Miracle-dz/UniFAR-FTUs huggingface dataset:
Wet season nitrogen export from a residential stormwater pond

Stormwater runoff is recognized as a cause of water quality degradation because it may carry nitrogen (N) and other pollutants to aquatic ecosystems. Stormwater ponds are a stormwater control measure often used to manage stormwater runoff by holding a permanent pool of water, which reduces the peak flow, magnitude of runoff volume, and concentrations of nutrients and pollutants. We instrumented the outlet of a stormwater pond in an urban residential neighbourhood in Florida, United States to (1) investigate the concentration and composition of N forms during the summer rainy season (May to September 2016), and (2) determine the bioavailability of organic N in the stormwater pond with a bioassay experiment. A total of 144 outflow water samples over 13 storm events were collected at the outlet of the stormwater pond that collects runoff from the residential catchment. Samples were analysed for various inorganic N [ammonium (NH4–N), nitrate (NO3–N)], and organic N forms [dissolved organic nitrogen (DON), and particulate organic nitrogen (PON)]. Flow-weighted mean concentration of total N (TN) in pond outflow for all collected storm events was 1.3±1.42 mg L-1, with DON as the dominant form (78%), followed by PON and NO3–N (each at 8%), and NH4–N (6%). In the bioassay experiment, organic N (DON+PON) was significantly decreased by 25–28% after 5 days of incubation, suggesting that a portion of the DON carried from the pond outflow to receiving water bodies may be bioavailable. These results suggest that efforts to mitigate stormwater N outflows from urban ponds should incorporate both inorganic and organic N in management plans.
“Tiers of Delay”

Anticoagulation reversal is a common cause of operative delay. We sought to establish for the first time the impact this has on best practice tariff (BPT) for patients with hip fracture admitted on warfarin. All patients with hip fracture treated operatively over a 32-month period were reviewed. Basic demographics, time to theater, length of stay, and mortality were recorded for all patients. Independent samples t-tests were used to identify statistically significant differences between patients on warfarin and those not taking the drug. A total of 83 patients were admitted anticoagulated with a mean international normalized ratio of 2.65 and a median time to theater of 49.7 hours. Of these patients, 79% breached BPT, incurring significant financial loss. In the control group, 908 patients took a median 24.5 hours, a 28% breach of BPT (P < .01). Length of stay, Nottingham Hip Fracture Score, and predicted 30-day mortality were similar for both the groups. As well as affecting clinical outcome following hip fracture, delay due to anticoagulation causes considerable loss of BPT. Potential loss of revenue due to delays over the study period was £80 000, inspiring the establishment of an “early trigger” anticoagulation protocol. Although it is accepted that there are limitations to this work, it should raise awareness of the real impact of warfarin on patients with hip fracture both in terms of outcome and for the first time, loss of potential revenue.
DNA methylation profiling identifies a high effect genetic variant for lipoprotein(a) levels

ABSTRACT Changes in whole blood DNA methylation levels at several CpG sites have been associated with circulating blood lipids, specifically high-density lipoprotein and triglycerides. This study performs a discovery and validation epigenome-wide association study (EWAS) for circulating lipoprotein(a) [Lp(a)], an independent risk factor for cardiovascular diseases. Whole-blood DNA methylation profiles were assessed in a cohort of 1020 elderly individuals using the Illumina EPIC array and independent validation in 359 elderly males using the Illumina 450 k array. Plasma Lp(a) was measured using an apolipoprotein(a)-size-independent ELISA. Epigenome-wide rank regression analysis identified and validated a single CpG site, cg17028067 located in intron 1 of the LPA gene, that was significantly associated with plasma Lp(a) levels after correction for multiple testing. Genotyping of the site identified a relatively uncommon SNP (rs76735376, MAF <0.02) at the CpG site that largely explained the observed methylation effect. Rs76735376 is an expression quantitative trait loci for the LPA gene and could affect expression by altering enhancer activity. This EWAS for plasma Lp(a) identified a single CpG site within LPA. This association is due to an uncommon, but highly effective genetic variant, which was not in significant linkage disequilibrium with other variants known to influence Lp(a) levels or apo(a) isoform size. This study highlights the utility of CpG site methylation to identify potentially important genetic associations that would not be readily apparent in a comparable size genetic association study.
Defining Athletic Training in the Military Setting: A Survey Investigation Into Professional Characteristics, Preparation, and Barriers in Clinical Practice.

