Miracle-dz/UniFAR-FTUs huggingface dataset:
Validity of a Non-Proprietary Algorithm for Identifying Lying Down Using Raw Data from Thigh-Worn Triaxial Accelerometers

Body postural allocation during daily life is important for health, and can be assessed with thigh-worn accelerometers. An algorithm based on sedentary bouts from the proprietary ActivePAL software can detect lying down from a single thigh-worn accelerometer using rotations of the thigh. However, it is not usable across brands of accelerometers. This algorithm has the potential to be refined. Aim: To refine and assess the validity of an algorithm to detect lying down from raw data of thigh-worn accelerometers. Axivity-AX3 accelerometers were placed on the thigh and upper back (reference) on adults in a development dataset (n = 50) and a validation dataset (n = 47) for 7 days. Sedentary time from the open Acti4-algorithm was used as input to the algorithm. In addition to the thigh-rotation criterion in the existing algorithm, two criteria based on standard deviation of acceleration and a time duration criterion of sedentary bouts were added. The mean difference (95% agreement-limits) between the total identified lying time/day, between the refined algorithm and the reference was +2.9 (−135,141) min in the development dataset and +6.5 (−145,159) min in the validation dataset. The refined algorithm can be used to estimate lying time in studies using different accelerometer brands.
Validity of the Polar H7 Heart Rate Sensor for Heart Rate Variability Analysis during Exercise in Different Age, Body Composition and Fitness Level Groups

This work aims to validate the Polar H7 heart rate (HR) sensor for heart rate variability (HRV) analysis at rest and during various exercise intensities in a cohort of male volunteers with different age, body composition and fitness level. Cluster analysis was carried out to evaluate how these phenotypic characteristics influenced HR and HRV measurements. For this purpose, sixty-seven volunteers performed a test consisting of the following consecutive segments: sitting rest, three submaximal exercise intensities in cycle-ergometer and sitting recovery. The agreement between HRV indices derived from Polar H7 and a simultaneous electrocardiogram (ECG) was assessed using concordance correlation coefficient (CCC). The percentage of subjects not reaching excellent agreement (CCC > 0.90) was higher for high-frequency power (PHF) than for low-frequency power (PLF) of HRV and increased with exercise intensity. A cluster of unfit and not young volunteers with high trunk fat percentage showed the highest error in HRV indices. This study indicates that Polar H7 and ECG were interchangeable at rest. During exercise, HR and PLF showed excellent agreement between devices. However, during the highest exercise intensity, CCC for PHF was lower than 0.90 in as many as 60% of the volunteers. During recovery, HR but not HRV measurements were accurate. As a conclusion, phenotypic differences between subjects can represent one of the causes for disagreement between HR sensors and ECG devices, which should be considered specifically when using Polar H7 and, generally, in the validation of any HR sensor for HRV analysis.
Video-Based System for Automatic Measurement of Barbell Velocity in Back Squat

Velocity-based training is a contemporary method used by sports coaches to prescribe the optimal loading based on the velocity of movement of a load lifted. The most employed and accurate instruments to monitor velocity are linear position transducers. Alternatively, smartphone apps compute mean velocity after each execution by manual on-screen digitizing, introducing human error. In this paper, a video-based instrument delivering unattended, real-time measures of barbell velocity with a smartphone high-speed camera has been developed. A custom image-processing algorithm allows for the detection of reference points of a multipower machine to autocalibrate and automatically track barbell markers to give real-time kinematic-derived parameters. Validity and reliability were studied by comparing the simultaneous measurement of 160 repetitions of back squat lifts executed by 20 athletes with the proposed instrument and a validated linear position transducer, used as a criterion. The video system produced practically identical range, velocity, force, and power outcomes to the criterion with low and proportional systematic bias and random errors. Our results suggest that the developed video system is a valid, reliable, and trustworthy instrument for measuring velocity and derived variables accurately with practical implications for use by coaches and practitioners.
In Vitro Comparison between Metal Sleeve-Free and Metal Sleeve-Incorporated 3D-Printed Computer-Assisted Implant Surgical Guides

