Miracle-dz/UniFAR-FTUs huggingface dataset:
Role of Biotechnology simulation and remotely triggered virtual labs in complementing university education

Blended learning has been popularized in many universities in the last decade due to the rapid advances in computer technologies and relative increase in the usage of internet connectivity. A major constraint in providing high quality laboratory resources in some universities and in economically challenged countries is high costs, training personnel, training time and maintenance-related issues. Virtual and remote labs complement the real laboratory resources with virtually defined techniques including simulations, animations, remote triggering of the actual equipment and videos that facilitate user interactions. Our goal was to analyze the effectiveness of biotechnology virtual labs in integrating learning process among school and university students of ages 12-15 years and 17-24 years respectively within India. These labs were developed as part of a National mission on Education through ICT. We also focused on the use of virtual and remote labs as a new pedagogy for distance and mobile learning courses and the context of usage outside scheduled classroom timings. The evaluation of biotechnology virtual labs was performed via surveys, including online and manual feedback reports for analyzing the learning process of various student groups. Studies amongst students of different age groups suggested that virtualization helped their active learning in a traditional classroom scenario. Feedback from student users also indicated virtual and remote labs aided, mobile learning by improving their academic performance, after using virtual and remote labs (post usage) as education platform. Feedback statistics showed 90% of students used biotechnology virtual lab techniques and that helped them to get an actual feel of the experiment. All participants scored more than 70% in the post-test, improving the class average from the pre-test scenario. 91% of teachers who participated in the workshops indicated that they could use virtual and remote labs in their daily teaching process as teaching material thereby reducing their lecture preparation time. Feedback analysis also indicated improved student performance enhancing laboratory education.
Associations of serum insulin-like growth factor-I and insulin-like growth factor-binding protein 3 levels with biomarker-calibrated protein, dairy product and milk intake in the Women's Health Initiative

It is well established that protein–energy malnutrition decreases serum insulin-like growth factor (IGF)-I levels, and supplementation of 30 g of whey protein daily has been shown to increase serum IGF-I levels by 8 % after 2 years in a clinical trial. Cohort studies provide the opportunity to assess associations between dietary protein intake and IGF axis protein levels under more typical eating conditions. In the present study, we assessed the associations of circulating IGF axis protein levels (ELISA, Diagnostic Systems Laboratories) with total biomarker-calibrated protein intake, as well as with dairy product and milk intake, among postmenopausal women enrolled in the Women's Health Initiative (n 747). Analyses were carried out using multivariate linear regression models that adjusted for age, BMI, race/ethnicity, education, biomarker-calibrated energy intake, alcohol intake, smoking, physical activity and hormone therapy use. There was a positive association between milk intake and free IGF-I levels. A three-serving increase in milk intake per d (approximately 30 g of protein) was associated with an estimated average 18·6 % higher increase in free IGF-I levels (95 % CI 0·9, 39·3 %). However, total IGF-I and insulin-like growth factor-binding protein 3 (IGFBP-3) levels were not associated with milk consumption and nor were there associations between biomarker-calibrated protein intake, biomarker-calibrated energy intake, and free IGF-I, total IGF-I or IGFBP-3 levels. The findings of the present study carried out in postmenopausal women are consistent with clinical trial data suggesting a specific relationship between milk consumption and serum IGF-I levels, although in the present study this association was only statistically significant for free, but not total, IGF-I or IGFBP-3 levels.
Galaxy And Mass Assembly: accurate panchromatic photometry from optical priors using lambdar

We present the Lambda Adaptive Multi-Band Deblending Algorithm in R (LAMBDAR), a novel code for calculating matched aperture photometry across images that are neither pixel- nor PSF-matched, using prior aperture definitions derived from high resolution optical imaging. The development of this program is motivated by the desire for consistent photometry and uncertainties across large ranges of photometric imaging, for use in calculating spectral energy distributions. We describe the program, specifically key features required for robust determination of panchromatic photometry: propagation of apertures to images with arbitrary resolution, local background estimation, aperture normalisation, uncertainty determination and propagation, and object deblending. Using simulated images, we demonstrate that the program is able to recover accurate photometric measurements in both high-resolution, low-confusion, and low-resolution, high-confusion, regimes. We apply the program to the 21-band photometric dataset from the Galaxy And Mass Assembly (GAMA) Panchromatic Data Release (PDR; Driver et al. 2016), which contains imaging spanning the far-UV to the far-IR. We compare photometry derived from LAMBDAR with that presented in Driver et al. (2016), finding broad agreement between the datasets. Nonetheless, we demonstrate that the photometry from LAMBDAR is superior to that from the GAMA PDR, as determined by a reduction in the outlier rate and intrinsic scatter of colours in the LAMBDAR dataset. We similarly find a decrease in the outlier rate of stellar masses and star formation rates using LAMBDAR photometry. Finally, we note an exceptional increase in the number of UV and mid-IR sources able to be constrained, which is accompanied by a significant increase in the mid-IR colour-colour parameter-space able to be explored.
Caries prevalence and caries risk in a sample of Lebanese preschool children.