CONTEXT The skill sets of athletic trainers (ATs) provide a unique contribution to the US military's optimization of physical readiness, and these positions are becoming more prevalent. However, knowledge regarding the job characteristics of, and ATs' preparation for, employment in a military setting is limited. OBJECTIVE To assess the position and clinician characteristics of ATs working with military members and document their perceptions of working in the military setting. DESIGN Cross-sectional study. SETTING Online survey. PATIENTS OR OTHER PARTICIPANTS A total of 53 ATs who currently or formerly worked in the military setting. DATA COLLECTION AND ANALYSIS A Web-based survey with closed- and open-ended questions was distributed via e-mail and social media. Closed-ended data were analyzed via descriptive statistics, and open-ended questions were evaluated for common themes using thematic analysis. RESULTS Respondents were primarily males (n = 31, 58.5%), had a master's degree (n = 42, 79.2%), and were not current or former service members (n = 46, 86.8%). Positions were primarily full time (n = 50, 94.3%), contracted with an independent company (n = 27, 50.9%), and within the Army (n = 24, 45.3%). The ATs were highly satisfied with their workload and ability to apply their skill set. Qualitative analysis revealed 3 themes: (1) the context of clinical practice in the military (eg, rewarding, job scope, military environment), (2) the importance of clinical and interpersonal skills, and (3) the existence of multiple barriers (eg, hiring, military culture, lack of recognition). CONCLUSIONS Overall, ATs working in the military setting were well-qualified practitioners who were very satisfied with their current positions, yet they also reported barriers, such as working within the military culture and lack of recognition of their skill set. Although ATs indicated a neutral belief that professional degree preparation was sufficient for this clinical practice setting, the qualitative themes provided additional career-preparation advice for individuals interested in this setting.
The role of angiotensin receptor blockers in CVD risk management

ABSTRACT Introduction Angiotensin receptor blockers (ARBs) are recommended as preferential drugs in the treatment of hypertension by guidelines. In this review, we reappraise their effectiveness to preventing major cardiovascular outcomes and the recent concerns with new adverse effects. Areas covered ARBs were not superior to placebo in the prevention of all-cause deaths and combined cardiovascular events in seven randomized controlled trials (RCT). Several meta-analyses, with large number of participants, confirmed these findings. Three RCT trials, published in top journals, were retracted due to the uncertain reliability of their findings. Beside the low effectiveness in the prevention of cardiovascular disease (CVD), ARBs were implicated in one meta-analysis with an increased risk of cancer a finding that was not confirmed in another meta-analysis. In observational studies, ARBs were associated with a higher incidence of suicides. In addition, several lots of ARBs were contaminated with carcinogens. Expert opinion ARBs have not been proven to reduce CVD risk and therefore should not be preferential drugs to treat hypertension. The implication of ARBs with suicide and cancer needs to be further studied.
Clinical impact of combined epigenetic and molecular analysis of pediatric low grade gliomas.

