Miracle-dz/UniFAR-FTUs huggingface dataset:
Challenges in the real world use of classification accuracy metrics: From recall and precision to the Matthews correlation coefficient

The accuracy of a classification is fundamental to its interpretation, use and ultimately decision making. Unfortunately, the apparent accuracy assessed can differ greatly from the true accuracy. Mis-estimation of classification accuracy metrics and associated mis-interpretations are often due to variations in prevalence and the use of an imperfect reference standard. The fundamental issues underlying the problems associated with variations in prevalence and reference standard quality are revisited here for binary classifications with particular attention focused on the use of the Matthews correlation coefficient (MCC). A key attribute claimed of the MCC is that a high value can only be attained when the classification performed well on both classes in a binary classification. However, it is shown here that the apparent magnitude of a set of popular accuracy metrics used in fields such as computer science medicine and environmental science (Recall, Precision, Specificity, Negative Predictive Value, J, F1, likelihood ratios and MCC) and one key attribute (prevalence) were all influenced greatly by variations in prevalence and use of an imperfect reference standard. Simulations using realistic values for data quality in applications such as remote sensing showed each metric varied over the range of possible prevalence and at differing levels of reference standard quality. The direction and magnitude of accuracy metric mis-estimation were a function of prevalence and the size and nature of the imperfections in the reference standard. It was evident that the apparent MCC could be substantially under- or over-estimated. Additionally, a high apparent MCC arose from an unquestionably poor classification. As with some other metrics of accuracy, the utility of the MCC may be overstated and apparent values need to be interpreted with caution. Apparent accuracy and prevalence values can be mis-leading and calls for the issues to be recognised and addressed should be heeded.
The diagnostic tests and functional outcomes of acute ischemic stroke or transient ischemic attack in young adults: A 4-year hospital-based observational study

Background and objectives Ischemic strokes in young adults have been a significant concern due to various potential etiologies and had substantial clinical and public health impacts. We aimed to study the diagnostic tests, etiologies, and functional outcomes of acute ischemic stroke (AIS) and transient ischemic attack (TIA) in young adult patients. Methods The data were retrieved from the Chiang Mai University Hospital Stroke Registry between January 2018 and December 2021. Consecutive AIS or TIA patients were included if they were 18–50 years and had no stroke mimics. Study outcomes were proportions of positive diagnostic tests, and 90-day modified Rankin Scale (mRS). Results Of 244 enrolled patients, 59.0% (n = 144) were male, and 38.1% (n = 93) were aged 18–40, classified as the younger age group. There was a high incidence of diabetes (24.5%) and dyslipidemia (54.3%) among patients aged 41–50, associated with small-vessel occlusion and large-artery atherosclerosis stroke classification in this age group. Patients aged 18–40 years had more other determined etiologies (39.8%), with hypercoagulability (8.2%), arterial dissection (7.8%), and cardiac sources (6.6%) being the first three causes, which were associated with higher anticoagulant treatment. The cerebrovascular study, cardiac evaluation using echocardiography, and antiphospholipid syndrome testing were commonly performed, of which computed tomography angiography provided a high proportion of positive results (80.3%). 76.3% of young adult patients had excellent functional outcomes (mRS 0–1) with a median mRS of 0 (interquartile range 0–1) at 90-day follow-up. Conclusions Stroke of other determined etiology remained the common cause of stroke in young adults, and most affected individuals had excellent clinical outcomes. Blood tests for arterial hypercoagulability and noninvasive vascular and cardiac evaluations are encouraged in selected patients to determine the stroke etiology and guide for appropriate preventive strategies.
Prevalence of malaria and dengue co-infections among febrile patients during dengue transmission season in Kassala, eastern Sudan

