Miracle-dz/UniFAR-FTUs huggingface dataset:
Improving Methods of Identifying Anaphylaxis for Medical Product Safety Surveillance Using Natural Language Processing and Machine Learning

Abstract We sought to determine whether machine learning and natural language processing (NLP) applied to electronic medical records could improve performance of automated health-care claims-based algorithms to identify anaphylaxis events using data on 516 patients with outpatient, emergency department, or inpatient anaphylaxis diagnosis codes during 2015–2019 in 2 integrated health-care institutions in the Northwest United States. We used one site’s manually reviewed gold-standard outcomes data for model development and the other’s for external validation based on cross-validated area under the receiver operating characteristic curve (AUC), positive predictive value (PPV), and sensitivity. In the development site 154 (64%) of 239 potential events met adjudication criteria for anaphylaxis compared with 180 (65%) of 277 in the validation site. Logistic regression models using only structured claims data achieved a cross-validated AUC of 0.58 (95% CI: 0.54, 0.63). Machine learning improved cross-validated AUC to 0.62 (0.58, 0.66); incorporating NLP-derived covariates further increased cross-validated AUCs to 0.70 (0.66, 0.75) in development and 0.67 (0.63, 0.71) in external validation data. A classification threshold with cross-validated PPV of 79% and cross-validated sensitivity of 66% in development data had cross-validated PPV of 78% and cross-validated sensitivity of 56% in external data. Machine learning and NLP-derived data improved identification of validated anaphylaxis events.
Dostarlimab for recurrent mismatch repair‐deficient endometrial cancer: A cost‐effectiveness study

Patients with recurrent endometrial cancer treated with carboplatin and paclitaxel whose disease progresses have few effective treatment options. Based on promising clinical trial data, the anti‐programmed cell death 1 (anti‐PD‐1) antibody dostarlimab was recently granted accelerated approval for endometrial cancer by the US Food and Drug Administration. We developed a decision model to examine the cost‐effectiveness of dostarlimab for patients with progressive/recurrent deficient mismatch repair (dMMR) endometrial cancer whose disease has progressed with first‐line chemotherapy.
Filaments, Bubbles, and Weak Shocks in the Gaseous Atmosphere of M87

We present the first results from a 500 ks Chandra ACIS-I observation of M87. At soft energies (0.5-1.0 keV), we detect filamentary structures associated with the eastern and southwestern X-ray and radio arms. Many filaments are spatially resolved with widths of ~300 pc. This filamentary structure is particularly striking in the eastern arm, where we suggest the filaments are outer edges of a series of plasma-filled, buoyant bubbles whose ages differ by ~6 × 106 yr. These X-ray structures may be influenced by magnetic filamentation. At hard energies (3.5-7.5 keV), we detect a nearly circular ring of outer radius 2.8' (13 kpc), which provides an unambiguous signature of a weak shock, driven by an outburst from the supermassive black hole (SMBH). The density rise in the shock is ρshock/ρ0 ≈ 1.3 (Mach number, M ≈ 1.2). The observed spectral hardening in the ring corresponds to a temperature rise Tshock/T0 ≈ 1.2, or M ≈ 1.2, in agreement with the Mach number derived independently from the gas density. Thus, for the first time, we detect gas temperature and density jumps associated with a classical shock in the atmosphere around a SMBH. We also detect two additional surface brightness edges and pressure enhancements at radii of ~0.6' and ~1'. The ~0.6' feature may be overpressurized thermal gas surrounding the relativistic plasma in the radio cocoon, the "piston," produced by the current episode of AGN activity. The overpressurized gas is surrounded by a cool gas shell. The ~1' feature may be an additional weak shock from a secondary outburst. In an earlier episode, the piston was responsible for driving the 2.8' shock.
A multiscale tissue assessment in a rat model of mild traumatic brain injury

