Miracle-dz/UniFAR-FTUs huggingface dataset:
Asthma and risk of infection, hospitalization, ICU admission and mortality from COVID-19: Systematic review and meta-analysis

Abstract Objective As COVID-19 spreads across the world, there are concerns that people with asthma are at a higher risk of acquiring the disease, or of poorer outcomes. This systematic review aimed to summarize evidence on the risk of infection, severe illness and death from COVID-19 in people with asthma. Data sources and study selection A comprehensive search of electronic databases including preprint repositories and WHO COVID-19 database was conducted (until 26 May 2020). Studies reporting COVID-19 in people with asthma were included. For binary outcomes, we performed Sidik-Jonkman random effects meta-analysis. We explored quantitative heterogeneity by subgroup analyses, meta regression and evaluating the I2 statistic. Results Fifty-seven studies with an overall sample size of 587 280 were included. The prevalence of asthma among those infected with COVID-19 was 7.46% (95% CI = 6.25–8.67). Non-severe asthma was more common than severe asthma (9.61% vs. 4.13%). Pooled analysis showed a 14% risk ratio reduction in acquiring COVID-19 (95% CI = 0.80–0.94; p < 0.0001) and 13% reduction in hospitalization with COVID-19 (95% CI = 0.77–0.99, p = 0.03) for people with asthma compared with those without. There was no significant difference in the combined risk of requiring admission to ICU and/or receiving mechanical ventilation for people with asthma (RR = 0.87 95% CI = 0.94–1.37; p = 0.19) and risk of death from COVID-19 (RR = 0.87; 95% CI = 0.68–1.10; p = 0.25). Conclusion The findings from this study suggest that the prevalence of people with asthma among COVID-19 patients is similar to the global prevalence of asthma. The overall findings suggest that people with asthma have a lower risk than those without asthma for acquiring COVID-19 and have similar clinical outcomes. Abbreviations: ACE-2: angiotensin-converting-enzyme-2; CDC: United States Center for Disease Control and Prevention; COPD: chronic obstructive pulmonary disease; COVID-19: coronavirus disease 2019; ICU: intensive care unit; ICS: inhaled corticosteroids; MERS: Middle East Respiratory Syndrome; RRR: relative risk reduction; SARS-CoV-1: severe acute respiratory syndrome coronavirus 1; SARS-CoV-2: severe acute respiratory syndrome coronavirus 2
Composite Epstein-Barr Virus-associated T-lymphoblastic and Peripheral T-cell Lymphomas: A Clonal Study

A 30-year-old woman was diagnosed with T-lymphoblastic lymphoma (T-LBL) that harbored a clonal Epstein-Barr virus (EBV) genome. At relapse, axillary lymph node adenopathy, which was diagnosed as peripheral T-cell lymphoma, not otherwise specified (PTCL-NOS), was detected. Southern blot analyses of the T-cell receptor and EBV genome revealed that the T-LBL and PTCL-NOS were clonally identical. We previously showed that CD21 acted as an entry molecule that allowed EBV into the patient's T-LBL cells. Interestingly, the PTCL-NOS cells lacked CD21 expression. Our case suggests that EBV might infect immature CD21-positive T-cells, and CD21-negative PTCL-NOS might subsequently arise through phenotypic changes.
Grey matter alterations in restless legs syndrome: A coordinate‐based meta‐analysis

Brain structural abnormalities in idiopathic restless legs syndrome have long been debated. Voxel‐based morphometry is an objective structural magnetic resonance imaging technique to investigate regional grey matter volume or density differences between groups. In the last decade, voxel‐based morphometry studies have exhibited inconsistent and conflicting findings regarding the presence and localization of brain grey matter alterations in restless legs syndrome. We therefore conducted a coordinate‐based meta‐analysis to quantitatively examine whether there were consistent grey matter findings in restless legs syndrome using the latest algorithms, seed‐based d mapping with permutation of subject images. We included 12 voxel‐based morphometry studies (13 datasets, 375 patients and 385 healthy controls). Our coordinate‐based meta‐analysis did not identify evidence of consistent grey matter alterations in restless legs syndrome. Grey matter alterations via voxel‐based morphometry analysis are not therefore recommended to be used as a reliable surrogate neuroimaging marker for restless legs syndrome. This lack of consistency may be attributed to differences in sample size, genetics, gender distribution and age at onset, clinical heterogeneity (clinical course, anatomical distribution of symptoms, disease severity, disease duration, abnormal sensory profiles and comorbidity), and variations in imaging acquisition, data processing and statistical strategies. Longitudinal studies with multimodal neuroimaging techniques are needed to determine whether structural changes are dynamic and secondary to functional abnormalities.
Recent Advances in Functional Materials through Cellulose Nanofiber Templating