Background Malaria and dengue are common mosquito-borne diseases around the world that cause high mortality and morbidity. The number of cases of both diseases is currently rising in Sudan and is associated with climate and environmental changes. Limited information is available on malaria and dengue co-infections and the severity of the two diseases among febrile patients in eastern Sudan. Thus, this study aimed to estimate the prevalence of malaria and dengue co-infections among febrile patients in Kassala, eastern Sudan. Methodology/Principal findings A cross-sectional hospital-based study was conducted among febrile patients from September to December 2019. A total of 395 patients were enrolled after consenting to participate in the study. Demographic and clinical data were collected by structured questionnaires. Blood samples were provided to diagnose malaria infections using microscopy and polymerase chain reaction (PCR) and for serology diagnosis of dengue using enzyme-linked immune sorbent assay (ELISA) IgM. Multiple logistic regression analysis was used to assess the association between demographic information, clinical symptoms and malaria and dengue co-infections. Out of 395 febrile patients examined 158 (40%) were malaria positive and 67 (17%) were dengue positive. The prevalence of malaria and dengue co-infections was 6.6% (26/395). Results of multiple logistic regression indicated that elder patients (41–60 years) had less rate of co-infections (OR = 0.3, 95% CI 0.11 to 0.81, p-value = 0.018), while patients of co-infections were eight times more likely to have fatigue, and two times more likely to suffer from joint and muscle pain and this difference was statistically significant with (OR = 8.3, 95% CI: 1.89 to 37.22, p-value = 0.005) and (OR = 2.4, 95% CI 1.10 to 5.39, p-value = 0.027), respectively. Conclusions/Significance This study confirmed the existence of malaria and dengue co-infections among febrile patients in Kassala, eastern Sudan for the first time. The severity of clinical symptoms of patients with malaria and dengue co-infections was observed, and the co-infections were found prevalent among young people.
Research progress on the activation mechanism of NLRP3 inflammasome in septic cardiomyopathy

Sepsis is an uncontrolled host response to infection, resulting in a clinical syndrome involving multiple organ dysfunctions. Cardiac damage is the most common organ damage in sepsis. Uncontrolled inflammatory response is an important mechanism in the pathogenesis of septic cardiomyopathy (SCM). NLRP3 inflammasome promotes inflammatory response by controlling the activation of caspase‐1 and the release of pro‐inflammatory cytokines interleukin IL‐1β and IL‐18. The role of NLRP3 inflammasome has received increasing attention, but its activation mechanism and regulation of inflammation in SCM remain to be investigated.
Leveraging CD4 Cell Count at Entry Into Care to Monitor Success of Human Immunodeficiency Virus Prevention, Treatment, and Public Health Programming in the Greater St Louis Area Between 2017 and 2020

Abstract CD4 cell count at entry into human immunodeficiency virus (HIV) care is a useful indicator of success of multiple steps in HIV public health programming. We demonstrate that CD4 cell count at care initiation was stable in St Louis between 2017 and 2019 but declined in 2020. Missouri efforts in the Ending the HIV Epidemic plan should focus on rapidly identifying individuals with undiagnosed HIV infection.
Passive optical monitor for atmospheric turbulence and windspeed

Measurement of the atmospheric index of refraction structure constant (Cn^2) is critical for predicting the performance of a free-space optical laser communication (FSO lasercomm) link. A Cn^2 monitor based on angle-of-arrival (AOA) fluctuations has been built for characterization of atmospheric conditions at the NRL FSO Lasercomm Test Facility across the Chesapeake Bay. The monitor used existing lights in various locations as point sources for determining AOA fluctuations. Real time analysis of the AOA fluctuations was performed to determine the power spectrum of the fluctuations every few seconds. This additional power spectrum information allows much greater understanding of atmospheric conditions including estimation of average wind speed based on frequency shifts in the power spectrum distribution. The performance of the monitor was tested over short paths by comparison to a commercial scintillometer. In addition, the monitor was used at other sites to determine atmospheric conditions at a variety of locations. Results of these experiments are presented.
Propagation of tidal waves up in Yangtze Estuary during the dry season