BACKGROUND Both genetic and methylation analysis have been shown to provide insight into the diagnosis and prognosis of many brain tumors. However, the implication of methylation profiling and its interaction with genetic alterations in pediatric low-grade gliomas (PLGGs) are unclear. METHODS We performed a comprehensive analysis of PLGG with long term clinical follow up. In total 152 PLGGs were analyzed from a range of pathological subtypes including 40 gangliogliomas. Complete molecular analysis was compared to genome-wide methylation data and outcome in all patients. For further analysis of specific PLGG groups, including BRAF p.V600E mutant gliomas, we compiled an additional cohort of clinically and genetically defined tumors from 3 large centers. RESULTS Unsupervised hierarchical clustering revealed 5 novel subgroups of PLGG. These were dominated by non-neoplastic factors such as tumor location and lymphocytic infiltration. Midline PLGG clustered while deep hemispheric lesions differed from lesions in the periphery. Mutations were distributed throughout these location-driven clusters of PLGG. A novel methylation cluster suggesting high lymphocyte infiltration was confirmed pathologically and exhibited worse progression-free survival compared to PLGG harboring similar molecular alterations (p = 0.008, multivariate analysis: p = 0.035). Although the current methylation classifier revealed low confidence in 44% of cases and failed to add information in most PLGG it was helpful in reclassifying rare cases. The addition of histopathological and molecular information to specific methylation subgroups such as pleomorphic xanthoastrocytoma (PXA)-like tumors could stratify these tumors into low and high risk (p = 0.0014). CONCLUSION The PLGG methylome is affected by multiple non-neoplastic factors. Combined molecular and pathological analysis is key to provide additional information when methylation classification is used for PLGG in the clinical setting.
Rhesus Macaque Brain Developmental Trajectory: A Longitudinal Analysis Using Tensor-Based Structural Morphometry and Diffusion Tensor Imaging.

The typical developmental trajectory of brain structure among nonhuman primates (NHPs) remains poorly understood. In this study, we characterized the normative trajectory of developmental change among a cohort of rhesus monkeys (n = 28), ranging in age from 2 to 22 months, using structural MRI datasets that were longitudinally acquired every 3-4 months. We hypothesized that NHP-specific transient intracranial volume decreases reported during late infancy would be part of the typical developmental process, which is driven by volumetric contraction of gray matter in primary functional areas. To this end, we performed multiscale analyses from the whole brain to voxel level, characterizing regional heterogeneity, hemispheric asymmetry, and sexual dimorphism in developmental patterns. The longitudinal trajectory of brain development was explained by three different regional volumetric growth patterns (exponentially decreasing, undulating, and linearly increasing), which resulted in developmental brain volume curves with transient brain volumetric decreases. White matter (WM) fractional anisotropy increased with age, corresponding to WM volume increases, while mean diffusivity (MD) showed biphasic patterns. The longitudinal trajectory of brain development in young rhesus monkeys follows typical maturation patterns seen in humans, but regional volumetric and MD changes are more dynamic in rhesus monkeys compared with humans, with marked decreases followed by "rebound-like" increases.
Development of a prognostic index and screening of potential biomarkers based on immunogenomic landscape analysis of colorectal cancer

Background: Colorectal cancer (CRC) accounts for the highest fatality rate among all malignant tumors. Immunotherapy has shown great promise in management of many malignant tumors, necessitating the need to explore its role in CRC. Results: Our analysis revealed a total of 71 differentially expressed IRGs, that were associated with prognosis of CRC patients. Ten IRGs (FABP4, IGKV1-33, IGKV2D-40, IGLV6-57, NGF, RETNLB, UCN, VIP, NGFR, and OXTR) showed high prognostic performance in predicting CRC outcomes, and were further associated with tumor burden, metastasis, tumor TNM stage, gender, age, and pathological stage. Interestingly, the IRG-based prognostic index (IRGPI) reflected infiltration of multiple immune cell types. Conclusions: This model provides an effective approach for stratification and characterization of patients using IRG-based immunolabeling tools to monitor prognosis of CRC. Methods: We performed a comprehensive analysis of expression profiles for immune-related genes (IRGs) and overall survival time in 437 CRC patients from the TCGA database. We employed computational algorithms and Cox regression analysis to estimate the relationship between differentially expressed IRGs and survival rates in CRC patients. Furthermore, we investigated the mechanisms of action of the IRGs involved in CRC, and established a novel prognostic index based on multivariate Cox models.
Does a rise in BMI cause an increased risk of diabetes?: Evidence from India