Abstract Diffusion tensor imaging (DTI) has demonstrated the potential to assess the pathophysiology of mild traumatic brain injury (mTBI) but correlations of DTI findings and pathological changes in mTBI are unclear. We evaluated the potential of ex vivo DTI to detect tissue damage in a mild mTBI rat model by exploiting multiscale imaging methods, histology and scanning micro-X-ray diffraction (SμXRD) 35 days after sham-operation (n = 2) or mTBI (n = 3). There were changes in DTI parameters rostral to the injury site. When examined by histology and SμXRD, there was evidence of axonal damage, reduced myelin density, gliosis, and ultrastructural alterations in myelin that were ongoing at the experimental time point of 35 days postinjury. We assessed the relationship between the 3 imaging modalities by multiple linear regression analysis. In this analysis, DTI and histological parameters were moderately related, whereas SμXRD parameters correlated weakly with DTI and histology. These findings suggest that while DTI appears to distinguish tissue changes at the microstructural level related to the loss of myelinated axons and gliosis, its ability to visualize alterations in myelin ultrastructure is limited. The use of several imaging techniques represents a novel approach to reveal tissue damage and provides new insights into mTBI detection.
Infection density pattern of Cardinium affects the responses of bacterial communities in an invasive whitefly under heat conditions

Communities of bacteria, especially symbionts, are vital for the growth and development of insects and other arthropods, including Bemisia tabaci Mediterranean (MED), a destructive and invasive insect pest. However, the infection density patterns and influence factors of bacteria in whiteflies, which mainly include symbionts, remain largely unclear. To reveal the different density patterns of Cardinium in B. tabaci MED populations and the impacts of high temperatures on whiteflies with different Cardinium density infection patterns, 2 isofemale lines isolated from B. tabaci MED from the same geographical population of China and from B. tabaci MED collected from other countries and locations were examined using several techniques and methods, including fluorescence in situ hybridization (FISH), quantitative real‐time polymerase chain reaction (qPCR), 16S rRNA gene sequencing, and 2b‐RAD sequencing. The results showed that there were 2 different infection density patterns of Cardinium in B. tabaci MED (including 1 high‐density pattern and 1 low‐density pattern). For whiteflies with low‐density Cardinium, conventional PCR could not detect Cardinium, but the other techniques confirmed that there was a low level of Cardinium within hosts. High temperature significantly decreased the diversity of bacterial communities: the relative titer of Cardinium increased but the density of Rickettsia decreased in the isofemale line with high‐density Cardinium. However, high temperature did not influence the diversity and symbiont density in the line with low‐density Cardinium. Moreover, high temperature influenced the functions of bacterial communities in whiteflies with high‐density Cardinium but did not affect the bacterial functions in whiteflies with low‐density Cardinium. Our results provide novel insights into the complex associations between symbionts and host insects.
Some integrative management strategies to decrease doses of herbicides in agriculture

Over dose using of herbicides is one of the major problems in crops and horticulture productions. Human food safety and economical production of agricultural products are the main target of new agronomy and plant scientists. Integrative management is one of the new programs for reducing herbicide doses in agriculture. This program includes many physiological and physicochemical methods for controlling herbicide uses in farms and orchards. This article explain some of these methods such as using surfactants, water quality in spraying, using magnetic fields, controlling the nitrogen content of soil, using a suitable formulation and powerful cultivars and genotypes in agriculture and the effects of this reduction in herbicide doses on plants behavior and weeds controlling. According to this method integrative management can be beneficial in crop production and farmers must be using of this management method in their farms.
Demonstration of a ‘leapfrog’ randomized controlled trial as a method to accelerate the development and optimization of psychological interventions

Abstract Background The scale of the global mental health burden indicates the inadequacy not only of current treatment options, but also the pace of the standard treatment development process. The ‘leapfrog’ trial design is a newly-developed simple Bayesian adaptive trial design with potential to accelerate treatment development. A first leapfrog trial was conducted to provide a demonstration and test feasibility, applying the method to a low-intensity internet-delivered intervention targeting anhedonia. Methods At the start of this online, single-blind leapfrog trial, participants self-reporting depression were randomized to an initial control arm comprising four weeks of weekly questionnaires, or one of two versions of a four-week cognitive training intervention, imagery cognitive bias modification (imagery CBM). Intervention arms were compared to control on an ongoing basis via sequential Bayesian analyses, based on a primary outcome of anhedonia at post-intervention. Results were used to eliminate and replace arms, or to promote them to become the control condition based on pre-specified Bayes factor and sample size thresholds. Two further intervention arms (variants of imagery CBM) were added into the trial as it progressed. Results N = 188 participants were randomized across the five trial arms. The leapfrog methodology was successfully implemented to identify a ‘winning’ version of the imagery CBM, i.e. the version most successful in reducing anhedonia, following sequential elimination of the other arms. Conclusions The study demonstrates feasibility of the leapfrog design and provides a foundation for its adoption as a method to accelerate treatment development in mental health. Registration: clinicaltrials.gov, NCT04791137.
Implications of non-Markovian dynamics on information-driven engine