Advanced templating techniques have enabled delicate control of both nano‐ and microscale structures and have helped thrust functional materials into the forefront of society. Cellulose nanomaterials are derived from natural polymers and show promise as a templating source for advanced materials. Use of cellulose nanomaterials in templating combines nanoscale property control with sustainability, an attribute often lacking in other templating techniques. Use of cellulose nanofibers for templating has shown great promise in recent years, but previous reviews on cellulose nanomaterial templating techniques have not provided extensive analysis of cellulose nanofiber templating. Cellulose nanofibers display several unique properties, including mechanical strength, porosity, high water retention, high surface functionality, and an entangled fibrous network, all of which can dictate distinctive aspects in the final templated materials. Many applications exploit the unique aspects of templating with cellulose nanofibers that help control the final properties of the material, including, but not limited to, applications in catalysis, batteries, supercapacitors, electrodes, building materials, biomaterials, and membranes. A detailed analysis on the use of cellulose nanofibers templating is provided, addressing specifically how careful selection of templating mechanisms and methodologies, combined toward goal applications, can be used to directly benefit chosen applications in advanced functional materials.
Ionic Transport in CsNO2-Based Nanocomposites with Inclusions of Surface Functionalized Nanodiamonds

Composite solid electrolytes (1 − x)CsNO2-xND, where ND are nanodiamonds, including those after liquid-phase and gas-phase oxidation and reduction functionalization, were prepared, and their properties investigated by XRD, analysis of BET nitrogen adsorption isotherms, IR spectroscopy and impedance spectroscopy. The electrical conductivity of composites (1 − x)CsNO2-xND obeys the Arrhenius dependence and has a maximum at x = 0.95 regardless of the ND pretreatment. It was found that the conductivity depends on the mode of functionalization of the ND surface, as well as on the processing time. The electrical conductivity of composites with ND, processed by the gas-phase method, is 1.5–2.6 times higher than that of composites with initial ND, in which the conductivity is 2 orders of magnitude higher than that of pure cesium nitrate. Thus, the possibility of using ND as an effective heterogeneous additive for the preparation of composite solid electrolytes, including cesium nitrite, has been demonstrated for the first time.
Characterization of Bacterial Communities of Cold-Smoked Salmon during Storage

Cold-smoked salmon is a widely consumed ready-to-eat seafood product that is a fragile commodity with a long shelf-life. The microbial ecology of cold-smoked salmon during its shelf-life is well known. However, to our knowledge, no study on the microbial ecology of cold-smoked salmon using next-generation sequencing has yet been undertaken. In this study, cold-smoked salmon microbiotas were investigated using a polyphasic approach composed of cultivable methods, V3—V4 16S rRNA gene metabarcoding and chemical analyses. Forty-five cold-smoked salmon products processed in three different factories were analyzed. The metabarcoding approach highlighted 12 dominant genera previously reported as fish spoilers: Firmicutes Staphylococcus, Carnobacterium, Lactobacillus, β-Proteobacteria Photobacterium, Vibrio, Aliivibrio, Salinivibrio, Enterobacteriaceae Serratia, Pantoea, γ-Proteobacteria Psychrobacter, Shewanella and Pseudomonas. Specific operational taxonomic units were identified during the 28-day storage study period. Operational taxonomic units specific to the processing environment were also identified. Although the 45 cold-smoked salmon products shared a core microbiota, a processing plant signature was found. This suggest that the bacterial communities of cold-smoked salmon products are impacted by the processing environment, and this environment could have a negative effect on product quality. The use of a polyphasic approach for seafood products and food processing environments could provide better insights into residential bacteria dynamics and their impact on food safety and quality.
Global tree intrinsic water use efficiency is enhanced by increased atmospheric CO2 and modulated by climate and plant functional types