Tide is one of the most important hydrodynamic driving forces and has unique features in the Yangtze Estuary (YE) due to the complex geometry of third-order bifurcations and four outlets. This paper characterizes the tidal oscillations, tidal dampening, tidal asymmetry, and tidal wave propagation, which provides insights into the response of the estuary to tides during the dry season. The structural components of tidal oscillations are initially attained by tidal analysis. The increasingly richer spectrum inside the estuary shows an energy transfer corresponding to the generation and development of nonlinear overtides and compound tides. A 2-D numerical model is further set up to reproduce tidal dynamics in the estuary. The results show that the estuary is a strongly dissipative estuary with a strong nonlinear phenomenon. Three amplifications are presented in the evolution process of tidal ranges due to the channel convergence. Tidal asymmetry is spatiotemporally characterized by the M4/M2 amplitude ratio, the 2M2-M4 phase difference, and the flood-ebb duration-asymmetry parameter, and the estuary tends to be flood-dominant. There exists mimic standing waves with the phase difference of the horizontal and vertical tide close to 90° when tidal wave propagates into the estuary, especially during the neap tide. In addition, the differences in tidal distortion, tidal ranges, and tidal waves along the two routes in the South Branch (S-B) suggest the branched system behaves differently from a single system.
Blue light exposure-dependent improvement in robustness of circadian rest-activity rhythm in aged rats

The aging effects on circadian rhythms have diverse implications including changes in the pattern of rhythmic expressions, such as a wide fragmentation of the rhythm of rest-activity and decrease in amplitude of activity regulated by the suprachiasmatic nucleus (SCN). The study of blue light on biological aspects has received great current interest due, among some aspects, to its positive effects on psychiatric disorders in humans. This study aims to evaluate the effect of blue light therapy on the SCN functional aspects, through the evaluation of the rest-activity rhythm, in aging rats. For this, 33 sixteen-months-old male Wistar rats underwent continuous records of locomotor activity and were exposed to periods of 6 hours of blue light during the first half of the light phase (Zeitgeber times 0–6) for 14 days. After this, the rats were maintained at 12h:12h light:dark cycle to check the long-term effect of blue light for 14 days. Blue light repeated exposure showed positive effects on the rhythmic variables of locomotor activity in aged rats, particularly the increase in amplitude, elevation of rhythmic robustness, phase advance in acrophase, and greater consolidation of the resting phase. This effect depends on the presence of daily blue light exposure. In conclusion, our results indicate that blue light is a reliable therapy to reduce circadian dysfunctions in aged rats, but other studies assessing how blue light modulates the neural components to modulate this response are still needed.
High-throughput analysis of hematopoietic stem cell engraftment after intravenous and intracerebroventricular dosing

Hematopoietic stem/progenitor cell gene therapy (HSPC-GT) has shown clear neurological bene ﬁ t in rare diseases, which is achieved through the engraftment of genetically modi ﬁ ed mi-croglia-like cells (MLCs) in the brain. Still, the engraftment dynamics and the nature of engineered MLCs, as well as their potential use in common neurogenerative diseases, have remained largely unexplored. Here, we comprehensively characterized how different routes of administration affect the biodistribution of genetically engineered MLCs and other HSPC derivatives in mice. We generated a high-resolution sin-gle-cell transcriptional map of MLCs and discovered that they could clearly be distinguished from macrophages as well as from resident microglia by the expression of a speci ﬁ c gene signature that is re ﬂ ective of their HSPC ontogeny and irre-spective of their long-term engraftment history. Lastly, using murine models of Parkinson ’ s disease and frontotemporal dementia, we demonstrated that MLCs can deliver therapeutically relevant levels of transgenic protein
The combined use of optical remote sensing data and unattended flow‐through fluorometer measurements in the Baltic Sea