The understanding of memory effects arising from the interaction between system and environment is a key for engineering quantum thermodynamic devices beyond the standard Markovian limit. We study the performance of measurement-based thermal machine whose working medium dynamics is subject to backflow of information from the reservoir via collision based model. In this study, the non-Markovian effect is introduced by allowing for additional unitary interactions between the environments. We present two strategies of realizing non-Markovian dynamics and study their influence on the performance of the engine. Moreover, the role of system-environment memory effects on the engine work extraction and information gain through measurement can be beneficial in short time.
All-trans retinoic acid (ATRA) regulates key genes in the RARG-TOP2B pathway and reduces anthracycline-induced cardiotoxicity

The effectiveness of anthracycline chemotherapeutics (e.g., doxorubicin) is limited by anthracycline-induced cardiotoxicity (ACT). A nonsynonymous variant (S427L) in the retinoic acid receptor-γ (RARG) gene has been associated with ACT. This variant causes reduced RARG activity, which is hypothesized to lead to increased susceptibility to ACT through reduced activation of the retinoic acid pathway. This study explored the effects of activating the retinoic acid pathway using a RAR-agonist, all-trans retinoic acid (ATRA), in human cardiomyocytes and mice treated with doxorubicin. In human cardiomyocytes, ATRA induced the gene expression of RARs (RARG, RARB) and repressed the expression of topoisomerase II enzyme genes (TOP2A, TOP2B), which encode for the molecular targets of anthracyclines and repressed downstream ACT response genes. Importantly, ATRA enhanced cell survival of human cardiomyocytes exposed to doxorubicin. The protective effect of ATRA was also observed in a mouse model (B6C3F1/J) of ACT, in which ATRA treatment improved heart function compared to doxorubicin-only treated mice. Histological analyses of the heart also indicated that ATRA treatment reduced the pathology associated with ACT. These findings provide additional evidence for the retinoic acid pathway’s role in ACT and suggest that the RAR activator ATRA can modulate this pathway to reduce ACT.
Real-space dynamical mean-field theory of Friedel oscillations in strongly correlated electron systems

We study Friedel oscillations and screening effects of the impurity potential in the Hubbard model. Electronic correlations are accounted for by solving the real-space dynamical mean-field theory equations using the continuous time quantum Monte-Carlo simulations at finite temperatures and using a homogeneous self-energy approximation with the numerical renormalization group at zero temperature. We find that in the Fermi liquid phase both the amplitudes of Friedel oscillations and the screening charge decrease with increasing the interaction and follow the behavior of the Fermi liquid renormalization factor. Inside the Mott insulator regime the Friedel oscillations are absent but the residual screening charge remains finite.
Multiple tissue-specific epigenetic alterations regulate persistent gene expression changes following developmental DES exposure in mouse reproductive tissues