Significance Changes in tree physiology driven by environmental change can alter the balance of forest ecosystem carbon and water fluxes. We performed a meta-analysis of published tree ring literature, comprising 36 different species across 84 sites globally, to show stimulated leaf photosynthesis, not reduced stomatal conductance, is primarily responsible for recently increasing tree intrinsic water use efficiency (iWUE), which integrates the balance between carbon and water fluxes. Furthermore, we show trends in tree iWUE are similar in magnitude to the increase in atmospheric CO2 over the 20th century and that climate interacts with CO2 to modulate tree iWUE. These findings will help to guide efforts of refining the role of forests in process-based models under future environmental change. We conducted a meta-analysis of carbon and oxygen isotopes from tree ring chronologies representing 34 species across 10 biomes to better understand the environmental drivers and physiological mechanisms leading to historical changes in tree intrinsic water use efficiency (iWUE), or the ratio of net photosynthesis (Anet) to stomatal conductance (gs), over the last century. We show a ∼40% increase in tree iWUE globally since 1901, coinciding with a ∼34% increase in atmospheric CO2 (Ca), although mean iWUE, and the rates of increase, varied across biomes and leaf and wood functional types. While Ca was a dominant environmental driver of iWUE, the effects of increasing Ca were modulated either positively or negatively by climate, including vapor pressure deficit (VPD), temperature, and precipitation, and by leaf and wood functional types. A dual carbon–oxygen isotope approach revealed that increases in Anet dominated the observed increased iWUE in ∼83% of examined cases, supporting recent reports of global increases in Anet, whereas reductions in gs occurred in the remaining ∼17%. This meta-analysis provides a strong process-based framework for predicting changes in tree carbon gain and water loss across biomes and across wood and leaf functional types, and the interactions between Ca and other environmental factors have important implications for the coupled carbon–hydrologic cycles under future climate. Our results furthermore challenge the idea of widespread reductions in gs as the major driver of increasing tree iWUE and will better inform Earth system models regarding the role of trees in the global carbon and water cycles.
The Assessment and Treatment of Sleep Abnormalities in Children and Adolescents with Autism Spectrum Disorder: A Review.

Objective To summarize causes, evaluation methods, and treatment of sleep disturbance in children and adolescents with autism spectrum disorder (ASD). Methods A narrative literature and synthesis approach was used. Results/Discussion Sleep disturbances in this population are common and include insomnia, parasomnias, circadian rhythm disorders, and sleep-related movement disorders. Multiple factors may contribute to the higher rates of sleep disturbances in persons with ASD. Unfortunately, there are not evidence-based guidelines specific for the management of these sleep disorders in this population. There is also a lack of controlled clinical studies. Nevertheless, assessment of sleep problems using both subjective and objective methods are recommended to develop an individualized approach. Behavioural interventions are preferred first line treatment for insomnia. As adjunctive measures, pharmacotherapy may be warranted and choice should be guided based on accompanying symptoms. The most commonly used pharmacotherapy for sleep disturbance, primarily insomnia, include melatonin and alpha agonists. Not all currently used medications are approved for use for children and adolescents.
Long-term Outcomes of Therapeutic Endoscopic Retrograde Cholangiopancreatography for Choledocholithiasis in Patients ≥90 Years Old: A Multicenter Retrospective Study

Objective The safety and prognosis of complete stone removal for the treatment of choledocholithiasis in older patients are unknown. This multicenter retrospective study assessed the outcomes of complete stone removal in elderly patients (≥90 years) with respect to the prognosis. Methods We divided patients who underwent endoscopic cholangiopancreatography for choledocholithiasis into two groups: complete stone removal or incomplete stone removal with plastic stent insertion. The patient characteristics, adverse events, number of endoscopic cholangiopancreatographies, overall survival rates, and disease-specific cumulative death were compared between the groups. Patients Two hundred and twenty-three participants ≥90 years old were included in the study, including 48 (22%) men and 175 (78%) women. The median age was 92 (range, 90-104) years old. There were 160 (72%) and 63 (28%) patients in the complete and incomplete groups, respectively. Results The age, performance status, comorbidities, severe complication rates, and stone diameter were comparable between the groups. The proportion of patients with at least 5 stones was significantly higher in the incomplete group than in the complete group [complete group: 8.1% (13/160) and incomplete group: 21% (13/63), p<0.01]. The overall survival rate was significantly higher in the complete group (p<0.01), while the disease-specific cumulative death rate was higher in the incomplete group (p<0.01). Conclusion Complete stone removal for choledocholithiasis may contribute to a better prognosis in elderly patients ≥90 years old.
Spinal AMPA receptors: Amenable players in central sensitization for chronic pain therapy?

