Miracle-dz/UniFAR-FTUs huggingface dataset:
Exercise Exertion Levels Prediction Based on Real-Time Wearable Physiological Signal Monitoring

The real-time revolutions per minute (RPM) data, ECG signal, pulse rate, and oxygen saturation levels were collected during 16-minute cycling exercises. In parallel, ratings of perceived exertion (RPE) were collected each minute from the study participants. A 2-minute moving window, with one minute shift, was applied to each 16-minute exercise session to divide it into a total of fifteen 2-minute windows. Based on the self-reported RPE, each exercise window was labeled as "high exertion" or "low exertion" classes. The heart rate variability (HRV) characteristics in time and frequency domains were extracted from the collected ECG signals for each window. In addition, collected oxygen saturation levels, pulse rate, and RPMs were averaged for each window. The best predictive features were then selected using the minimum redundancy maximum relevance (mRMR) algorithm. Top selected features were then used to assess the accuracy of five ML classifiers to predict the level of exertion. The Naïve Bayes model demonstrated the best performance with an accuracy of 80% and an F1 score of 79%.
Identification of PDK4 as Hub Gene for Diabetic Nephropathy Using Co-Expression Network Analysis

Introduction: Diabetic nephropathy (DN) is related to type 1 and type 2 diabetes. They are the leading cause of end-stage renal disease, but the underling specific pathogenesis of DN is not yet clear. Our study was conducted to explore how DN changed the transcriptome profiles in the kidney. Methods: The gene expression profile of microdissected glomeruli of 41 type 2 DN patients and 20 healthy controls were included. The sample dataset GSE96804 was obtained from the GEO database. Differentially expressed genes (DEGs) were analyzed in R with the limma package and the important modules were found by weighted gene co-expression network analysis (WGCNA) clustering. The modules were then analyzed based on Gene Ontology (GO) gene set enrichment analysis, and the hub genes were found out. We next validated the hub gene, PDK4, in a cell model of DN. We also constructed the PDK4-related PPI network to investigate the correlation between PDK4 expression and other genes. Results: Heatmap and volcano map were drawn to illustrate the mRNA expression profile of 1,204 DEGs in both samples of DN patients and the control group. Using WGCNA, we selected the blue module in which genes showed the strongest correlation with the phenotype and the smallest p value. We also identified PDK4 as a hub gene. PDK4 expression was upregulated in human diabetic kidney tissue. Moreover, PDK4 was speculated to play a role in glomerular basement membrane development and kidney development according to the enrichment of functions and signaling pathways. Furthermore, PDK4 and two key genes GSTA2 and G6PC protein expression were verified highly expressed in the cell model of DN. Conclusion: During the pathogenesis of DN, many genes may change expression in a coordinated manner. The discovery of PDK4 as key gene using WGCNA is of great significance for the development of new treatment strategies to block the development of DN.
PETCH-DB: a Portal for Exploring Tissue-specific and Complex disease-associated 5-Hydroxymethylcytosines

Abstract Epigenetic modifications play critical roles in gene regulation and disease pathobiology. Highly sensitive enabling technologies, including microarray- and sequencing-based approaches have allowed genome-wide profiling of cytosine modifications in DNAs in clinical samples to facilitate discovery of epigenetic biomarkers for disease diagnosis and prognosis. Historically, many previous studies, however, did not distinguish the most investigated 5-methylcytosines (5mC) from other modified cytosines, especially the biochemically stable 5-hydroxymethylcytosines (5hmC), which have been shown to have a distinct genomic distribution and regulatory role from 5mC. Notably, during the past several years, the 5hmC-Seal, a highly sensitive chemical labeling technique, has been demonstrated to be a powerful tool for genome-wide profiling of 5hmC in clinically feasible biospecimens (e.g. a few milliliter of plasma or serum). The 5hmC-Seal technique has been utilized by our team in biomarker discovery for human cancers and other complex diseases using circulating cell-free DNA (cfDNA), as well as the characterization of the first 5hmC Human Tissue Map. Convenient access to the accumulating 5hmC-Seal data will allow the research community to validate and re-use these results, potentially providing novel insights into epigenetic contribution to a range of human diseases. Here we introduce the PETCH-DB, an integrated database that was implemented to provide 5hmC-related results generated using the 5hmC-Seal technique. We aim the PETCH-DB to be a central portal, which will be available to the scientific community with regularly updated 5hmC data in clinical samples to reflect current advances in this field. Database URL http://petch-db.org/
Chronic stability of a neuroprosthesis comprising multiple adjacent Utah arrays in monkeys

