Miracle-dz/UniFAR-FTUs huggingface dataset:
A minority of somatically mutated genes in pre‐existing fatty liver disease have prognostic importance in the development of NAFLD

Understanding the genetics of liver disease has the potential to facilitate clinical risk stratification. We recently identified acquired somatic mutations in six genes and one lncRNA in pre‐existing fatty liver disease. We hypothesised that germline variation in these genes might be associated with the risk of developing steatosis and contribute to the prediction of disease severity.
Utilizing low oxygen to mitigate resistance of stored product insects to phosphine.

BACKGROUND Data are provided on the utilization of modified atmospheres, at a commercial scale, against stored product insect populations that are resistant to phosphine. The method is evaluated on different populations of two major stored-product beetle species, R. dominica and O. surinamensis. The trials were carried out in commercial facilities, on which nitrogen was introduced through an embedded nitrogen generator. Each chamber contained three or four pallets of either currants or herbs. A computational model was developed to evaluate the nitrogen concentration. RESULTS In most of the trials, 100% mortality was recorded for both beetle species and all populations, regardless of the temperature and exposure intervals tested. Control progeny production ranged between 20 and 45 adults per vial for R. dominica, and 29 and 27 adults per vial for O. surinamensis. Simulation results reveal that nitrogen can easily penetrate the currants, and its concentration is uniform (differences are below 1.5%) across the pallet. Additionally, the simulation model revealed that lower temperatures do not have an impact on the nitrogen concentration profiles. CONCLUSIONS The modified atmosphere applications evaluated here were proved to be effective for all populations, regardless of the level of resistance to phosphine, and any survival could be attributed to the short exposure intervals. Modified atmosphere applications can be effective at a considerably short exposure interval, even at 2.5 days, which is an incontestable advantage for the use of this method against insects, at exposures that are comparable with those of commercial fumigations. This article is protected by copyright. All rights reserved.
Effects of lifestyle behaviours and depressed mood on sleep quality in young adults. A machine learning approach

Abstract Background Modern lifestyles may lead to high stress levels, frequently associated with mood disorders (e.g. depressed mood) and sleep disturbance. The objective of this study was to develop a machine learning model aimed at identifying risk factors for developing poor sleep quality in young adults. Material and methods The sample consisted of 383 college-aged students (mean age ± SD: 21 ± 1 years; 61% males). Sleep quality, mood state, physical activity, number of sitting hours, and smartphone use were measured. Results A decision tree algorithm distinguished participants’ sleep quality with 74% accuracy using a combination of four features: depressed mood, physical activity, sitting time, and vigour. Together with depressed mood, both physical activity (>6432 metabolic equivalent tasks -METs- per week) and sedentary behaviour (sitting time greater than 7 h/day) were the primary features that could differentiate those with poor sleep quality from those with good sleep quality. Conclusions We provided a decision tree model with a sensitivity of 90.7% and a specificity of 54.3%, with an AUC of 0.725. These findings could promote improvements in prevention strategies and contribute to the development of meaningful and evidence-based intervention programs.
A study on several critical problems on arrhythmia detection using varying-dimensional electrocardiography

Objective. This work tries to provide answers to several critical questions on varying-dimensional electrocardiography (ECG) raised by the PhysioNet/Computing in Cardiology Challenge 2021 (CinC2021): can subsets of the standard 12 leads provide models with adequate information to give comparable performances for classifying ECG abnormalities? Can models be designed to be effective enough to classify a broad range of ECG abnormalities? Approach. To tackle these problems, we (challenge team name ‘Revenger’) propose several novel architectures within the framework of convolutional recurrent neural networks. These deep learning models are proven effective, and moreover, they provide comparable performances on reduced-lead ECGs, even in the extreme case of 2-lead ECGs. In addition, we propose a ‘lead-wise’ mechanism to facilitate parameter reuse of ECG neural network models. This mechanism largely reduces model sizes while keeping comparable performances. To further augment model performances on specific ECG abnormalities and to improve interpretability, we manually design auxiliary detectors based on clinical diagnostic rules. Main Results. In the post-challenge session, our approach achieved a challenge score of 0.38, 0.40, 0.41, 0.40, 0.35 on the 12, 6, 4, 3, 2-lead subsets respectively on the CinC2021 hidden test set. Significance. The proposed approach gives positive answers to the critical questions CinC2021 raises and lays a solid foundation for further research in the future on these topics.
Reconstitution of surface lipoprotein translocation through the Slam translocon

