Miracle-dz/UniFAR-FTUs huggingface dataset:
Assessing the potential of polygenic scores to strengthen medical risk prediction models of COVID-19

As findings on the epidemiological and genetic risk factors for coronavirus disease-19 (COVID-19) continue to accrue, their joint power and significance for prospective clinical applications remains virtually unexplored. Severity of symptoms in individuals affected by COVID-19 spans a broad spectrum, reflective of heterogeneous host susceptibilities across the population. Here, we assessed the utility of epidemiological risk factors to predict disease severity prospectively, and interrogated genetic information (polygenic scores) to evaluate whether they can provide further insights into symptom heterogeneity. A standard model was trained to predict severe COVID-19 based on principal component analysis and logistic regression based on information from eight known medical risk factors for COVID-19 measured before 2018. In UK Biobank participants of European ancestry, the model achieved a relatively high performance (area under the receiver operating characteristic curve ~90%). Polygenic scores for COVID-19 computed from summary statistics of the Covid19 Host Genetics Initiative displayed significant associations with COVID-19 in the UK Biobank (p-values as low as 3.96e-9, all with R2 under 1%), but were unable to robustly improve predictive performance of the non-genetic factors. However, error analysis of the non-genetic models suggested that affected individuals misclassified by the medical risk factors (predicted low risk but actual high risk) display a small but consistent increase in polygenic scores. Overall, the results indicate that simple models based on health-related epidemiological factors measured years before COVID-19 onset can achieve high predictive power. Associations between COVID-19 and genetic factors were statistically robust, but currently they have limited predictive power for translational settings. Despite that, the outcomes also suggest that severely affected cases with a medical history profile of low risk might be partly explained by polygenic factors, prompting development of boosted COVID-19 polygenic models based on new data and tools to aid risk-prediction.
Evaluating the effectiveness of laser hair reduction using a home use laser in comparison to a Diode laser

Background Lasers of different wavelengths have been developed for use in permanent hair reduction. An increase in the manufacturing of home-use laser hair removal devices allows for these treatments to be performed in the comfort of your own home at an affordable cost. Objective To evaluate the effectiveness of permanent hair reduction using a Diode laser in comparison to the Silk’n™ Flash and Go Lux (475–1200 nm) home-use laser. Methods Fifteen females received six axillae laser hair removal treatments at two to four-week intervals using either a professional laser or home-use laser device. Photographs and hair counts were taken before each treatment and at a three week follow up. A T–test was used to evaluate statistical significance, and regression analysis to determine a difference in the effects. Pain scores and side effects were recorded by a visual analogue scale in a satisfaction questionnaire. Results The professional laser showed an overall hair reduction of 85% on the right axilla and 88% on the left axilla. The home-use laser showed an overall reduction of 52% on the right axilla and 46,3% on the left axilla. Mild side effects were experienced for both laser devices. There were no serious adverse effects reported, safety features are effective to a certain extent. Conclusion The Flash & Go Lux home-use laser can effectively reduce hair at a slower rate than the Diode laser. The home-use laser device offers protection against accidental exposure to light and use on darker skin types. Risks of retinal damage due to long-term exposure to home-use laser light are still cause for concern.
Rapid, repeatable landscape‐scale mapping of tree, hedgerow, and woodland habitats (THaW), using airborne LiDAR and spaceborne SAR data