The present study aims to compare the accuracy of metal sleeve-free 3D-printed computer-assisted implant surgical guides (MSF group) (n = 10) with metal sleeve-incorporated 3D-printed computer-assisted implant surgical guides (MSI group) (n = 10). Implants of diameter 4.0 mm and 5.0 mm were placed in the left second premolars and bilateral first molars, respectively, using a fully guided system. Closed-form sleeves were used in teeth on the left and open-form sleeves on the right. The weight differences of the surgical guides before and after implant placement, and angular deviations before and after implant placement were measured. Weight differences were compared with Student’s t-tests and angular deviations with Mann–Whitney tests. Cross-sectional views of the insert parts were observed with a scanning electron microscope. Preoperative and postoperative weight differences between the two groups were not statistically significant (p = 0.821). In terms of angular deviations, those along the mesiodistal direction for the left second premolars were significantly lower in the MSF group (p = 0.006). However, those along the mesiodistal direction for the bilateral molars and those along the buccolingual direction for all teeth were not significantly different (p > 0.05). 3D-printed implant surgical guides without metal sleeve inserts enable accurate implant placement without exhausting the guide holes, rendering them feasible for fully guided implant placement.
Expression of the SARS-CoV-2 Receptor ACE2 and Proinflammatory Cytokines Induced by the Periodontopathic Bacterium Fusobacterium nucleatum in Human Respiratory Epithelial Cells

Coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is currently a global public health emergency. Periodontitis, the most prevalent disease that leads to tooth loss, is caused by infection by periodontopathic bacteria. Periodontitis is also a risk factor for pneumonia and the exacerbation of chronic obstructive pulmonary disease, presumably because of the aspiration of saliva contaminated with periodontopathic bacteria into the lower respiratory tract. Patients with these diseases have increased rates of COVID-19 aggravation and mortality. Because periodontopathic bacteria have been isolated from the bronchoalveolar lavage fluid of patients with COVID-19, periodontitis may be a risk factor for COVID-19 aggravation. However, the molecular links between periodontitis and COVID-19 have not been clarified. In this study, we found that the culture supernatant of the periodontopathic bacterium Fusobacterium nucleatum (CSF) upregulated the SARS-CoV-2 receptor angiotensin-converting enzyme 2 in A549 alveolar epithelial cells. In addition, CSF induced interleukin (IL)-6 and IL-8 production by both A549 and primary alveolar epithelial cells. CSF also strongly induced IL-6 and IL-8 expression by BEAS-2B bronchial epithelial cells and Detroit 562 pharyngeal epithelial cells. These results suggest that when patients with mild COVID-19 frequently aspirate periodontopathic bacteria, SARS-CoV-2 infection is promoted, and inflammation in the lower respiratory tract may become severe in the presence of viral pneumonia.
Clinical and Molecular-Based Approach in the Evaluation of Hepatocellular Carcinoma Recurrence after Radical Liver Resection