ABSTRACT The activity-dependent trafficking of AMPA receptors (AMPAR) mediates synaptic strength and plasticity, while the perturbed trafficking of the receptors of different subunit compositions has been linked to memory impairment and to causing neuropathology. In the spinal cord, nociceptive-induced changes in AMPAR trafficking determine the central sensitization of the dorsal horn (DH): changes in AMPAR subunit composition compromise the balance between synaptic excitation and inhibition, rendering interneurons hyperexcitable to afferent inputs, and promoting Ca2+ influx into the DH neurons, thereby amplifying neuronal hyperexcitability. The DH circuits become over-excitable and carry out aberrant sensory processing; this causes an increase in pain sensation in central sensory pathways, giving rise to chronic pain syndrome. Current knowledge of the contribution of spinal AMPAR to the cellular mechanisms relating to chronic pain provides opportunities for developing target-based therapies for chronic pain intervention.
DNA Electrochemical Biosensors for In Situ Probing of Pharmaceutical Drug Oxidative DNA Damage

Deoxyribonucleic acid (DNA) electrochemical biosensors are devices that incorporate immobilized DNA as a molecular recognition element on the electrode surface, and enable probing in situ the oxidative DNA damage. A wide range of DNA electrochemical biosensor analytical and biotechnological applications in pharmacology are foreseen, due to their ability to determine in situ and in real-time the DNA interaction mechanisms with pharmaceutical drugs, as well as with their degradation products, redox reaction products, and metabolites, and due to their capacity to achieve quantitative electroanalytical evaluation of the drugs, with high sensitivity, short time of analysis, and low cost. This review presents the design and applications of label-free DNA electrochemical biosensors that use DNA direct electrochemical oxidation to detect oxidative DNA damage. The DNA electrochemical biosensor development, from the viewpoint of electrochemical and atomic force microscopy (AFM) characterization, and the bottom-up immobilization of DNA nanostructures at the electrode surface, are described. Applications of DNA electrochemical biosensors that enable the label-free detection of DNA interactions with pharmaceutical compounds, such as acridine derivatives, alkaloids, alkylating agents, alkylphosphocholines, antibiotics, antimetabolites, kinase inhibitors, immunomodulatory agents, metal complexes, nucleoside analogs, and phenolic compounds, which can be used in drug analysis and drug discovery, and may lead to future screening systems, are reviewed.
Body Part Regression With Self-Supervision

Body part regression is a promising new technique that enables content navigation through self-supervised learning. Using this technique, the global quantitative spatial location for each axial view slice is obtained from computed tomography (CT). However, it is challenging to define a unified global coordinate system for body CT scans due to the large variabilities in image resolution, contrasts, sequences, and patient anatomy. Therefore, the widely used supervised learning approach cannot be easily deployed. To address these concerns, we propose an annotation-free method named blind-unsupervised-supervision network (BUSN). The contributions of the work are in four folds: (1) 1030 multi-center CT scans are used in developing BUSN without any manual annotation. (2) the proposed BUSN corrects the predictions from unsupervised learning and uses the corrected results as the new supervision; (3) to improve the consistency of predictions, we propose a novel neighbor message passing (NMP) scheme that is integrated with BUSN as a statistical learning based correction; and (4) we introduce a new pre-processing pipeline with inclusion of the BUSN, which is validated on 3D multi-organ segmentation. The proposed method is trained on 1,030 whole body CT scans (230,650 slices) from five datasets, as well as an independent external validation cohort with 100 scans. From the body part regression results, the proposed BUSN achieved significantly higher median R-squared score (=0.9089) than the state-of-the-art unsupervised method (=0.7153). When introducing BUSN as a preprocessing stage in volumetric segmentation, the proposed pre-processing pipeline using BUSN approach increases the total mean Dice score of the 3D abdominal multi-organ segmentation from 0.7991 to 0.8145.
Retrosplenial Segregation Reflects the Navigation Load During Ambulatory Movement