Abstract In the UK, tree, hedgerow, and woodland (THaW) habitats are key havens for biodiversity and support many related ecosystem services. The UK is entering a period of agricultural policy realignment with respect to natural capital and climate change, meaning that now is a critical time to evaluate the distribution, resilience, and dynamics of THaW habitats. The fine‐grained nature of habitats like hedgerows necessitates mapping of these features at relatively fine spatial resolution—and freely available public archives of airborne laser scanning (LiDAR) data at <2 m spatial resolution offer a means of doing so within UK settings. The high cost of LiDAR prohibits use for regular monitoring of THaW change, but space‐borne sensors such as Sentinel‐1 Synthetic Aperture Radar (SAR at ca. 10 m resolution) can potentially meet this need once baseline distributions are established. We address two aims in this manuscript—(1) to rapidly quantify THaW across UK landscapes using LiDAR data and (2) to monitor canopy change intra‐ and inter‐annually using SAR data. We show that workflows applied to airborne LiDAR data can deliver THaW baselines at 2 m resolution, with positional accuracy of >90%. It was also possible to combine LiDAR mapping data and Sentinel‐1 SAR data to rapidly track canopy change through time (i.e., every 3 months) using, cloud‐based processing via Google Earth Engine. The resultant toolkit is also provided as an open‐access web app. The results highlight that whilst nearly 90% of the tallest trees (above 15 m) are captured within the National Forest Inventory (NFI) database only 50% of THaW with a canopy height range of 3–15 m are recorded. Current estimates of tree distribution neglect these finer‐grained features (i.e., smaller or less contiguous THaW canopies), which we argue will account for a significant proportion of landscape THaW cover.
Captive-reared Delta Smelt (Hypomesus transpacificus) exhibit high survival in natural conditions using in situ enclosures

Conservation of endangered fishes commonly includes captive breeding, applied research, and management. Since 1996, a captive breeding program has existed for the federally threatened and California endangered Delta Smelt Hypomesus transpacificus, an osmerid fish endemic to the upper San Francisco Estuary. Although this program serves as a captive refuge population, with experimental releases being initiated to supplement the wild population, it was uncertain how individuals would survive, feed, and maintain condition outside hatchery conditions. We evaluated this and the effects of three enclosure designs (41% open, 63% open, and 63% open with partial outer mesh wrap) on growth, survival, and feeding efficacy of cultured Delta Smelt at two locations (Sacramento River near Rio Vista, CA and in Sacramento River Deepwater Ship Channel) in the wild. Enclosures exposed fish to semi-natural conditions (ambient environmental fluctuations and wild food resources) but prevented escape and predation. After four weeks, survival was high for all enclosure types (94–100%) at both locations. The change in condition and weight was variable between sites, increasing at the first location but decreasing at the second location. Gut content analysis showed that fish consumed wild zooplankton that came into the enclosures. Cumulatively, results show that captive-reared Delta Smelt can survive and forage successfully when housed in enclosures under semi-natural conditions in the wild. When comparing enclosure types, we observed no significant difference in fish weight changes (p = 0.58–0.81 across sites). The success of housing captive-reared Delta Smelt in enclosures in the wild provides preliminary evidence that these fish may be suitable to supplement the wild population in the San Francisco Estuary. Furthermore, these enclosures are a new tool to test the efficacy of habitat management actions or to acclimate fish to wild conditions as a soft release strategy for recently initiated supplementation efforts.
Data management technique for eddy-covariance calculation of the air-sea fluxes

In the air-sea flux observations,there is a problem that the non-turbulence signals,caused by air-flow distortions,may affect the fluctuations of the wind speeds and distort the calculated fluxes by using the eddy-covariance method.In order to solve this problem,a study on improving the data-management technique is made here.By the way,the idea is borrowed from the inertial-dissipation method.By virtue of the-5/3 rate of the turbulent inertial-dissipation,a new approach is found here to get rid of the non-turbulence signals.Taking the calculation of the momentum as an example,the managements on observed wind speeds accord well with that of the empirical formula.Comparing with the usual software for flux calculation,this data management technique can greatly decrease the effect of the non-turbulence signals and give out a more credible result.So this technique can be used for the research and exploitation of the new flux-calculation software.
Single Leg Lateral and Horizontal Loaded Jump Testing: Reliability and Correlation With Long Track Sprint Speed Skating Performance