Global algorithms for chlorophyll‐a (chl‐a) concentration and primary productivity retrieval from satellite observations are often not applicable to areas that are turbid and rich in coloured dissolved organic matter (CDOM), such as the Baltic Sea. Such a turbid (Case 2) water area, with its unique optical properties, often requires a parametrization to local conditions. Water quality algorithms are also sensitive to other naturally occurring phenomena, such as temporal variations in the atmospheric properties. Therefore, adequate reference data are essential for the estimation of water quality algorithm accuracy. In this study, a comparison with Sea‐viewing Wide Field of view Sensor (SeaWiFS) data and high‐frequency flow‐through fluorometer measurements is made. These so‐called ‘ship of opportunity’ data are measured with an automated continuous sampling system onboard several merchant and passenger ships in the Baltic Sea (SOOP, the Alg@line‐system). The study is concentrated on the monitoring of spring blooms in the years 1999 and 2000. By combining Alg@line observations with satellite instrument observations, the strengths of both data sources are obtained. The Alg@line‐fluorometer data ensure a sufficient amount of field samples to parametrize remote sensing chl‐a algorithms. Information with a full spatial coverage on chl‐a fluctuations can be obtained through the use of remote sensing data.
Student satisfaction and academic efficacy during online learning with the mediating effect of student engagement: A multi-country study

The COVID-19 pandemic caused unprecedented changes to educational institutions, forcing their closure and a subsequent shift to online education to cater to student learning requirements. However, successful online learning depends on several factors and may also vary between countries. As such, this cross-sectional study sought to investigate how engagement of university students, a major driver of online learning, was influenced by course content, online interaction, student acceptance, and satisfaction with online learning, as well as self-efficacy across nine countries (China, India, Iran, Italy, Malaysia, Portugal, Serbia, Turkey, and the United Arab Emirates) during the COVID-19 pandemic. Using a questionnaire-based approach, data collected from 6,489 university students showed that student engagement was strongly linked to perception of the quality of the course content and online interactions (p < .001). The current study also indicated that online interactions are a major determinant of academic efficacy but only if mediated by engagement within the online learning context. A negative correlation between student engagement and satisfaction with online learning was found, demonstrating the importance of students being engaged behaviorally, emotionally, and cognitively to feel satisfied with learning. Academic efficacy and student satisfaction were explained by course content, online interaction, and online learning acceptance, being mediated by student engagement. Student satisfaction and, to a lesser degree academic efficacy, were also associated with online learning acceptance. Overall, the structural equation model was a good fit for the data collected from all nine countries (CFI = .947, TLI = .943; RMSEA = .068; SRMR = .048), despite differences in the percentage variations explained by each factor (no invariance), likely due to differences in levels of technology use, learning management systems, and the preparedness of teachers to migrate to full online instruction. Despite limitations, the results of this study highlight the most important factors affecting online learning, providing insight into potential approaches for improving student experiences in online learning environments.
Redox cationic frontal polymerization: a new strategy towards fast and efficient curing of defect-free fiber reinforced polymer composites

Frontal polymerization of epoxy-based thermosets is a promising curing technique for the production of carbon fiber reinforced composites (CFRCs). It exploits the exothermicity of polymerization reactions to convert liquid monomers to a solid 3D network. A self-sustaining curing reaction is triggered by heat or UV-radiation, resulting in a localized thermal reaction zone that propagates through the resin formulation. To date, frontal polymerization is limited to CFRCs with a low fiber volume percent as heat losses compromise on the propagation of the heat front, which is crucial for this autocatalytic curing mechanism. In addition, the choice of suitable epoxy monomers and thermal radical initiators is limited, as highly reactive cycloaliphatic epoxies as well as peroxides decarboxylate during radical induced cationic frontal polymerization. The resulting networks suffer from high defect rates and inferior mechanical properties. Herein, we overcome these shortcomings by introducing redox cationic frontal polymerization (RCFP) as a new frontal curing concept. In the first part of this study, the influence of stannous octoate (reducing agent) was studied on a frontally cured bisphenol A diglycidyl ether resin and mechanical and thermal properties were compared to a conventional anhydride cured counterpart. In a subsequent step, a quasi-isotropic CFRC with a fiber volume of >50 vol%, was successfully cured via RCFP. The composite exhibited a glass transition temperature > 100 °C and a low number of defects. Finally, it was demonstrated that the redox agent effectively prevents decarboxylation during frontal polymerization of a cycloaliphatic epoxy, demonstrating the versatility of RCFP in future applications.
A shallow scattering layer structures the energy seascape of an open ocean predator

