Miracle-dz/UniFAR-FTUs huggingface dataset:
Efficient time stepping for numerical integration using reinforcement learning

Many problems in science and engineering require an efficient numerical approximation of integrals or solutions to differential equations. For systems with rapidly changing dynamics, an equidistant discretization is often inadvisable as it either results in prohibitively large errors or computational effort. To this end, adaptive schemes, such as solvers based on Runge--Kutta pairs, have been developed which adapt the step size based on local error estimations at each step. While the classical schemes apply very generally and are highly efficient on regular systems, they can behave sub-optimal when an inefficient step rejection mechanism is triggered by structurally complex systems such as chaotic systems. To overcome these issues, we propose a method to tailor numerical schemes to the problem class at hand. This is achieved by combining simple, classical quadrature rules or ODE solvers with data-driven time-stepping controllers. Compared with learning solution operators to ODEs directly, it generalises better to unseen initial data as our approach employs classical numerical schemes as base methods. At the same time it can make use of identified structures of a problem class and, therefore, outperforms state-of-the-art adaptive schemes. Several examples demonstrate superior efficiency. Source code is available at https://github.com/lueckem/quadrature-ML.
A bivariate likelihood approach for estimation of a pooled continuous effect size from a heteroscedastic meta-analysis study

The DerSimonian-Laird (DL) weighted average method has been widely used for estimation of a pooled effect size from an aggregated data meta-analysis study. It is mainly criticized for its underestimation of the standard error of the pooled effect size in the presence of heterogeneous study effect sizes. The uncertainty in the estimation of the between-study variance is not accounted for in the calculation of this standard error. Due to this negative property, many alternative estimation approaches have been proposed in literature. One approach was developed by Hardy and Thompson (HT), who implemented a profile likelihood approach instead of the moment-based approach of DL. Others have further extended the likelihood approach and proposed higher-order likelihood inferences (e.g., Bartlett-type corrections). Likelihood-based methods better address the uncertainty in estimating the between-study variance than the DL method, but all these methods assume that the withinstudy standard deviations are known and equal to the observed standard error of the study effect sizes. Here we treat the observed standard errors as estimators for the within-study variability and we propose a bivariate likelihood approach that jointly estimates the pooled effect size, the between-study variance, and the potentially heteroscedastic within-study variances. We study the performance of the proposed method by means of simulation, and compare it to DL, HT, and the higher-order likelihood methods. Our proposed approach appears to be less sensitive to the number of studies, and less biased in case of heteroscedasticity.
Broad-band spectral study of LMXB black hole candidate 4U 1957+11 with NuSTAR

We present here the results of broadband spectral analysis of a low-mass X-ray binary and a black hole candidate 4U 1957+11. The source was observed nine times with the Nuclear Spectroscopic Telescope Array (NuSTAR) between September 2018 and November 2019. During these observations, the spectral state of 4U 1957+11 evolved marginally. The disc dominant spectra are described well with a hot, multicolor disc blackbody with disc temperature varying in the range kT in ∼ 1.35–1.86 keV and a non-thermal component having a steep slope (Γ = 2–3). A broad Fe emission line feature (5–8 keV) was observed in the spectra of all the observations. The relativistic disc model was used to study the effect of distance, inclination and the black hole mass on its spin. Simulations indicate a higher spin for smaller distances and lower black hole masses. At smaller distances and higher masses, spin is maximum and almost independent of the distance. An inverse correlation exists between the spin and the spectral hardening factor for all the cases. The system prefers a moderate spin of about 0.85 for black hole masses between 4–6 M ⊙ for a 7 kpc distance.
The Implementation of Therapeutic Alliance in the Rehabilitation of an Elite Pediatric Athlete with Salter-Harris Fracture: A Case Report

Background/Purpose Although research on the value of therapeutic alliance is prominent in other areas of health care, physical therapy research is limited. The purpose is to describe the incorporation of therapeutic alliance concepts throughout the rehabilitation of an elite pediatric athlete with a complicated recovery following a fracture to the distal femoral epiphysis. Case Description A 14-year-old male was referred to physical therapy following an open reduction and internal fixation to address a type IV Salter-Harris fracture of the right distal femoral epiphysis. Post-operative care included immobilization in a brace for six weeks and he initiated physical therapy for four weeks (post-op weeks 6-10). At 10-weeks post-injury his range of motion and strength were severely limited compared to expected post-operative milestones. Due to these deficits an arthroscopic debridement of the subject’s right knee, hardware removal, and manipulation under anesthesia was performed. The subject then reported to the physical therapist on post-operative day three for evaluation and treatment without bracing or weight-bearing restrictions. Outcomes The episode of care spanned 17 weeks and included 25 physical therapy sessions. To facilitate therapeutic alliance with the subject, clear communication and easily measurable goals were established and connected to the subject’s relevant needs as an athlete. The plan of care was divided into three phases using “chunking” techniques to establish the rehabilitation priorities. The subject demonstrated improved range of motion, strength and was able to return to hydroplane racing and won a national championship in his age group. Discussion The unique aspect of this case was the incorporation of therapeutic alliance concepts and techniques into the rehabilitative management of a subject with a complicated fracture to the distal femoral epiphysis. The physical therapist built trust with the subject and facilitated a successful return to elite hydroplane boat racing. Level of Evidence 4 Study Design Case Report
Brain size variation along altitudinal gradients in the Asiatic Toad (Bufo gargarizans)