Surface lipoproteins (SLPs) are peripherally attached to the outer leaflet of the outer membrane in many Gram-negative bacteria, playing significant roles in nutrient acquisition and immune evasion in the host. While the factors that are involved in the synthesis and delivery of SLPs in the inner membrane are well characterized, the molecular machinery required for the movement of SLPs to the surface are still not fully elucidated. In this study, we investigated the translocation of a SLP TbpB through a Slam1-dependent pathway. Using purified components, we developed an in vitro translocation assay where unfolded TbpB is transported through Slam1-containing proteoliposomes, confirming Slam1 as an outer membrane translocon. While looking to identify factors to increase translocation efficiency, we discovered the periplasmic chaperone Skp interacted with TbpB in the periplasm of Escherichia coli. The presence of Skp was found to increase the translocation efficiency of TbpB in the reconstituted translocation assays. A knockout of Skp in Neisseria meningitidis revealed that Skp is essential for functional translocation of TbpB to the bacterial surface. Taken together, we propose a pathway for surface destined lipoproteins, where Skp acts as a holdase for Slam-mediated TbpB translocation across the outer membrane.
Measures of Maternal Metabolic Health as Predictors of Severely Low Milk Production

Background: A comprehensive approach to breastfeeding support requires elucidation of how metabolic health influences milk production. Objective: We compared metabolic health indicators in women with severely low milk output versus those with moderate/normal milk output using a case–control study design, with nested and external control groups. Design: Cases and nested controls were derived from women screened for a low milk supply trial, with cases defined as severely low milk output (<300 mL/24 hours), and nested controls defined as moderate/normal milk output (>300 mL/24 hours). In addition, we included an external control group of exclusively breastfeeding women. All were enrolled at 2–10 weeks postdelivery of a healthy term infant. Milk output and breast emptying frequency were recorded through test-weigh. Metabolic health variables included all components of the metabolic syndrome, homeostatic model assessment of insulin resistance (HOMA-IR), and diagnosis of gestational diabetes mellitus (GDM). Results: Maximum milk output, mL/24 hours, ranged as follows: 30–281 in cases (n = 18), 372–801 in nested controls (n = 12), and 661–915 in external controls (n = 12). Mean breast emptying frequency in cases was not significantly different from nested or external controls. All metabolic syndrome components and HOMA-IR were significantly worse in cases as compared with both nested and external control groups (p < 0.05). There was no significant difference between the nested and external control groups for these variables. GDM prevalence was 39%, 0%, and 8%, across cases, nested control, and external control groups, respectively (chi-square p-value = 0.02). Conclusion: Results from this small case–control study identify class 2+ obesity and poor metabolic health as strong risk factors for severely low milk production. These findings should be further validated in larger prospective cohort studies designed to identify individuals at risk for metabolically driven low milk supply. In addition, clinical and qualitative research studies aimed at improving patient-centered approaches to the management of persistent low milk supply are needed.
Anti-SARS-CoV-2 monoclonal antibodies for the treatment of active COVID-19 in multiple sclerosis: An observational study

Monoclonal antibodies (mAbs) against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) received emergency use authorization for the acute treatment of COVID-19. We are not aware of published data on their use in immunosuppressed people with multiple sclerosis (pwMS). We report 23 pwMS (mean age = 49 years, ocrelizumab (n = 19), fingolimod (n = 2), vaccinated with at least an initial series (n = 19)) who received mAb for acute COVID-19. Following mAb receipt, approximately half recovered in <7 days (48%). There were no adverse events or deaths. Use of mAb for pwMS treated with fingolimod or ocrelizumab was not observed to be harmful and is likely helpful for treatment of acute COVID-19.
Temperature-dependent population dynamics for Aedes aegypti in outdoor, indoor, and enclosed habitats: a mathematical model for five North American cities