Objective. Electrical stimulation of visual cortex via a neuroprosthesis induces the perception of dots of light (‘phosphenes’), potentially allowing recognition of simple shapes even after decades of blindness. However, restoration of functional vision requires large numbers of electrodes, and chronic, clinical implantation of intracortical electrodes in the visual cortex has only been achieved using devices of up to 96 channels. We evaluated the efficacy and stability of a 1024-channel neuroprosthesis system in non-human primates (NHPs) over more than 3 years to assess its suitability for long-term vision restoration. Approach. We implanted 16 microelectrode arrays (Utah arrays) consisting of 8 × 8 electrodes with iridium oxide tips in the primary visual cortex (V1) and visual area 4 (V4) of two sighted macaques. We monitored the animals’ health and measured electrode impedances and neuronal signal quality by calculating signal-to-noise ratios of visually driven neuronal activity, peak-to-peak voltages of the waveforms of action potentials, and the number of channels with high-amplitude signals. We delivered cortical microstimulation and determined the minimum current that could be perceived, monitoring the number of channels that successfully yielded phosphenes. We also examined the influence of the implant on a visual task after 2–3 years of implantation and determined the integrity of the brain tissue with a histological analysis 3–3.5 years post-implantation. Main results. The monkeys remained healthy throughout the implantation period and the device retained its mechanical integrity and electrical conductivity. However, we observed decreasing signal quality with time, declining numbers of phosphene-evoking electrodes, decreases in electrode impedances, and impaired performance on a visual task at visual field locations corresponding to implanted cortical regions. Current thresholds increased with time in one of the two animals. The histological analysis revealed encapsulation of arrays and cortical degeneration. Scanning electron microscopy on one array revealed degradation of IrOx coating and higher impedances for electrodes with broken tips. Significance. Long-term implantation of a high-channel-count device in NHP visual cortex was accompanied by deformation of cortical tissue and decreased stimulation efficacy and signal quality over time. We conclude that improvements in device biocompatibility and/or refinement of implantation techniques are needed before future clinical use is feasible.
Respite care: qualitative arts-based findings on the perspectives and experiences of families of children and youth with special healthcare needs residing in Manitoba, Canada

Objectives Respite for families of children and youth with special healthcare needs (CYSHCN) is essential for sustaining a family care environment. Lacking is an understanding of families’ respite experiences who reside in Canada. We sought to understand experiences of the use of respite services by families with CYSHCN with the aim to help improve respite services. This paper reports on the qualitative arts-based findings. Design Qualitative methods including open-ended interviews combined with the arts-based methods of ecomaps and the photovoice process were used. Analysis involved delineating units of meaning from the data, clustering units of meaning to form thematic statements and extracting themes. Setting Manitoba, a western Canadian province. Participants Thirty-two families (including 38 parents and 13 siblings) of CYSHCN. Results We identified six themes surrounding challenges experienced by families’ in their journeys accessing, acquiring and navigating the respite care system, and sustainment of respite care for their families, leading to familial burn-out and breakdown, financial stress, unemployment and unaddressed mental health struggles. Families provided multipronged recommendations to address these challenges. Conclusions Through the lens of Canadian families of children with a range of complex care needs, the qualitative arts-based portion of the study underscores the challenges with accessing, navigating and sustaining respite care, which has implications for CYSHCN, their clinicians and the potential for long-term costs for government and society. This study identifies the state of the current Manitoba respite care system as an issue, presenting actionable recommendations from families that can assist policymakers and clinicians in advocating for and implementing a collaborative, responsive, family-centred system of respite care.
Physical activity and injurious falls in older Australian women: adjusted associations and modification by physical function limitation and frailty in the Australian Longitudinal Study on Women’s Health