Abstract Zukowski, MH, Jordan, MJ, and Herzog, W. Single leg lateral and horizontal loaded jump testing: reliability and correlation with long track sprint speed skating performance. J Strength Cond Res 37(11): 2251–2259, 2023—This study examined the intraday reliability of 2 novel unilateral loaded jump protocols designed for long track speed skaters. Highly trained (n = 26), national level athletes performed single leg jumps with a horizontal robotic resistance across 3 external load conditions (10 N, 7.5% of body mass and 15% of body mass) using their dominant limb. Jumps were performed in both the horizontal (JumpHorz) and lateral (JumpLat) direction to replicate the body position and line of force application observed during the running and gliding phases of on-ice acceleration. Subjects completed 2 consecutive trials of the same jump protocol to examine the intraday reliability of the peak velocity achieved for each loading condition. Peak velocity across each jump type and loading condition had good reliability (intraclass correlation coefficient >0.8, coefficient of variation <5%). Significant positive relationships (r = 0.5–0.8, p < 0.05; n = 22) were observed between all jump conditions and on-ice sprint race split times obtained including 100, 400, and 500 m. Our results indicate that unilateral loaded jump tests are reliable in speed skating athletes and may help practitioners diagnose and monitor lower-limb maximal muscle power capacity in a sport-specific manner.
A two stage free-piston driver for expansion tubes

A new free-piston driven expansion tube facility has been designed and constructed at the University of Queensland. This paper presents some results from the commissioning of the driver unit. The driver is a unique two stage free-piston device employing a compound piston consisting of two separate parts. Experimental results outline the performance of the two stage machine and show its feasibility for driving an expansion tube facility.
Suppression of the gene encoding PDZ domain-containing protein decreases cold tolerance and overwintering survival of the mosquito, Culex pipiens (Culicidae: Diptera)

In diapausing mosquitoes, cold tolerance and prolonged lifespan are important features that are crucial for overwintering success. In the mosquito Culex pipiens, we suggest that PDZ domain-containing protein (PDZ) (post synaptic density protein [PSD95], drosophila disc large tumor suppressor [Dlg1], and zonula occludens-1 protein [zo-1]) domain-containing protein is involved with these diapause features for overwintering survival in Culex mosquitoes.The expression level of pdz was significantly higher in diapausing adult females in the early stage in comparison to their nondiapausing counterparts. Suppression of the gene that encodes PDZ by RNA interference significantly decreased actin accumulation in the midgut of early-stage adult diapausing females. Inhibition of pdz also significantly reduced the survivability of diapausing females which indicates that this protein could play a key role in preserving the midgut tissues during early diapause. Graphical Abstract
Activation of Inflammasome complex in nasopharyngeal epithelial cells from patients with Coronavirus disease 2019 contributes to inflammatory state and worse disease outcomes

Pathogenesis of Coronavirus disease 2019 (COVID‐19) has been associated with dysregulation of both adaptive and innate immune systems. Hence, we determined the contribution of inflammasome in the nasopharyngeal epithelial cells isolated from COVID‐19 subjects to disease pathogenesis and outcomes. Epithelial cells from 150 COVID‐19 patients and 150 healthy controls were yielded through nasopharyngeal swab sampling. Patients were categorized into three groups of those with clinical presentations/need hospitalization, with clinical presentations/no need hospitalization and cases without clinical symptoms/no need hospitalization. Finally, the transcriptional amount of inflammasome related genes were assessed in the nasopharyngeal epithelial cells using qPCR. There was a significant upregulation of nod‐like receptor (NLR) family pyrin domain containing 1 (NLRP1), nod‐like receptor (NLR) family pyrin domain containing 3 (NLRP3), Apoptosis‐associated speck‐like protein containing a CARD (ASC) and Caspase‐1 mRNA expressions in patients compared to controls. NLRP1, NLRP3, ASC and Caspase‐1 were upregulated in epithelial cells of patients with clinical symptoms/need hospitalization and cases with clinical symptoms/no need hospitalization when compared to controls. There was a correlation between expression of inflammasome‐related genes and clinicopathological features. Abnormal expression of inflammasome‐related genes in the nasopharyngeal epithelial cells obtained from COVID‐19 patients may be of prognostic value to determine the intensity of the disease's outcomes and requirement for alternative supports in hospitals.
Feasibility and Utility of a Fitbit Tracker Among Ambulatory Children and Youth With Disabilities.