Simple Summary Hepatocellular carcinoma (HCC) recurrence is still a major issue after liver resection. While several clinical factors were found to be associated with tumor recurrence, HCC pathogenesis is a complex process of accumulation of somatic genomic alterations, which has not been completely understood, especially with respect to tumor recurrence. The aim of this study is to complement potentially predictive clinical factors with next-generation sequencing genomic profiling and loss of heterozygosity analysis. We confirmed that serum bilirubin level, number of HCC nodules and size of the larger nodule are linked to a higher risk of tumor recurrence. Loss of heterozygosity in the PTEN loci was found to be associated with a lower risk of HCC recurrence. Abstract Background: Hepatic resection remains the treatment of choice for patients with early-stage HCC with preserved liver function. Unfortunately, however, the majority of patients develop tumor recurrence. While several clinical factors were found to be associated with tumor recurrence, HCC pathogenesis is a complex process of accumulation of somatic genomic alterations, which leads to a huge molecular heterogeneity that has not been completely understood. The aim of this study is to complement potentially predictive clinical and pathological factors with next-generation sequencing genomic profiling and loss of heterozygosity analysis. Methods: 124 HCC patients, who underwent a primary hepatic resection from January 2016 to December 2019, were recruited for this study. Next-generation sequencing (NGS) analysis and allelic imbalance assessment in a case-control subgroup analysis were performed. A time-to-recurrence analysis was performed as well by means of Kaplan–Meier estimators. Results: Cumulative number of HCC recurrences were 26 (21%) and 32 (26%), respectively, one and two years after surgery. Kaplan–Meier estimates for the probability of recurrence amounted to 37% (95% C.I.: 24–47) and to 51% (95% C.I.: 35–62), after one and two years, respectively. Multivariable analysis identified as independent predictors of HCC recurrence: hepatitis C virus (HCV) infection (HR: 1.96, 95%C.I.: 0.91–4.24, p = 0.085), serum bilirubin levels (HR: 5.32, 95%C.I.: 2.07–13.69, p = 0.001), number of nodules (HR: 1.63, 95%C.I.: 1.12–2.38, p = 0.011) and size of the larger nodule (HR: 1.11, 95%C.I.: 1.03–1.18, p = 0.004). Time-to-recurrence analysis showed that loss of heterozygosity in the PTEN loci (involved in the PI3K/AKT/mTOR signaling pathway) was significantly associated with a lower risk of HCC recurrence (HR: 0.35, 95%C.I.: 0.13–0.93, p = 0.036). Conclusions: multiple alterations of cancer genes are associated with HCC progression. In particular, the evidence of a specific AI mutation presented in 20 patients seemed to have a protective effect on the risk of HCC recurrence.
Impact of Corticosteroid Administration within 7 Days of the Hospitalization for Influenza Pneumonia with Respiratory Failure: A Propensity Score Analysis Using a Nationwide Administrative Database

Influenza pneumonia, which causes acute respiratory distress syndrome and multiple organ failure, has no established management protocol. Recently, corticosteroid therapy was used to treat coronavirus disease 2019 with respiratory failure; however, its effectiveness as a treatment for influenza pneumonia remains controversial. To investigate the impact of corticosteroid therapy for the early phase of severe influenza pneumonia, we compared influenza pneumonia patients with respiratory failure treated with or without corticosteroids within 7 days after hospital admission using a Japanese nationwide administrative database. The primary endpoint was the mortality rate. The secondary endpoints were duration of intensive-care unit management, invasive mechanical ventilation, and hospital stay. The inverse probability weighting method with estimated propensity scores was used to minimize the data collection bias. We included 3519 patients with influenza pneumonia with respiratory failure. Of these, 875 were treated with corticosteroids. There was no significant difference between the groups regarding 30-day and 90-day mortality, duration of intensive-care unit management, invasive mechanical ventilation, and hospital stay. However, the in-hospital mortality rate was higher in the corticosteroid group. The use of systematic corticosteroid therapy in patients with influenza pneumonia was associated with a higher in-hospital mortality rate.
Molecular Structure, In Vitro Anticancer Study and Molecular Docking of New Phosphate Derivatives of Betulin

A series of 30-diethylphosphate derivatives of betulin were synthesized and evaluated for their in vitro cytotoxic activity against human cancer cell lines, such as amelanotic melanoma (C-32), glioblastoma (SNB-19), and two lines of breast cancer (T47D, MDA-MB-231). The molecular structure and activities of the new compounds were also compared with their 29-phosphonate analogs. Compounds 7a and 7b showed the highest activity against C-32 and SNB-19 cell lines. The IC50 values for 7a were 2.15 and 0.91 μM, and, for 7b, they were 0.76 and 0.8 μM for the C-32 and SNB-19 lines, respectively. The most potent compounds, 7a and 7b, were tested for their effects on markers of apoptosis, such as H3, TP53, BAX, and BCL-2. For the whole series of phosphate derivatives, a lipophilicity study was performed, and the ADME parameters were calculated. The most active products were docked to the active site of the EGFR protein. The relative binding affinity of selected phosphate betulin derivatives toward EGFR was compared with standard erlotinib on the basis of ChemScore and KDEEP score. Positively, all derivatives docked inside the cavity and showed significant interactions. Moreover, a molecular dynamics study also reveals that ligands 7a,b form stable complexes and the plateau phase started after 7 ns.
Perinatal outcomes in singleton live births after fresh blastocyst-stage embryo 1 transfer : a retrospective analysis of 67 , 147 IVF / ICSI cycles 2 Running title : Perinatal outcomes of blastocyst-stage embryo transfer 3