Abstract Size changes in brain and brain regions along altitudinal gradients provide insight into the trade‐off between energetic expenditure and cognitive capacity. We investigated the brain size variations of the Asiatic Toad (Bufo gargarizans) across altitudes from 700 m to 3,200 m. A total of 325 individuals from 11 sites and two transects were sampled. To reduce confounding factors, all sampling sites within each transect were within a maximum distance of 85 km and an altitudinal difference close to 2,000 m. Brains were dissected, and five regions were both measured directly and with 3D CT scan. There is a significant negative correlation between the relative whole‐brain volume (to snout‐vent length) and altitude. Furthermore, the relative volumes (to whole‐brain volume) of optic tectum and cerebellum also decrease along the altitudinal gradients, while the telencephalon increases its relative volume along the gradients. Therefore, our results are mostly consistent with the expensive brain hypothesis and the functional constraint hypothesis. We suggest that most current hypotheses are not mutually exclusive and data supporting one hypothesis are often partially consistent with others. More studies on mechanisms are needed to explain the brain size evolution in natural populations.
Thromboelastography-Guided Anticoagulant Therapy for the Double Hazard of Thrombohemorrhagic Events in COVID-19: A Report of 3 Cases

Case series Patients: Female, 72-year-old • Female, 55-year-old • Female, 43-year-old Final Diagnosis: COVID provoked thromboembolism • COVID-19 • pulmonary embolism • rectus sheath hematoma Symptoms: Cough • fever • shortness of breath Medication: — Clinical Procedure: — Specialty: Critical Care Medicine • Diagnostics, Laboratory • Hematology • Infectious Diseases Objective: Unusual clinical course Background: The novel coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), often manifests a coagulopathy in severely ill patients, which may cause hemorrhage and/or thrombosis of varying severity. This report comprises the cases of 3 patients with COVID-19-associated coagulopathy who were evaluated with thromboelastography (TEG) and activated partial thromboplastin time (aPTT) to enable personalized anticoagulant therapy. Case Reports: Three patients presented with COVID-19 pneumonia, confirmed by reverse transcription-polymerase chain reaction, who developed thrombohemorrhagic coagulopathy. Case 1: A 72-year-old woman on long-term warfarin therapy for a history of venous thromboembolism developed a right upper lobe pulmonary embolus, despite an international normalized ratio of 6.4 and aPTT of 120.7 s. TEG enabled successful anticoagulation with heparin, and her pulmonary infarct was no longer present 2 weeks later. Case 2: A 55-year-old woman developed a rectus sheath hematoma while on heparin, and TEG demonstrated increased fibrinolysis despite COVID-19 patients more commonly undergoing fibrinolytic shutdown. Case 3: A 43-year-old woman had significant thrombus burden while severely hypocoagulable according to laboratory testing. As the venous thrombi enlarged in a disseminated intravascular coagulopathic-like state, the heparin dose was escalated to achieve a target aPTT of 70 to 80 s, resulting in a flat line TEG tracing. Conclusions: These 3 cases of COVID-19 pneumonia with complex and varied clinical histories demonstrated the clinical value of TEG combined with the measurement of aPTT to facilitate personalized anticoagulation, resulting in good clinical outcomes.
Defining mechanical instability in tuberculosis of the spine: a systematic review

Over the years, a number of authors have used different working definitions of instability in tuberculosis of the spine (TB spine). However, no clear consensus exists to define instability in TB spine. The current systematic review addresses the question ‘What defines instability in TB spine’? A comprehensive medical literature search was carried out to identify all the studies which defined instability in the setting of spinal TB. The extracted data included the clinical, X-ray and CT or MRI-based definitions. The current review identified lesser age, junctional region of the spine, mechanical pain and ‘instability catch’, kyphotic deformity above 40 degrees, pan-vertebral or bilateral facetal involvement and multifocal contiguous disease involving more than three vertebrae as predictors for spinal instability in the dorso-lumbar spine. Cervical kyphosis more than 30 degrees and facetal or pan-vertebral involvement were found to be the factors used to define instability in subaxial cervical spine. With respect to C1–C2 TB spine, migration of the tip of the odontoid above the McRae or McGregor line or anterior translation of C1 over C2 were considered as determinants for instability. Although definitive conclusions could not be drawn due to lack of adequate evidence, the authors identified factors which may contribute towards instability in TB spine. Cite this article: EFORT Open Rev 2021;6:202-210. DOI: 10.1302/2058-5241.6. 200113
Prognostic model to identify and quantify risk factors for mortality among hospitalised patients with COVID-19 in the USA