Abstract A model for the Aedes aegypti lifecycle is developed that takes into account temperature-dependent maturation and death rates for several life stages, wet and dry egg oviposition with flooding, as well as three classes of larval habitat with different temperature profiles: outdoor (subject to external temperature fluctuations, human-inhabited), indoor (temperature moderated, human-inhabited, interior), and enclosed (temperature moderated, human free, exterior). An equilibrium analysis shows that the temperature range of outdoor viable equilibrium populations aligns closely with reported risk levels. Temperature patterns for El Paso, Texas; New York, New York; New Orleans, Louisiana; Orlando, Florida; and Miami, Florida, are considered. In four of these locations (all but New York), enclosed habitats can support mosquito populations even if all outdoor and indoor habitats are removed. In two locations (El Paso and New York) the model shows that in spite of the disappearance of adult mosquitoes during colder temperatures, populations reach seasonal steady state due to the survival of eggs. The results have implications for both vector and disease control.
Molecular genetic diversity and bioinformatic analysis of Leucocytozoon sabrazesi based on the mitochondrial genes cytb, coxI and coxIII and co-infection of Plasmodium spp.

Leucocytozoon sabrazesi is an intracellular haemoprotozoan parasite responsible for leucocytozoonosis, which is transmitted by insect vectors and affects chickens in tropical and subtropical areas in many countries. It causes huge economic losses due to decreased meat and egg production. In the present study, we used nested PCR to determine the genetic diversity of L. sabrazesi based on the cytb, coxI, coxIII and concatenated genes in chickens in Thailand. In addition, we found co-infections between L. sabrazesi and Plasmodium spp. (P. gallinaceum or P. juxtanucleare) in chickens that were not identified by microscopic examination of blood smears. The phylogenetic analysis indicated that L. sabrazesi cytb and coxIII genes were conserved with similarity ranging from 99.9 to 100% and 98 to 100%, respectively whereas the coxI gene was diverse, with similarities ranging from 97 to 100%. These findings ascertained the nucleotide analysis of the cytb, coxI, coxIII and concatenated sequences in which 4, 8, 10 and 9 haplotypes were found, respectively. In addition, it was found that the large number of synonymous substitutions and conservative amino acid replacements in these mitochondrial genes occurred by non-synonymous substitution. The evolutionary analysis of the Ka/Ks ratio supported purifying selection and the negative values of both Fu’s Fs and Tajima’s D indicate selective sweep especially for the coxI gene. The entropy and Simplot analysis showed that the genetic variation in populations of Plasmodium spp. was higher than in Leucocytozoon. Hence, the nucleotide sequences of three mitochondrial genes could reflect the evolutionary analysis and geographic distribution of this protozoan population that switches hosts during its life cycle.
Data driven trigger efficiency determination at LHCb

We demonstrate in detail the trigger efficiency evaluation of the LHCb trigger system purely on data with the so-called TISTOS method. The discussion includes an explicit overview of the uncertainty propagation. Additionally, we present a way to reduce the systematic uncertainty of the TISTOS method by binning the phase space. As an example, the binning is performed in the B meson phase space for B+→ J/ψK+ decays. A large sample of simulated events is used to determine the systematic uncertainties. Following the procedure discussed in this note, the trigger efficiency can be correctly determined for any dataset of sufficient size, including a realistic determination of systematic uncertainties. The developed method is used to measure the trigger efficiency of B+ → J/ψK+ events in a dataset corresponding to an integrated luminosity of 3 fb−1, collected in 2011 and 2012. The numerical values determined here have been used for the 3 fb−1 measurement of the branching fraction of the rare decay B0 s→ μ+μ− . c © CERN on behalf of the LHCb collaboration, license CC-BY-3.0.
High expression of H2A histone family member Y promotes the proliferation and autophagy of hepatocellular carcinoma cells