ABSTRACT Clinically, developmental exposure to the endocrine disrupting chemical, diethylstilboestrol (DES), results in long-term male and female infertility. Experimentally, developmental exposure to DES results in abnormal reproductive tract phenotypes in male and female mice. Previously, we reported that neonatal DES exposure causes ERα-mediated aberrations in the transcriptome and in DNA methylation in seminal vesicles (SVs) of adult mice. However, only a subset of DES-altered genes could be explained by changes in DNA methylation. We hypothesized that alterations in histone modification may also contribute to the altered transcriptome during SV development. To test this idea, we performed a series of genome-wide analyses of mouse SVs at pubertal and adult developmental stages in control and DES-exposed wild-type and ERα knockout mice. Neonatal DES exposure altered ERα-mediated mRNA and lncRNA expression in adult SV, including genes encoding chromatin-modifying proteins that can impact histone H3K27ac modification. H3K27ac patterns, particularly at enhancers, and DNA methylation were reprogrammed over time during normal SV development and after DES exposure. Some of these reprogramming changes were ERα-dependent, but others were ERα-independent. A substantial number of DES-altered genes had differential H3K27ac peaks at nearby enhancers. Comparison of gene expression changes, H3K27ac marks and DNA methylation marks between adult SV and adult uterine tissue from ovariectomized mice neonatally exposed to DES revealed that most of the epigenetic changes and altered genes were distinct in the two tissues. These findings indicate that the effects of developmental DES exposure cause reprogramming of reproductive tract tissue differentiation through multiple epigenetic mechanisms.
A numerical stabilization framework for viscoelastic fluid flow using the finite volume method on general unstructured meshes

A robust finite volume method for viscoelastic flow analysis on general unstructured meshes is developed. It is built upon a general‐purpose stabilization framework for high Weissenberg number flows. The numerical framework provides full combinatorial flexibility between different kinds of rheological models on the one hand, and effective stabilization methods on the other hand. A special emphasis is put on the velocity‐stress‐coupling on colocated computational grids. Using special face interpolation techniques, a semi‐implicit stress interpolation correction is proposed to correct the cell‐face interpolation of the stress in the divergence operator of the momentum balance. Investigating the entry‐flow problem of the 4:1 contraction benchmark, we demonstrate that the numerical methods are robust over a wide range of Weissenberg numbers and significantly alleviate the high Weissenberg number problem. The accuracy of the results is evaluated in a detailed mesh convergence study.
Search for the Identification of 3EG J1835+5918: Evidence for a New Type of High-Energy Gamma-Ray Source

The EGRET source 3EG J1835+5918 is the brightest and most accurately positioned of the as-yet unidentified high-energy γ-ray sources at high Galactic latitude (ℓ,b = 89°,25°). We present a multiwavelength study of the region around it, including X-ray, radio, and optical imaging surveys, as well as optical spectroscopic classification of most of the active objects in this area. Identifications are made of all but one of the ROSAT and ASCA sources in this region to a flux limit of approximately 5 × 10-14 ergs cm-2 s-1, which is 10-4 of the γ-ray flux. The identified X-ray sources in or near the EGRET error ellipse are radio-quiet QSOs, a galaxy cluster, and coronal emitting stars. We also find nine quasars using purely optical color selection, and we have monitored the entire field for variable optical objects on short and long timescales without any notable discoveries. The radio sources inside the error ellipse are all fainter than 4 mJy at 1.4 GHz. There are no flat-spectrum radio sources in the vicinity; the brightest neighboring radio sources are steep-spectrum radio galaxies or quasars. Since no blazar-like or pulsar-like candidate has been found as a result of these searches, 3EG J1835+5918 must be lacking one or more of the physically essential attributes of these known classes of γ-ray emitters. If it is an AGN it lacks the beamed emission radio of blazars by at least a factor of 100 relative to identified EGRET blazars. If it is an isolated neutron star, it lacks the steady thermal X-rays from a cooling surface and the magnetospheric nonthermal X-ray emission that is characteristic of all EGRET pulsars. If a pulsar, 3EG J1835+5918 must be either older or more distant than Geminga, and probably an even more efficient or beamed γ-ray engine. One intermittent ROSAT source falls on a blank optical field to a limit of B > 23.4, V > 25.2, and R > 24.5. In view of this conspicuous absence, RX J1836.2+5925 should be examined further as a candidate for identification with 3EG J1835+5918 and possibly the prototype of a new class of high-energy γ-ray source.
Is the combination of exercise therapy and health education more effective than usual medical care in the prevention of non-specific back pain? A systematic review with meta-analysis