Objectives To develop a prognostic model to identify and quantify risk factors for mortality among patients admitted to the hospital with COVID-19. Design Retrospective cohort study. Patients were randomly assigned to either training (80%) or test (20%) sets. The training set was used to fit a multivariable logistic regression. Predictors were ranked using variable importance metrics. Models were assessed by C-indices, Brier scores and calibration plots in the test set. Setting Optum de-identified COVID-19 Electronic Health Record dataset including over 700 hospitals and 7000 clinics in the USA. Participants 17 086 patients hospitalised with COVID-19 between 20 February 2020 and 5 June 2020. Main outcome measure All-cause mortality while hospitalised. Results The full model that included information on demographics, comorbidities, laboratory results, and vital signs had good discrimination (C-index=0.87) and was well calibrated, with some overpredictions for the most at-risk patients. Results were similar on the training and test sets, suggesting that there was little overfitting. Age was the most important risk factor. The performance of models that included all demographics and comorbidities (C-index=0.79) was only slightly better than a model that only included age (C-index=0.76). Across the study period, predicted mortality was 1.3% for patients aged 18 years old, 8.9% for 55 years old and 28.7% for 85 years old. Predicted mortality across all ages declined over the study period from 22.4% by March to 14.0% by May. Conclusion Age was the most important predictor of all-cause mortality, although vital signs and laboratory results added considerable prognostic information, with oxygen saturation, temperature, respiratory rate, lactate dehydrogenase and white cell count being among the most important predictors. Demographic and comorbidity factors did not improve model performance appreciably. The full model had good discrimination and was reasonably well calibrated, suggesting that it may be useful for assessment of prognosis.
Fertile Crescent crop progenitors gained a competitive advantage from large seedlings

Abstract Cereal domestication during the transition to agriculture resulted in widespread food production, but why only certain species were domesticated remains unknown. We tested whether seedlings of crop progenitors share functional traits that could give them a competitive advantage within anthropogenic environments, including higher germination, greater seedling survival, faster growth rates, and greater competitive ability. Fifteen wild grass species from the Fertile Crescent were grown individually under controlled conditions to evaluate differences in growth between cereal crop progenitors and other wild species that were never domesticated. Differences in germination, seedling survival, and competitive ability were measured by growing a subset of these species as monocultures and mixtures. Crop progenitors had greater germination success, germinated more quickly and had greater aboveground biomass when grown in competition with other species. There was no evidence of a difference in seedling survival, but seed size was positively correlated with a number of traits, including net assimilation rates, greater germination success, and faster germination under competition. In mixtures, the positive effect of seed mass on germination success and speed of germination was even more beneficial for crop progenitors than for other wild species, suggesting greater fitness. Thus, selection for larger seeded individuals under competition may have been stronger in the crop progenitors. The strong competitive ability of Fertile Crescent cereal crop progenitors, linked to their larger seedling size, represents an important ecological difference between these species and other wild grasses in the region. It is consistent with the hypothesis that competition within plant communities surrounding human settlements, or under early cultivation, benefited progenitor species, favoring their success as crops.
Microstructural characteristics of the stony coral genus Acropora useful to coral reef paleoecology and modern conservation

Abstract Identification of fossil corals is often limited due to poor preservation of external skeleton morphology, especially in the genus Acropora which is widespread across the Indo‐Pacific. Based on skeleton characteristics from thin section, we here develop a link between the internal skeleton structure and external morphology. Ten characteristics were summarized to distinguish Acropora and five related genera, including the type and differentiation of corallites, the skeleton nature of corallites (septa, columellae, dissepiments, wall), and calcification centers within septa. Acropora is distinctive for its dimorphic corallites: axial and radial. Isopora is similar to Acropora but possess more than a single axial corallites. Montipora and Astreopora (family Acroporidae) have monomorphic corallites and a synapticular ring wall, with clustered calcification center in the former and medial lines in the latter. Pocillopora and Porties are classified by distinctive dissepiments, columellae and septa. These microstructural skeleton characteristics were effective in the genus identification of fossil corals from drilled cores in the South China Sea. Eighteen detailed characteristics (ten of axial corallites, four of radial corallites, and four of coenosteum) were used in the Acropora species classification. The axial corallites size and structure (including corallite diameter, synapticular rings, and septa), the septa of radial corallites, and the arrangement of coenosteum were critical indicators for species identification. This identification guide can help paleoenvironmental and paleoecological analyses and modern coral reef conservation and restoration.
A snapshot study of the microbial community dynamics in naturally fermented cow’s milk