Spatial navigation is a complex cognitive process based on vestibular, proprioceptive, and visualcues that are integrated and processed by an extensive network of brain areas. The retrosplenial complex (RSC) is an integral part of coordination and translation between spatial reference frames. Previous studies have demonstrated that the RSC is active during a spatial navigation tasks. The specifics of RSC activity under various navigation loads, however, are still not characterized. This study investigated the local information processed by the RSC under various navigation load conditions manipulated by the number of turns in the physical navigation setup. The results showed that the local information processed via the RSC, which was reflected by the segregation network, was higher when the number of turns increased, suggesting that RSC activity is associated with the navigation task load. The present findings shed light on how the brain processes spatial information in a physical navigation task.
L-Arginine Reduces Nitro-Oxidative Stress in Cultured Cells with Mitochondrial Deficiency

L-Arginine (L-ARG) supplementation has been suggested as a therapeutic option in several diseases, including Mitochondrial Encephalomyopathy, Lactic Acidosis, and Stroke-like syndrome (MELAS), arguably the most common mitochondrial disease. It is suggested that L-ARG, a nitric oxide (NO) precursor, can restore NO levels in blood vessels, improving cerebral blood flow. However, NO also participates in mitochondrial processes, such as mitochondrial biogenesis, the regulation of the respiratory chain, and oxidative stress. This study investigated the effects of L-ARG on mitochondrial function, nitric oxide synthesis, and nitro-oxidative stress in cell lines harboring the MELAS mitochondrial DNA (mtDNA) mutation (m.3243A>G). We evaluated mitochondrial enzyme activity, mitochondrial mass, NO concentration, and nitro-oxidative stress. Our results showed that m.3243A>G cells had increased NO levels and protein nitration at basal conditions. Treatment with L-ARG did not affect the mitochondrial function and mass but reduced the intracellular NO concentration and nitrated proteins in m.3243A>G cells. The same treatment led to opposite effects in control cells. In conclusion, we showed that the main effect of L-ARG was on protein nitration. Lowering protein nitration is probably involved in the mechanism related to L-ARG supplementation benefits in MELAS patients.
Harvesting Infrared Photons with Croconate Dyes

Excited-state properties of the croconate dyes were investigated with an aim to utilize them as light harvesting assemblies in the infrared (IR) region (λmax ∼ 865 nm and M−1 c−1 = (1.4−4.2) × 105 M−1 s−1). The excited singlet of the monomeric dye quickly deactivates (lifetime 4−7 ps) without undergoing intersystem crossing to generate triplet. The triplet excited-state produced via triplet–triplet energy transfer method show relatively long life (lifetime 7.2 µs). The dye molecules when deposited as thin film on optically transparent electrodes or on nanostructured TiO2 film form H-aggregates with a blue-shifted absorption maximum around 660 nm. The excitons formed upon excitation of the dye aggregates undergo charge separation at the TiO2 and SnO2 interface. The H-aggregates in the film are photoactive and produce anodic current (IPCE of 1.2% at 650 nm) when employed in a photoelectrochemical cell. Spectroscopic and photoelectrochemical experiments that highlight the usefulness of croconate dyes in IR l.
Randomization‐based inference in the presence of selection bias

For the analysis of clinical trials, the study participants are usually assumed to be representative sample of a target population. This assumption is rarely fulfilled in clinical trials, and particularly not if the sample size is small. In addition, covariate imbalances may affect the trial. Randomization tests provide a nonparametric analysis method of the treatment effect that does not rely on population‐based assumptions. We propose a nonparametric statistical model that yields a formal basis for randomization tests. We adapt the model for the presence of covariate imbalance in the form of selection bias and investigate the effects of bias on the rejection probability of the randomization test using Monte Carlo simulations. Finally, we show that ancillary statistics can be used to control for the influence of bias. We show that covariate imbalance leads to an inflation of the type I error probability. The proposed nonparametric model allows for the use of ancillary statistics that yield an unbiased adjusted randomization test.