Abstract Objectives To investigate associations between leisure-time physical activity (LPA) and injurious falls in older women and explore modification of associations by physical function and frailty. Methods Women born during 1946–51 from the Australian Longitudinal Study on Women’s Health, injurious falls (self-reported fall with injury and/or medical attention) and self-reported weekly LPA (duration and type). We undertook cross-sectional and prospective analyses using data from 2016 [n = 8,171, mean (SD) age 68 (1)] and 2019 surveys (n = 7,057). Associations were quantified using directed acyclic graph-informed logistic regression and effect modification examined using product terms. Results Participation in LPA as recommended by World Health Organization (150–300 min/week) was associated with lower odds of injurious falls in cross-sectional (adjusted Odds Ratio (OR) 0.74, 95% CI 0.61–0.90) and prospective analyses (OR 0.75, 95% CI 0.60–0.94). Compared with those who reported no LPA, cross-sectionally, odds of injurious falls were lower in those who reported brisk walking (OR 0.77, 95% CI 0.67–0.89) and vigorous LPA (OR 0.86, 95% CI 0.75–1.00). No significant association was found between different types of LPA and injurious falls prospectively. Only cross-sectionally, physical function limitation and frailty modified the association between LPA and injurious falls, with tendencies for more injurious falls with more activity in those with physical limitation or frailty, and fewer injurious falls with more activity among those without physical function limitation or frailty. Conclusion Participation in recommended levels of LPA was associated with lower odds of injurious falls. Caution is required when promoting general physical activity among people with physical limitation or frailty.
An optimal asymptotic-numerical method for convection dominated systems having exponential boundary layers

The convection dominated diffusion problems are studied. Higher order accurate numerical methods are presented for problems in one and two dimensions. The underlying technique utilizes a superposition of given problem into two independent problems. The first one is the reduced problem that refers to the outer or smooth solution. Stretching transformation is used to obtain the second problem for inner layer solution. The method considered for outer or degenerate problems are based on higher order Runge–Kutta methods and upwind finite differences. However, inner problem is solved analytically or asymptotically. The schemes presented are proved to be consistent and stable. Possible extensions to delay differential equations and to nonlinear problems are outlined. Numerical results for several test examples are illustrated and a comparative analysis is presented. It is observed that the method presented is highly accurate and easy to implement. Moreover, the numerical results obtained are not only comparable with the exact solution but also in agreement with the theoretical estimates.
The mediating role of psychological flexibility in the relationship between resilience and distress and quality of life in people with multiple sclerosis

The purpose of this study is to investigate the role of psychological flexibility in mediating the beneficial effects of resilience on distress and quality of life (QoL) in people with MS (PwMS). The psychological flexibility framework underpinning acceptance and commitment therapy (ACT) was used to conceptualise psychological flexibility. A total of 56 PwMS completed an online survey that assessed global psychological flexibility and each of its six core sub-processes, resilience, distress, mental and physical health QoL, socio-demographics, and illness variables. Mediation analyses showed that, as hypothesised, higher levels of global psychological flexibility and its sub-processes were associated with increases in the positive impacts of resilience on distress and mental and physical health QoL via a mediational mechanism. These findings suggest that psychological flexibility skills build resilience capacities in PwMS. The psychological flexibility framework offers an ACT-based intervention pathway to build resilience and enhance mental health and QoL in PwMS.
Development of a Mobile Application with Health Guidelines for TB Patients Care