PURPOSE To examine the feasibility and utility of the Fitbit Charge HR to estimate physical activity among ambulatory children and youth with disabilities. METHOD Participants (4-17 y old) with disabilities were recruited and asked to wear a Fitbit for 28 days. Feasibility was assessed as the number of participants who adhered to the 28-day protocol. Heat maps were generated to visually examine variability in step count by age, gender, and disability group. Between-group differences for wear time and step counts by age, gender, and disability type were assessed by independent sample t tests for gender and disability group, and a 1-way analysis of variance for age group. RESULTS Participants (N = 157; median age = 10 y; 71% boys; 71% nonphysical disabilities) averaged 21 valid days of wear time. Wear time was higher in girls than boys (mean difference = 18.0; 95% confidence interval [CI], 6.8 to 29.1), and in preadolescents (mean difference = 27.6; 95% CI, 15.5 to 39.7) and adolescents (mean difference = -21.2; 95% CI, -33.6 to -8.7) than children. More daily steps were taken by boys than girls (mean difference = -1040; 95% CI, -1465 to -615) and individuals with a nonphysical disability than a physical disability (mean difference = -1120; 95% CI, -1474 to -765). The heat maps showed peaks in physical activity on weekdays before school, at recess, lunchtime, and after school. CONCLUSION The Fitbit is a feasible tool for monitoring physical activity among ambulatory children and youth with disabilities and may be useful for population-level surveillance and intervention.
Nonlinear predictive control based on LS-SVM

An identification method of nonlinear systems using least squares support vector machine(LS-SVM) is proposed. The constraints of inequalities in the classical SVM approach are replaced by equality-type constraints in LS-SVM. The LS-SVM solution follows directly from solving a set of linear equations instead of quadratic programming. A kind of nonlinear predictive control scheme based on the LS-SVM model is presented. Simulation results for a CSTR process show that LS-SVM can be trained fastly. The LS-SVM has good ability of modeling nonlinear process and good generalization under small data set available. The nonlinear predictive control strategy based on LS-SVM model shows satisfactory performance.
Photorealistic 3-Dimensional Models of the Anatomy and Neurosurgical Approaches to the V2, V3, and V4 Segments of the Vertebral Artery

BACKGROUND: The vertebral artery (VA) has a tortuous course subdivided into 4 segments (V1-V4). For neurosurgeons, a thorough knowledge of the 3-dimensional (3D) anatomy at different segments is a prerequisite for safe surgery. New technologies allowing creation of photorealistic 3D models may enhance the anatomic understanding of this complex region. OBJECTIVE: To create photorealistic 3D models illustrating the anatomy and surgical steps needed for safe neurosurgical exposure of the VA. METHODS: We dissected 2 latex injected cadaver heads. Anatomic layered dissections were performed on the first specimen. On the second specimen, the two classical approaches to the VA (far lateral and anterolateral) were realized. Every step of dissection was scanned using photogrammetry technology that allowed processing of 3D data from 2-dimensional photographs by a simplified algorithm mainly based on a dedicated mobile phone application and open-source 3D modeling software. For selected microscopic 3D anatomy, we used an operating microscope to generate 3D models. RESULTS: Classic anatomic (n=17) and microsurgical (n=12) 3D photorealistic models based on cadaver dissections were created. The models allow observation of the spatial relations of each anatomic structure of interest and have an immersive view of the approaches to the V2-V4 segments of the VA. Once generated, these models may easily be shared on any digital device or web-based platforms for 3D visualization. CONCLUSIONS: Photorealistic 3D scanning technology is a promising tool to present complex anatomy in a more comprehensive way. These 3D models can be used for education, training, and potentially preoperative planning.
ASIP gene polymorphism associated with black coat and skin color in Murrah buffalo