21 Study question: Are perinatal outcomes different between singleton live births conceived from 22 fresh blastocyst transfer than those following the transfer of fresh cleavage-stage embryos? 23 Summary answer: Fresh blastocyst transfer does not increase risks of preterm birth, low/high 24 birth weight and congenital anomaly, alter the sex ratio at birth or prejudice the chance of a 25 having a healthy baby. 26 What is known already: Extended embryo culture is currently considered the best option for 27 embryo selection, but concerns have been raised about increased risks of preterm delivery and 28 large for gestational age (LGA) babies. 29 Study design, size, duration: We conducted a retrospective cohort study based on data from 30 the Human Fertilisation and Embryology Authority (HFEA) anonymised and cycle-based 31 dataset in the United Kingdom (UK) between 1999 and 2011. 32 Participants/materials, setting, methods: Baseline characteristics were compared between 33 blastocyst-stage and cleavage-stage embryo transfer cycles using the Chi-squared test for 34 categorical/dichotomised covariates and the Mann-Whitney test for continuous covariates. 35 Statistical significance was set at < 0.005. Poisson regression and multinomial logistic 36 regression were used to establish relationships between perinatal outcomes and blastocyst37 stage embryo transfer or cleavage-stage embryo transfer. Risk ratios (RRs), adjusted risk ratios 38 (aRRs) and their 99.5% confidence intervals (CIs) were calculated as a measure of strength of 39 associations. Results were adjusted for clinically relevant covariates. A sub-group analysis 40 included women undergoing their first IVF/ICSI treatment. Level of significance was set at < 41 0.05 and 95% CIs were calculated in the sub-group analysis. 42 Main results and the role of chance: Of a total of 67,147 IVF/ICSI cycles, 11,152 involved 43 blastocyst-stage embryo(s) and 55,995 involved cleavage-stage embryo(s). The two groups 44
Functional and sensory properties of chicken meat from spent-hen carcasses deboned manually or mechanically in Jordan

Summary Samples of chicken meat from spent laying hens were obtained by four different methods: (1) manual deboning of whole carcasses; (2) manual deboning of skinned carcasses; (3) mechanical deboning of whole carcasses; and (4) mechanical deboning of skinned carcasses. The meat was packaged, frozen and stored at −18 °C for up to 3 months. Functional properties studied were pH, emulsifying capacity (EC) and water-holding capacity (WHC) and, in addition, pigment concentration was investigated. Sensory properties included aroma, colour, texture and overall acceptability, as judged by a trained panel using a nine-point hedonic scale. Removal of the skin prior to deboning by either method gave significantly higher values (P < 0.05) for EC, while WHC values were not significantly different among the experimental treatments, despite higher pH values for mechanically-deboned meat, with and without skin. Pigment concentrations were highest in meat from Treatment 4 and lowest for Treatment 1, but values for both methods of deboning were affected by the presence of skin. There were no significant differences between treatments for any of the sensory properties studied. Changes occurring in the meat during frozen storage are described.
Effects of copper on the metabolism of 14C-labeled glucose in soil in relation to amendment with organic materials

Abstract The effects of Cu on the mineralization of 14C-labeled glucose in soil and the incorporation of 14C into the soil microbial biomass were investigated in a laboratory experiment in relation to the amendment with organic materials. Samples from a Brown Lowland soil (Udifluvent), which was amended with farmyard manure or orchard grass at the rate of 20 g kg-1 soil and/or enriched with 2,000 mg kg-1 soil of Cu, were incubated for 14 weeks under field conditions. The amounts of microbial biomass C and biomass ninhydrin-N in the field-incubated soils were significantly reduced by the addition of Cu regardless of the amendment with organic materials. The field-incubated soils to which 14C-labeled glucose was added were incubated for 28 d at 25°C in the laboratory. While the Cu added to soil did not affect appreciably the mineralization of 14C-labeled glucose, the amendment with organic materials affected considerably the pattern of mineralization. On the other hand, the incorporation of 14C into the soi.
Compositional convection in the presence of a magnetic field. II. Cartesian plume