Abstract Natural fermentation of milk is a prerequisite in the production of traditional dairy products and is considered a bioresource of fermentative microorganisms and probiotics. To understand the microbial dynamics during distinct fermentative phases, the roles of different microbes, and the relationship between bacteria and fungi, microbial community dynamics was investigated by culture‐dependent and culture‐independent approaches. Natural, static fermentation of milk induces the formation of the underlying curds and the superficial sour cream (Zuohe in the Mongolian language). From an overall perspective, viable LAB increased remarkably. Yeast showed an initial increase in their abundance (from 0 hr to 24 hr), which was followed by a decrease, and mold was detected at the later stages of fermentation (after 68 hr). The observed trends in microbiota variation suggest an antagonistic interaction between bacteria (LAB) and fungi (yeast and mold). The beneficial bacterial and fungal genus and species (e.g., Lactococcus, Streptococcus, Leuconostoc, Dipodascus, Lactococcus lacti, Dipodascus australiensis) are gradually increased in concentration, and the potentially detrimental microbial genus and species (e.g., Acinetobacter, Pseudomonas, Fusarium, Aspergillus, Mortierella, Acinetobacter johnsonii, Fusarium solani) decrease during the decline of bacterial and fungi diversity from natural fermentation. The study of microbial community dynamics could make a great contribution to understand the mechanism of natural fermentation of milk and the formation of curds and Zuohe, and to discover the potentially fermentative microbes for industrial starter cultures.
Measuring temporal patterns in ecology: The case of mast seeding

Abstract Properly assessing temporal patterns is a central issue in ecology in order to understand ecosystem processes and their mechanisms. Mast seeding has traditionally been described as a reproductive behavior consisting of highly variable and synchronized reproductive events. The most common metric used to measure temporal variability and thus infer masting behavior, the coefficient of variation (CV), however, has been repeatedly suggested to improperly estimate temporal variability. Biases of CV estimates are especially problematic for non‐normally distributed data and/or data sets with a high number of zeros. Some recent studies have already adopted new metrics to measure temporal variability, but most continue to use CV. This controversy has started a strong debate about what metrics to use. We here summarize the problems of CV when assessing temporal variability, particularly across data sets containing a large number of zeros, and highlight the benefits of using other metrics of temporal variability, such as proportional variability (PV) and consecutive disparity (D). We also suggest a new way to look at reproductive behavior, by separating temporal variability from frequency of reproduction, to allow better comparison of data sets with different characteristics. We suggest future studies to properly describe the temporal patterns in fully scientific and measurable terms that do not lead to confusion, such as variability and frequency of reproduction, using robust and fully comparable metrics.
Optically transparent electrodes to study living cells: A mini review

The use of electrochemical methods to study living systems, including cells, has been of interest to researchers for a long time. Thus, controlling the polarization of the electrode contacting living cells, one can influence, for example, their proliferation or the synthesis of specific proteins. Moreover, the electrochemical approach formed the basis of the biocompatibility improvement of the materials contacting with body tissues that use in carbon hemosorbents and implants development. It became possible to reach a fundamentally new level in the study of cell activity with the introduction of optically transparent electrodes in this area. The advantage of the using of optically transparent electrodes is the possibility of simultaneous analysis of living cells by electrochemical and microscopic methods. The use of such materials allowed approaching to the study of the influence of the electrode potential on adhesion activity and morphology of the different cell types (HeLa cells, endothelial cell, etc.) more detailed. There are a negligible number of publications in this area despite the advantages of the usage of optically transparent electrodes to study living cells. This mini‐review is devoted to some aspects of the interaction of living cells with conductive materials and current advances in the use of optically transparent electrodes for the study of living cells, as well as the prospects for their use in cellular technologies.
MOLECULAR STRUCTURE OF TETRAKIS(1,2,5-THIADIAZOLO)-PORPHYRAZINATOZINC(II) IN GASEOUS PHASE

The molecular structures of gaseous zinc tetrakis(1,2,5-thiadiazolo)porphyrazine, [ZnTTDPz], and 1,2,5-thiadiazole3,4-dicarbonitrile, C4N4S, were studied by synchronous gas-phase electron diffraction and mass spectrometric experiment at T=587(5) °C in combination with quantum chemical calculations at theory level B3LYP/cc-pVTZ. The vapour over the sample at the temperature of experiment contained molecules of complex [ZnTTDPz] and 1,2,5-thiadiazole-3,4dicarbonitrile (C4N4S) having the molecular symmetry D4h and C2v, respectively. In contrast to the crystal structure, where Zn atom is displaced out of plane of the coordination moiety, the gaseous molecule [ZnTTDPz] has a planar structure. Geometry of the dinitrile C4N4S in the gas phase do not differ strongly from that in a crystal.