ABSTRACT Hepatocellular carcinoma is a common malignant tumor and the third most common cause of cancer-related deaths. In this study, we selected H2AFY as a potential oncogene from three online databases, and verified differential expression between normal and liver cancer tissues. Moreover, H2AFY expression was significantly correlated with the clinical characteristics and the survival of liver cancer patients. H2AFY expression was correlated with poor prognosis of liver cancer patients. H2AFY expression was also significantly higher in liver cancer cells. Knockdown and overexpression of H2AFY in liver cancer cells showed that H2AFY promoted the proliferation and clone formation of liver cancer cells but had no significant effects on the migration and invasion ability of liver cancer cells. Western blot analysis, immunohistochemistry, and immunofluorescence double staining confirmed that H2AFY upregulated LC3 and p62 expression in liver cancer tissues and cells. In conclusion, H2AFY is highly expressed in liver cancer cells and tissues, and promotes the proliferation and autophagy of liver cancer cells. H2AFY is a potential target for liver cancer therapy. Abbreviations: APLF: aprataxin pnk-like factor; HCC: Hepatocellular carcinoma; H2AFY: H2A histone family member Y Graphical abstract
Projected impact of change in the percentage of energy from each NOVA group intake on cardiovascular disease mortality in Brazil: a modelling study

Objective Estimate reductions in cardiovascular mortality achievable through improvement in nutrient intakes according to processing level (NOVA classification), that is, reducing consumption of culinary ingredients (G2), processed (G3) and ultra-processed foods (G4) while encouraging consumption of unprocessed and minimally processed foods (G1). Design Modelling study. Setting General adult population of Brazil. Participants Men and women aged 25 or more years (34 003) investigated in the Household Budget Survey 2017–2018, in the consumption data module. Main outcome measures We used the IMPACT Food Policy Model to estimate the reduction in deaths from cardiovascular diseases (CVD) up to 2048 in five scenarios with reductions in saturated fat, trans fat, salt and added sugar intakes resulting from changes in NOVA groups. (1) The optimistic scenario modelised an increase in the energy intake provided by G1 and a reduction in the energy intake from G2, G3 and G4, return to previous levels. (2) The minimal scenario modelised a 3.7% increase in the energy intake from G1, and a reduction in the energy intake from G4 to the 2008–2009 level. (3) The modest scenario only modelised a 25.0% reduction of the energy intake from G2 and G3. (4) The intermediary scenario modelised the minimal scenario plus a 25.0% reduction in the energy intake from G2. (5) Finally, the advanced scenario modelised the minimal scenario plus a 25.0% reduction in the energy intake from G2 and G3. Results Proposed changes in the optimistic scenario could prevent or delay 52.8% CVD-related deaths by 2048. Changes modelled in the minimal, modest, intermediary and advanced scenarios may result in a 10.1%, 28.4%, 31.4% and 38.6% reduction in 2048 CVD mortality, respectively. Conclusions Substantial health gains can be achieved by improving the diet, through plausible modifications aimed at the level of processing as a tool for Brazilian food policies.
Risk factors and medical resource utilization in US adults hospitalized with influenza or respiratory syncytial virus in the Hospitalized Acute Respiratory Tract Infection study

Influenza and respiratory syncytial virus (RSV) are associated with substantial morbidity and mortality in the United States. We assessed risk factors for severe disease and medical resource utilization (MRU) among US adults hospitalized with influenza or RSV in the Hospitalized Acute Respiratory Tract Infection (HARTI) study.
A Bayesian model with application for adaptive platform trials having temporal changes

Temporal changes exist in clinical trials. Over time, shifts in patients' characteristics, trial conduct, and other features of a clinical trial may occur. In typical randomized clinical trials, temporal effects, that is, the impact of temporal changes on clinical outcomes and study analysis, are largely mitigated by randomization and usually need not be explicitly addressed. However, temporal effects can be a serious obstacle for conducting clinical trials with complex designs, including the adaptive platform trials that are gaining popularity in recent medical product development. In this paper, we introduce a Bayesian robust prior for mitigating temporal effects based on a hidden Markov model, and propose a particle filtering algorithm for computation. We conduct simulation studies to evaluate the performance of the proposed method and provide illustration examples based on trials of Ebola virus disease therapeutics and hemostat in vascular surgery.
The solid variant of papillary thyroid carcinoma: a multi‐institutional retrospective study