The analysis of part I, dealing with the morphological instability of a single interface in a fluid of infinite extent, is extended to the case of a Cartesian plume of compositionally buoyant fluid, of thickness 2x0, enclosed between two vertical interfaces. The problem depends on six dimensionless parameters: the Prandtl number, σ; the magnetic Prandtl number, σm; the Chandrasekhar number, Qc; the Reynolds number, Re; the ratio, Bv, of vertical to horizontal components of the ambient magnetic field and the dimensionless plume thickness. Attention is focused on the preferred mode of instability, which occurs in the limit Re≪1 for all values of the parameters. This mode can be either sinuous or varicose with the wavenumber vector either vertical or oblique, comprising four types. The regions of preference of these four modes are represented in regime diagrams in the (x0, σ) plane for different values of σm, Qc, Bv. These regions are strongly dependent on the field inclination and field strength and, to a lesser extent, on magnetic diffusion. The overall maximum growth rate for any prescribed set of the parameters σm, Qc, Bv, occurs when 1.3<x0<1.7, and is sinuous for small σ and varicose for large σ. The magnetic field can enhance instability for a certain range of thickness of the plume. The enhancement of instability is due to the interaction of the field with viscous diffusion resulting in a reverse role for viscosity. The dependence of the helicity and α-effect on the parameters is also discussed.
A mechanistic and data-driven reconstruction of the time-varying reproduction number: Application to the COVID-19 epidemic

The effective reproduction number Reff is a critical epidemiological parameter that characterizes the transmissibility of a pathogen. However, this parameter is difficult to estimate in the presence of silent transmission and/or significant temporal variation in case reporting. This variation can occur due to the lack of timely or appropriate testing, public health interventions and/or changes in human behavior during an epidemic. This is exactly the situation we are confronted with during this COVID-19 pandemic. In this work, we propose to estimate Reff for the SARS-CoV-2 (the etiological agent of the COVID-19), based on a model of its propagation considering a time-varying transmission rate. This rate is modeled by a Brownian diffusion process embedded in a stochastic model. The model is then fitted with Bayesian inference (PMCMC) using multiple well-documented hospital datasets from several regions in France and in Ireland. This mechanistic modeling framework enables us to reconstruct the temporal evolution of the transmission rate of the COVID-19 based only on the available data, without any specific hypothesis on its evolution. This approach allows us to follow both the course of the COVID-19 epidemic and the temporal evolution of its Reff(t). In this way, we can appropriately assess the effect of the mitigation strategies implemented to control the epidemic waves in France and in Ireland.
Modeling influenza seasonality in the tropics and subtropics

Climate drivers such as humidity and temperature may play a key role in influenza seasonal transmission dynamics. Such a relationship has been well defined for temperate regions. However, to date no models capable of capturing the diverse seasonal pattern in tropical and subtropical climates exist. In addition, multiple influenza viruses could cocirculate and shape epidemic dynamics. Here we construct seven mechanistic epidemic models to test the effect of two major climate drivers (humidity and temperature) and multi-strain co-circulation on influenza transmission in Hong Kong, an influenza epidemic center located in the subtropics. Based on model fit to long-term influenza surveillance data from 1998 to 2018, we found that a simple model incorporating the effect of both humidity and temperature best recreated the influenza epidemic patterns observed in Hong Kong. The model quantifies a bimodal effect of absolute humidity on influenza transmission where both low and very high humidity levels facilitate transmission quadratically; the model also quantifies the monotonic but nonlinear relationship with temperature. In addition, model results suggest that, at the population level, a shorter immunity period can approximate the co-circulation of influenza virus (sub)types. The basic reproductive number R0 estimated by the best-fit model is also consistent with laboratory influenza survival and transmission studies under various combinations of humidity and temperature levels. Overall, our study has developed a simple mechanistic model capable of quantifying the impact of climate drivers on influenza transmission in (sub)tropical regions. This model can be applied to improve influenza forecasting in the (sub)tropics in the future.