Health guidelines inform recommendations for different clinical practices or public health policies. They are a simple way to organize and retrieve relevant information that can impact patient care. Although these documents are easy to use, most are not user-friendly because they are difficult to access. Our work aims to present the developing approach for a decision-making tool based on health guidelines to assist health professionals in caring for patients with tuberculosis. This tool is being developed for use on mobile devices and as a web-based system, which will transform a passive and declarative health guideline document into an interactive tool that will provide data, information, and knowledge. User tests with functional prototypes developed for the Android platform show that this application has the potential to be applied in TB healthcare facilities in the future.
A Hybrid AI-Based Method for ICD Classification of Medical Documents

Automatic document classification is a common problem that has successfully been addressed with machine learning methods. However, these methods require extensive training data, which is not always readily available. Additionally, in privacy-sensitive settings, transfer and reuse of trained machine learning models is not an option because sensitive information could potentially be reconstructed from the model. Therefore, we propose a transfer learning method that uses ontologies to normalize the feature space of text classifiers to create a controlled vocabulary. This ensures that the trained models do not contain personal data, and can be widely reused without violating the GDPR. Furthermore, the ontologies can be enriched so that the classifiers can be transferred to contexts with different terminology without additional training. Applying classifiers trained on medical documents to medical texts written in colloquial language shows promising results and highlights the potential of the approach. The compliance with GDPR by design opens many further application domains for transfer learning based solutions.
A Deep Learning Model for Classifying Histological Types of Colorectal Polyps

In this study a deep learning architecture based on a convolutional neural network has been evaluated for the classification of white light images of colorectal polyps acquired during the process of a colonoscopy, to estimate the accuracy of the optical recognition of histologic types of polyps. Convolutional neural networks (CNNs), a subclass of artificial neural networks that have gained dominance in several computer vision tasks, are gaining popularity in many medical fields, including endoscopy. The TensorFlow framework was used for implementing EfficientNetB7, which was trained with 924 images, drawn from 86 patients. 55% of the polyps were adenomas, 22% were hyperplastic, and 17% were lesions with sessile serrations. The validation loss, accuracy, and AUC ROC were 0.4845, 0.7778, and 0.8881 respectively.
Predicting Overall Survival in METABRIC Cohort Using Machine Learning

Triple-negative breast cancer (TNBC) is an aggressive form of breast cancer that presents very high relapse and mortality. However, due to differences in the genetic architecture associated with TNBC, patients have different outcomes and respond differently to available treatments. In this study, we predicted the overall survival of TNBC patients in the METABRIC cohort employing supervised machine learning to identify important clinical and genetic features that are associated with better survival. We achieved a slightly higher Concordance index than the state of art and identified biological pathways related to the top genes considered important by our model.
Effect of the Intrasession Exercise Order of Flywheel Resistance and High-Intensity Interval Training on Maximal Strength and Power Performance in Elite Team-Sport Athletes

Abstract Petré, H, Ovendal, A, Westblad, N, Ten Siethoff, L, Rosdahl, H, and Psilander, N. Effect of the intrasession exercise order of flywheel resistance and high-intensity interval training on maximal strength and power performance in elite team-sport athletes. J Strength Cond Res 37(12): 2389–2396, 2023—This study aimed to investigate the effect of intrasession exercise order of maximal effort flywheel resistance training (RT; 4 × 6 repetitions [rep]) and high-intensity interval training (HIIT, 2–4 × 8 rep of 20 second at 130% of Watt at V̇o2max [wV̇o2max]), on the development of maximal strength and power in elite team-sport athletes. A 7-week training intervention involving 2 training sessions per week of either HIIT followed by RT (HIIT + RT, n = 8), RT followed by HIIT (RT + HIIT, n = 8), or RT alone (RT, n = 7) was conducted in 23 elite male bandy players (24.7 ± 4.3 years). Power and work were continuously measured during the flywheel RT. Isometric squat strength (ISq), countermovement jump, squat jump, and V̇o2max were measured before and after the training period. Power output during training differed between the groups (p = 0.013, ηp2 = 0.365) with RT producing more power than HIIT + RT (p = 0.005). ISq improved following RT + HIIT (∼80%, d = 2.10, p = 0.001) and following HIIT + RT (∼40%, d = 1.64, p = 0.005), and RT alone (∼70%, d = 1.67, p = 0.004). V̇o2max increased following RT + HIIT and HIIT + RT (∼10%, d = 1.98, p = 0.001 resp. d = 2.08, p = 0.001). HIIT before RT reduced power output during RT in elite team-sport athletes but did not lead to blunted development of maximal strength or power after a 7-week training period. During longer training periods (>7-weeks), it may be advantageous to schedule RT before HIIT because the negative effect of HIIT + RT on training quality increased during the final weeks of training. In addition, the largest training effect on maximal strength was observed following RT + HIIT.
Growth rate for free-electron lasers through a warm beam layered model