Background Overnutrition increases the risk of diabetes. Evidence on the causal impact of overnutrition on diabetes is scarce for India. Considering a representative sample from India, this study examines the causal effect of a rise in the Body Mass Index (BMI) of an individual on the likelihood of being diabetic while addressing the issue of unobserved endogeneity between overnutrition and diabetes. Methods The study considers individual level data from Demographic and Health Surveys (DHS) of India, namely, National Family Health Survey (NFHS) for the year 2015–16. The NFHS is a large-scale, multi-round survey conducted in a representative sample of households throughout India. The survey covers females having age 15–49 years and males having age 15–54 years. The instrument variable approach is used to address the potential endogeneity in the relationship between BMI and diabetes. We instrument BMI of an individual by BMI of a non-biologically related household member. Ordered Probit, Probit and IV-Probit models are estimated using two alternative definitions for measuring diabetes–self-reported diabetes status and blood glucose levels (ordinal measure). Results The coefficients obtained from the Ordered Probit and Probit models are much smaller than those estimated by an IV-Probit model. The latter estimates the causal impact of a rise in BMI on diabetes by taking into account the effect of the unobserved genetic and other related factors. The likelihood of being diabetic is twice or more among the overweight and obese individuals as compared to non-overweight individuals in all the specifications. With a unit increase in BMI the probability of being diabetic increases by about 1.5% among overweight and obese individuals and by 0.5% among the non-overweight individuals in the IV-Probit model. Similar results from the Ordered Probit model show that on average, the overweight and obese individuals experience about 0.2% increase in the probability of being diabetic and about 0.4% increase in the probability of being prediabetic. Conclusion Our study demonstrates that the likelihood of being both prediabetic and diabetic is higher among the overweight and obese individuals as compared to the non-overweight individuals. We also find that the level of risk of being prediabetic or diabetic differs across gender, wealth quintiles and regions and the effects are more severe among population in the urban areas, belonging to the richest wealth quintile and men. Our findings have significant implications for the policy formulation as diabetes has a substantial health and economic burden associated with it. Future studies may investigate the effect of abdominal obesity on diabetes.
Aging Reduces Cerebral Blood Flow Regulation Following an Acute Hypertensive Stimulus.

Aging increases arterial stiffness which has a negative impact on cerebral blood flow (CBF) regulation (decreases CBF and increases CBF pulsatility). The association between arterial stiffness and CBF pulsatility may, in part, explain the relationship between elevated blood pressure (BP) fluctuations and end-organ disease with aging. To understand the mechanisms by which large BP alterations influences cerebral vascular regulation in both young and old, we examined the effects of age on central and cerebral vascular regulation following an acute hypertensive stimulus (resistance-exercise (RE)). Measurements were obtained pre and immediate, 5-, and 30-min post-RE in young (n=35) and older (n=26) adults. Measurements included cerebral blood velocity (CBv), CBv pulsatility (cerebrovascular regulation), central pulse wave velocity (PWV), beta-stiffness index (β) and carotid blood flow pulsatility. Central hemodynamics and BP were continuously recorded. Mean CBv increased immediately post-RE only in the young and decreased below baseline at 5-min post-RE in both groups (interaction, p<0.05). Older adults had a greater increase in CBv pulsatility immediately post-RE compared to the young (interaction, p<0.05). Mean BP was higher and carotid pulsatility was lower in the older group and increased immediately post-RE in both groups (p<0.05). PWV increased immediately post-RE (p<0.05). There were no changes in β. In conclusion, with aging, greater central arterial stiffness leads to a greater transmission of pulsatile blood velocity from the systemic circulation to the cerebral circulation following an acute hypertensive stress.
A GIS-Based Method for Analysing the Association Between School-Built Environment and Home-School Route Measures with Active Commuting to School in Urban Children and Adolescents