The definition of papillary thyroid carcinoma, solid variant (PTC‐SV) varies from >50% to 100% of solid/trabecular/insular growth (STI). We aimed to identify prognostic factors and to establish an appropriate STI cutoff for PTC‐SV in this multi‐institutional study of 156 PTCs with STI.
Factors that predict the acceptance and adoption of smart home technology by seniors in Australia: a structural equation model with longitudinal data

ABSTRACT Smart Home Technology presents an exciting opportunity to support seniors living independently in their homes. Despite widespread interest in Smart Homes, seniors’ readiness to adopt Smart Home Technology is low. To determine the factors underpinning Australian seniors’ acceptance and adoption of Smart Home Technology using an extended UTAUT model that includes Trust, Resistance to Change and Technology Anxiety. A longitudinal study was conducted to validate the proposed model prior to and after the implementation of a pilot Smart Home Modification program for seniors. Structural Equation Modeling has been applied to test the proposed hypotheses using a sample of 60 seniors in regional Australia. Perceived Usefulness is an important predictor of Smart Home Technology adoption by seniors. Trust was found to indirectly predict adoption of Smart Home Technology via Perceived Usefulness. This study showed that Perceived Usefulness and Trust are critical factors for the acceptance and use of SHT by seniors, validating the extension of UTAUT with a Trust factor. This makes a unique theoretical contribution to the literature with implications for aged care providers and policymakers to consider seniors’ perceived usefulness and trust in the design, development, and implementation of Smart Home solutions.
Problems related to measuring the transmissibility of anti-vibration gloves: possible efficacy for impact tools used in mining and quarrying activities

This article takes into account some of the most relevant studies investigating the transmissibility of anti-vibration (AV) gloves. AV gloves are almost useless at the palm level in the low frequencies (<31.5 Hz), while they generally start to have an appreciable reduction of the vibration over 400 Hz. In their use with impact tools, having a low dominant vibration frequency usually between 25 and 60 Hz for chipping hammers and drills, and less than 30 Hz for pneumatic breakers, the average transmissibility reduction at the palm level is 13% (minimum 2%; maximum 26%) when used with hammers, and 1% (increment of 4% and reduction of 6%) when used with breakers. The transmissibility at the finger level, especially in the low frequencies, is almost nothing or produces an increase of the vibration. Other problems related to the increase of the applied force and the reduction of dexterity are reported.
Sociodemographic and clinical characteristics related with hyperprolactinaemia in psychiatric clinical population

Abstract Background Hyperprolactinaemia (HyperPRL) induced by psychotropic drugs is a high-prevalence consequence which has repercussions in psychical and mental health in the psychiatric population, so this research had the objective to expand which sociodemographic and clinical features are associated with prolactin (PRL) elevation in patients treated with antidepressant and/or antipsychotic drugs. Methods An observational, cross-sectional, comparative and retrolective study was conducted on 300 patients who received clinical attention in a third level of psychiatric care unit in Mexico during 2017. These patients have been reported to show PRL levels greater than 25 ng/mL among women and greater than 20 ng/mL among men. In the same way, sociodemographic and clinical variables were collected, as well as psychiatric diagnosis and type of psychopharmacological treatment used by the patients. Results HyperPRL was more frequent in women (80.7%) than men (19.3%). The mean levels of PRL were 68.94 ± 62.28 ng/mL with higher levels in women (71.9 ± 67.3, p=.02). Regarding the treatment, 78.3%, 71.3% and 49.7% consumed antipsychotics, antidepressants, and both drugs, respectively. The relationship between hyperPRL (>100 n/mL) and typical antipsychotics was dose-dependent (33.23 ± 13.24 mg, p=.01). In the multivariate regression models according to the type of treatment, as well as the demographic and clinical features, hyperPRL was associated independently with the use of antipsychotic treatment, pituitary adenoma and hypertension (R 2=0.05). Conclusions HyperPRL is a complex clinical syndrome frequent in the psychiatric population with detrimental long-term consequences, as well as its relationship with the use of psychotropic drugs as in the case of antipsychotics. Effective actions should be implemented in the prevention, approach and treatment of this condition paying special attention to the accompanying medical comorbidities.