Abstract Background Clinical practice guidelines emphasize the importance of the prevention and treatment of non-specific back pain through exercise therapy and health education. However, it has not yet been confirmed that the combination of exercise plus education is more effective than usual medical care. Objective The aim of this study was to determine if the combination of exercise plus education is more effective for the prevention of non-specific back pain than usual medical care. Materials and methods A systematic search in PubMed, Scopus, Web of Science and Medline was conducted with the terms Back Pain, Neck Pain, Musculoskeletal Pain, Exercise, Exercise Therapy, Health Education, Cognitive Behavioral Therapy, Primary Prevention, Secondary Prevention and Clinical Trial. The inclusion criteria were: articles published from 2016 to 2021, the intervention included exercise and education, and the sample consisted of non-specific back pain patients. Results A total of 4 randomized controlled trials were selected (average PEDro score 6.5 points). The meta-analysis showed statistically significant differences in the pain intensity, standardized mean differences was found to be −0.75 (95% CI = −1.41 to −0.08; p = 0.03); and in disability, standardized mean differences was found to be −0.24 (95% CI = −0.38 to −0.1; p = 0.001). Conclusions Interventions combining exercise and education seem to have a greater preventive effect on non-specific back pain than usual medical care. Key messages Exercise therapy and health education combination prevent better non-specific back pain than usual care. Combining exercise with educational interventions has a higher improvement on disability and kinesophobia than usual care.
High Resolution IRAS Maps and IR Emission of M31 -- II. Diffuse Component and Interstellar Dust

Large-scale dust heating and cooling in the diffuse medium of M31 is studied using the high resolution (HiRes) IRAS maps in conjunction with UV, optical (UBV), and the HI maps. A dust heating/cooling model is developed based on a radiative transfer model which assumes a 'Sandwich' configuration of dust and stars takes account of the effect of dust grain scattering.
Renal Transporter Alterations in Patients with Chronic Liver Diseases: Nonalcoholic Steatohepatitis, Alcohol-Associated, Viral Hepatitis, and Alcohol-Viral Combination

Alterations in hepatic transporters have been identified in precirrhotic chronic liver diseases (CLDs) that result in pharmacokinetic variations causing adverse drug reactions (ADRs). However, the effect of CLD on the expression of renal transporters is unknown despite the overwhelming evidence of kidney injury in CLD patients. This study determines the transcriptomic and proteomic expression profiles of renal drug transporters in patients with defined CLD etiology. Renal biopsies were obtained from patients with a history of CLD etiologies, including nonalcoholic fatty liver disease (NAFLD), nonalcoholic steatohepatitis (NASH), alcohol-associated liver disease (ALD), viral hepatitis C (HCV), and combination ALD/HCV. A significant decrease in organic anion transporter (OAT)-3 was identified in NASH, ALD, HCV, and ALD/HCV (1.56 ± 1.10; 1.01 ± 0.46; 1.03 ± 0.43; 0.86 ± 0.57 pmol/mg protein) relative to control (2.77 ± 1.39 pmol/mg protein). Additionally, a decrease was shown for OAT4 in NASH (24.9 ± 5.69 pmol/mg protein) relative to control (43.8 ± 19.9 pmol/mg protein) and in urate transporter 1 (URAT1) for ALD and HCV (1.56 ± 0.15 and 1.65 ± 0.69 pmol/mg protein) relative to control (4.69 ± 4.59 pmol/mg protein). These decreases in organic anion transporter expression could result in increased and prolonged systemic exposure to drugs and possible toxicity. Renal transporter changes, in addition to hepatic transporter alterations, should be considered in dose adjustments for CLD patients for a more accurate disposition profile. It is important to consider a multiorgan approach to altered pharmacokinetics of drugs prescribed to CLD patients to prevent ADRs and improve patient outcomes. SIGNIFICANCE STATEMENT Chronic liver diseases are known to elicit alterations in hepatic transporters that result in a disrupted pharmacokinetic profile for various drugs. However, it is unknown if there are alterations in renal transporters during chronic liver disease, despite strong indications of renal dysfunction associated with chronic liver disease. Identifying renal transporter expression changes in patients with chronic liver disease facilitates essential investigations on the multifaceted relationship between liver dysfunction and kidney physiology to offer dose adjustments and prevent adverse drug reactions.