perfusion imaging in the body (i.e., outside of the brain). It is part of a series of review/recommendation papers from the International Society for Magnetic Resonance in Medicine (ISMRM) Perfusion Study Group. In this review, we focus on specific challenges and developments tailored for ASL in a variety of body locations. After presenting common challenges, organ‐specific reviews of challenges and developments are presented, including kidneys, lungs, heart (myocardium), placenta, eye (retina), liver, pancreas, and muscle, which are regions that have seen the most developments outside of the brain. Summaries and recommendations of acquisition parameters (when appropriate) are provided for each organ. We then explore the possibilities for wider adoption of body ASL based on large standardization efforts, as well as the potential opportunities based on recent advances in high/low‐field systems and machine‐learning. This review seeks to provide an overview of the current state‐of‐the‐art of ASL for applications in the body, highlighting ongoing challenges and solutions that aim to enable more widespread use of the technique in clinical practice.
The significance of margins in pediatric Non‐Rhabdomyosarcoma soft tissue sarcomas: Consensus on surgical margin definition harmonization from the INternational Soft Tissue SaRcoma ConsorTium (INSTRuCT)
2023-02-06

Abstract Background Margin status following surgery in children, adolescents, and young adults with soft tissue sarcomas is controversial and has been defined differently by various specialties, with definitions changing over time and by cooperative group. The International Soft Tissue Sarcoma Consortium (INSTRuCT) is a collaboration of the Children's Oncology Group (COG) Soft Tissue Sarcoma Committee, European pediatric Soft Tissue sarcoma Study Group (EpSSG), and the European Cooperative Weichteilsarkom Studiengruppe (CWS) devoted to improving patient outcomes by pooling and mining cooperative group clinical trial data. Methods The INSTRuCT non‐rhabdomyosarcoma soft tissue sarcoma (NRSTS) working group aimed to develop international harmonized recommendations regarding surgical margin assessment and definitions in children and adolescents with soft tissue tumors. Results and Conclusion This review addresses accepted principles and areas of controversy, including the perspectives of surgeons, pathologists, radiation oncologists, and pediatric oncologists, to develop a framework for building common guidelines for future research.