The melanogenesis pathway regulates pigmentation through the synergic action of various genes. We are interested in analyzing the genetic variations in the ASIP which determine eumelanin production in the dermis layer. In the present study, the ASIP gene was characterized in buffalo and 268 genetically unrelated buffaloes belonging to 10 different populations were genotyped for the non‐synonymous SNP (c.292C>T) identified in the exon 3 region of the gene using Tetra‐ARMS‐PCR. The TT genotype occurred at a higher rate in Murrah, followed by Nili Ravi, Tripura, and Paralakhemundi (42.63%, 19.30%, 3.45%, and 3.33%). These results convey the association of the black coat color of Murrah with the ASIP gene TT genotype and the lighter shades of black coat (brown and grayish‐black) color phenotype in other breeds with the CC genotype.
Determination of the biological origin of enzyme preparations using SDS-PAGE and peptide mass fingerprinting

Abstract Enzymes are mainly extracted from the culture broth of microorganisms. Various commercially available enzyme preparations (EPs) are derived from different microorganisms, and the source of the EP should be the same as that mentioned in the manufacture’s information. The development of analytical methods that can determine the origin of the final products is important for ensuring that the EPs are nontoxic, especially when used as food additives. In this study, various EPs were subjected to SDS-PAGE, and the main protein bands were excised. After in-gel digestion, the generated peptides were analysed using MALDI-TOF MS, and protein identification was performed by searching the set of peptide masses against protein databases. In total, 36 EPs including amylase, β-galactosidase, cellulase, hemicellulase and protease were analysed, and the information about the enzyme sources was obtained for 30 EPs. Among these, the biological sources determined for 25 EPs were consistent with the manufacturer’s information; for the remaining five, enzymes produced by closely-related species were shown as matching proteins due to high sequence similarity. Six enzymes derived from four microorganisms could not be identified because their protein sequences were not registered in the database. As these databases are expanded, this approach of using SDS-PAGE and peptide mass fingerprinting (PMF) can determine the biological origin of enzymes rapidly and contribute to ensuring the safety of EPs.
Comparison on Bayesian Ying-Yang theory based clustering number selection criterion with information theoretical criteria

A criterion based on the Bayesian Ying Yang learning theory and system was proposed by Xu (1995, 1996, 1997) for selecting the number of clusters in the clustering analysis and the number of Gaussians in a finite mixture model. In this paper we compare the performance of this criterion with other existing cluster number selection criteria such as Akaike's information criterion (AIC), CAIC, etc.
Activity recovery for differently shaped objects in quantitative SPECT

Objective. The aim was to theoretically and experimentally investigate recovery in SPECT images with objects of different shapes. Furthermore, the accuracy of volume estimation by thresholding was studied for those shapes. Approach. Nine spheres, nine oblate spheroids, and nine prolate spheroids phantom inserts were used, of which the six smaller spheres were part of the NEMA IEC body phantom and the rest of the inserts were 3D-printed. The inserts were filled with 99mTc and 177Lu. When filled with 99mTc, SPECT images were acquired in a Siemens Symbia Intevo Bold gamma camera and when filled with 177Lu in a General Electric NM/CT 870 DR gamma camera. The signal rate per activity (SRPA) was determined for all inserts and represented as a function of the volume-to-surface ratio and of the volume-equivalent radius using VOIs defined according to the sphere dimensions and VOIs defined using thresholding. Experimental values were compared with theoretical curves obtained analytically (spheres) or numerically (spheroids), starting from the convolution of a source distribution with a point-spread function. Validation of the activity estimation strategy was performed using four 3D-printed ellipsoids. Lastly, the threshold values necessary to determine the volume of each insert were obtained. Main results. Results showed that SRPA values for the oblate spheroids diverted from the other inserts, when SRPA were represented as a function of the volume-equivalent radius. However, SRPA values for all inserts followed a similar behaviour when represented as a function of the volume-to-surface ratio. Results for ellipsoids were in agreement with those results. For the three types of inserts the volume could be accurately estimated using a threshold method for volumes larger than 25 ml. Significance. Determination of SRPA independently of lesion or organ shape should decrease uncertainties in estimated activities and thereby, in the long term, be beneficial to patient care.