Large predators frequent the open ocean where subsurface light drives visually based trophic interactions. However, we lack knowledge on how predators achieve energy balance in the unproductive open ocean where prey biomass is minimal in well-lit surface waters but high in dim midwaters in the form of scattering layers. We use an interdisciplinary approach to assess how the bioenergetics of scattering layer forays by a model predator vary across biomes. We show that the mean metabolic cost rate of daytime deep foraging dives to scattering layers decreases as much as 26% from coastal to pelagic biomes. The more favorable energetics offshore are enabled by the addition of a shallow scattering layer that, if not present, would otherwise necessitate costlier dives to deeper layers. The unprecedented importance of this shallow scattering layer challenges assumptions that the globally ubiquitous primary deep scattering layer constitutes the only mesopelagic resource regularly targeted by apex predators.
Insights into dynamics and gating properties of T2SS secretins

Secretins are outer membrane (OM) channels found in various bacterial nanomachines that secrete or assemble large extracellular structures. High-resolution 3D structures of type 2 secretion system (T2SS) secretins revealed bimodular channels with a C-module, holding a conserved central gate and an optional top gate, followed by an N-module for which multiple structural organizations have been proposed. Here, we perform a structure-driven in vivo study of the XcpD secretin, which validates one of the organizations of the N-module whose flexibility enables alternative conformations. We also show the existence of the central gate in vivo and its required flexibility, which is key for substrate passage and watertightness control. Last, functional, genomic, and phylogenetic analyses indicate that the optional top gate provides a gain of watertightness. Our data illustrate how the gating properties of T2SS secretins allow these large channels to overcome the duality between the necessity of preserving the OM impermeability while simultaneously promoting the secretion of large, folded effectors.
The role of synbiotics as adjunctive agents in the treatment of allergic rhinitis: A randomized controlled trial

Allergic rhinitis (AR) is a prevalent chronic disease affecting a significant portion of the global population. The substantial economic burden associated with treating AR necessitates the exploration of alternative therapies. Probiotics have gained attention due to their availability, minimal adverse effects, and cost‐effectiveness. The present study aims to investigate the role of synbiotics as adjunctive agents in the treatment of AR when added to standard treatment.
Geophone ground coupling

For frequencies much lower than the coupling resonant frequency, the geophone accurately follows the ground motion, but for higher frequencies the coupling can alter both the amplitude and phase of the seismic signal. The normal planting of vertical geophones in the field results in coupling adequate for conventional recording that uses frequencies less than 100 Hz. However, for very loose soils or for high-frequency seismic recording, I recommend that the geophones be buried to place the geophones in firmer soil. The coupling resonant frequency for vertical geophones is determined by the firmness of the soil, and I have measured resonant frequency ranging from 100 to 500 Hz at different locations. Because the firmness of the soil increases with depth, the coupling resonant frequency can be increased by burial of the geophones or by the use of longer spikes. The rocking of horizontal geophones causes a low-frequency coupling resonance. It is crucial that horizontal geophones be planted with their bases firmly contacting the soil. Geophones so planted have a resonance around 130 Hz, whereas those 1 cm off the ground can have a resonance of 30 Hz or lower. Soil conditions have little effect on the resonant frequency. Horizontal geophones with 1-inch spikes are as well coupled as those with longer spikes, but the best coupling is achieved by burial of the geophones. --Modified journal abstract.