In the current call for a greater human health and well-being as a sustainable development goal, to encourage active commuting to and from school (ACS) seems to be a key factor. Research focusing on the analysis of the association between environmental factors and ACS in children and adolescents has reported limited and inconclusive evidence, so more knowledge is needed about it. The main aim of this study is to examine the association between different built environmental factors of both school neighbourhood and home-school route with ACS of children and adolescents belonging to urban areas. The ACS level was evaluated using a self-reported questionnaire. Built environment variables (i.e., density of residents, street connectivity and mixed land use) within a school catchment area and home-school route characteristics (i.e., distance and pedestrian route directness—PRD) were measured using a geographic information system (GIS) and examined together with ACS levels. Subsequently, the association between environmental factors and ACS was analysed by binary logistic regression. Several cut-off points of the route measures were explored using receiver operating characteristic (ROC) curves. In addition, the PRD was further studied regarding different thresholds. The results showed that 70.5% of the participants were active and there were significant associations between most environmental factors and ACS. Most participants walked to school when routes were short (distance variable in children: OR = 0.980; p = 0.038; and adolescents: OR = 0.866; p < 0.001) and partially direct (PRD variable in children: OR = 11.334; p < 0.001; and adolescents: OR = 3.513; p < 0.001), the latter specially for children. Mixed land uses (OR = 2.037; p < 0.001) and a high density of street intersections (OR = 1.640; p < 0.001) clearly encouraged adolescents walking and slightly discouraged children walking (OR = 0.657, p = 0.010; and OR = 0.692, p = 0.025, respectively). The assessment of ACS together with the environmental factors using GIS separately for children and adolescents can inform future friendly and sustainable communities.
Dietary Intakes of Trace Elements and the Risk of Kidney Cancer: The Singapore Chinese Health Study

Abstract Background: Epidemiological studies have demonstrated separately that patients with kidney stone may have higher dietary intake of zinc and higher risk of developing kidney cancer. We prospectively assessed the associations of dietary zinc and other trace elements with kidney cancer risk for the first time. Methods: We used data from the prospective Singapore Chinese Health Study that recruited 63,257 adult Chinese residing in Singapore between 1993 and 1998. A validated food frequency questionnaire and the Singapore Food Composition Database was used to compute the values of intake for zinc, copper and manganese. We identified incident cancer cases via linkage with nationwide cancer registry, and used Cox proportional hazard models to compute hazard ratio (HR) and 95% confidence interval (CI) for the association with kidney cancer risk. Results: There were 229 incident kidney cancer cases after median follow-up of 20.1 years. Dietary zinc intake was positively associated with higher kidney cancer risk; the HR comparing the extreme quartiles of zinc intake was 1.74 (95% CI: 1.02-2.97; P-trend = 0.033). Conversely, intakes of copper and manganese were not associated with kidney cancer risk. Conclusions: The positive association between dietary zinc and risk of kidney cancer suggests that zinc may be implicated in renal carcinogenesis.
Effect of photocatalysis (TiO2/UVA) on the inactivation and inhibition of Pseudomonas aeruginosa virulence factors expression

ABSTRACT Water disinfection using visible light-active photocatalyst has recently attracted more attention due to its potential to inactivate microbes. In this study, we have investigated the efficiency of photocatalysis (TiO2/UVA) on the inactivation of Pseudomonas aeruginosa and the attenuation of its virulence factors. For this aim, the photocatalytic effects of TiO2/UVA on the cultivability and viability of P. aeruginosa were investigated. Furthermore, during the photocatalysis, the morphology of the bacterial cells was examined by atomic force microscopy (AFM) while the virulence factors were assessed by protease and lipase activities in addition to the mobility and communication of cells. The results revealed that during the photocatalysis the bacterial cells lost their cultivability and viability on agar under the action of the reactive oxygen species generated by the photocatalytic reaction. In addition, AFM observations have shown a damage of the bacterial membrane and a total disruption of the bacterial cells. Moreover, the major virulence factors such as biofilm, lipase and protease expression have been markedly inhibited by TiO2/UVA treatment. In addition, the bacteria lost their ability of communication ‘quorum sensing’ and mobility with twitching and swarming types after 60 min of photocatalytic treatment. Accordingly, TiO2/UVA is an effective method to reduce P. aeruginosa virulence and to prevent biofilm formation. GRAPHICAL ABSTRACT