In the present work, we describe the linear growth rate of the laser field for a one-dimensional theoretical single-pass free-electron laser, including space-charge and thermal effects, in the hydrodynamical regime. In a recent work (Peter, Endler & Rizzato, Phys. Plasmas, vol. 21, 2014, 113104), the thermal effects were already included for a water-bag initial distribution for the longitudinal velocities of the particles of the beam. Here, we extend the result for different and symmetrical initial distributions, considering that in the hydrodynamical regime, the beam can be thought of as a warm fluid composed of a sum of different fluids with different densities, where the initial distribution of each fluid is a water-bag distribution. The total pressure of the beam is related to the sum of the pressures of these fluids. This approach is much less complicated than the kinetic approach. We compare the results given by the linear set of equations and wave–particle simulations for water-bag and Gaussian initial distributions. The evolution of the particle distribution in the phase space is also shown in order to demonstrate that the assumption of the sum of different fluids reproduces the physics of the system in a reasonable fashion.
Microbiota and Diapause-Induced Neuroprotection Share a Dependency on Calcium But Differ in Their Effects on Mitochondrial Morphology

Abstract The balance between the degeneration and regeneration of damaged neurons depends on intrinsic and environmental variables. In nematodes, neuronal degeneration can be reversed by intestinal GABA and lactate-producing bacteria, or by hibernation driven by food deprivation. However, it is not known whether these neuroprotective interventions share common pathways to drive regenerative outcomes. Using a well established neuronal degeneration model in the touch circuit of the bacterivore nematode Caenorhabditis elegans, we investigate the mechanistic commonalities between neuroprotection offered by the gut microbiota and hunger-induced diapause. Using transcriptomics approaches coupled to reverse genetics, we identify genes that are necessary for neuroprotection conferred by the microbiota. Some of these genes establish links between the microbiota and calcium homeostasis, diapause entry, and neuronal function and development. We find that extracellular calcium as well as mitochondrial MCU-1 and reticular SCA-1 calcium transporters are needed for neuroprotection by bacteria and by diapause entry. While the benefits exerted by neuroprotective bacteria require mitochondrial function, the diet itself does not affect mitochondrial size. In contrast, diapause increases both the number and length of mitochondria. These results suggest that metabolically induced neuronal protection may occur via multiple mechanisms.
Secondary Eyewall Formation in an Idealized Tropical Cyclone Simulation: Balanced and Unbalanced Dynamics

AbstractThe secondary eyewall formation (SEF) in an idealized simulation of a tropical cyclone (TC) is examined from the perspective of both the balanced and unbalanced dynamics and through the tangential wind (Vt) budget analysis. It is found that the expansion of the azimuthal-mean Vt above the boundary layer occurs prior to the development of radial moisture convergence in the boundary layer. The Vt expansion results primarily from the inward angular momentum transport by the mid- to lower-tropospheric inflow induced by both convective and stratiform heating in the spiral rainbands. In response to the Vt broadening is the development of radial inflow convergence and the supergradient flow near the top of the inflow boundary layer. Results from the Vt budget analysis show that the combined effect of the mean advection and the surface friction is to spin down Vt in the boundary layer, while the eddy processes (eddy radial and vertical advection) contribute positively to the spinup of Vt in the SEF region.