OBJECTIVES This study describes early childhood caries prevalence and caries risk in a group of Lebanese preschoolers. METHOD AND MATERIALS 99 healthy children, aged four years or less, were recruited at the Dental medicine faculty, Saint-Joseph university, Beirut, Lebanon. After parental consent, questionnaires investigated children's dietary and oral hygiene habits and parents' education and health behaviors. Oral examinations, with bite-wing radiographs when necessary, determined decayed-filled surfaces and plaque scores. Salivary testing assessed buffer capacity and streptococcus mutans (Sm) and lactobacillus (Lb) presence. The three tests (questionnaire, oral examination, salivary testing) established a caries risk assessment tool, determining subjects' caries risk scores, classified as low (C0), moderate (C1), high (C2) or very high (C3). RESULTS 25.3% of subjects were caries-free, 24.2% had 4 carious lesions or less, 28.3%, 5 to 9 lesions and 22.2% over 10 lesions. 11.1% of plaque scores were low to mild, 18.2% moderate, 46.4% high, and 24.3% very high. Salivary buffer capacity was: 29.3% high, 57.6% medium and 13.1% low. High levels of Sm, (66.7%) correlated with plaque presence and proximal caries. High levels of Lb (52.5%) correlated with plaque presence and smooth-surface caries, and correlated significantly with occlusal caries. Regular tooth brushing yielded lower plaque, but not significantly lower caries levels. Systemic fluorides were associated with lower plaque and caries scores. Children of educated parents with regular dental visits and oral hygiene had lower plaque and caries scores. Caries risk distribution was: CO: 16.2%, C1: 29.3%, C2: 15.1% and C3: 39.4%. CONCLUSION Most subjects had at least one carious lesion (74.7%), and 70.7% showed high to very high plaque scores. Over half the sample presented high or very high caries risk. These findings deserve further investigation of the Lebanese preschoolers' population.
The value of Ca 125 in the evaluation of tuberculosis activity.

The aim of the present study was to investigate the value of Ca 125, a tumour marker, in evaluation of pulmonary tuberculosis activity. This study included 96 subjects who were divided into three groups. Group 1 consisted of 40 patients with active pulmonary tuberculosis. Group 2 included 20 patients with inactive pulmonary tuberculosis. There were 36 healthy subjects in group 3. While measurement of serum Ca 125 level was performed only once in groups 2 and 3, Ca 125 levels were measured five times in group 1. The measurements were performed before the treatment, at the second, fourth and sixth months and the third year following the end of the treatment. Mean +/- SD serum Ca 125 concentrations were 109.7 +/- 86.9 U ml(-1) in group 1, 14.5 +/- 7.8 U ml(-1) in group 2 and 10.5 +/- 7.3 U ml(-1) in group 3. Serum Ca 125 levels were significantly higher in group 1 than in the other groups (P < 0.0001), but there was no significant statistical difference between the values of groups 2 and 3 (P > 0.05). Ca 125 levels in group 1 showed a significant decrease after treatment (P < 0.0001). For estimation of the activity of tuberculosis, the sensitivity and specificity of Ca 125 were found 97.5% and 100%, respectively at a 31 U ml(-1) cut-off point. Our results suggest that Ca 125 is beneficial in the determinaton of tuberculosis activity and in differentiation between active and inactive pulmonary tuberculosis.
Calcified neurocysticercotic lesions and postsurgery seizure control in temporal lobe epilepsy

Background: Several studies suggest that neurocysticercosis is the main cause of symptomatic epilepsy in developing countries. In such areas, calcified cysticercotic lesions (CCL) are frequently found in patients with complex partial seizures associated with hippocampal sclerosis (HS). The authors studied whether there are clinical and pathologic differences between HS patients with and without CCL. Methods: The authors determined the clinical and pathologic findings of 30 patients with HS and compared them with 32 patients with HS + CCL. Hippocampi from both groups were measured for fascia dentata Timm staining and cell density in hippocampal subfields. Results: In the HS + CCL group, single or multiple CCL were found in all lobes with no lobar predominance. An initial precipitating event occurred in 83.3% of HS and in 62.5% of HS + CCL. First complex partial seizure occurred at 10.1 years in HS and at 11.9 years in HS + CCL. No significant differences were found for fascia dentata Timm staining and hippocampal cell densities. Good postsurgery outcome (Engel I classification) did not differ between groups, with this result occurring in 76.6% of patients with HS and 81.2% of patients with HS + CCL. Conclusions: The presence of CCL does not influence the clinical and pathologic profile of patients with hippocampal atrophy. Clinical histories and postsurgical outcomes were similar to those of patients with classic HS, suggesting that the CCL is probably, in this set of patients, a coincidental pathology and does not have a role in epileptogenesis. –1491
Safe and cost‐effective protocol for shipment of samples from Foot‐and‐Mouth Disease suspected cases for laboratory diagnostic

An essential step towards the global control and eradication of foot-and-mouth disease (FMD) is the identification of circulating virus strains in endemic regions to implement adequate outbreak control measures. However, due to the high biological risk and the requirement for biological samples to be shipped frozen, the cost of shipping samples becomes one of major obstacles hindering submission of suspected samples to reference laboratories for virus identification. In this study, we report the development of a cost-effective and safe method for shipment of FMD samples. The protocol is based on the inactivation of FMD virus (FMDV) on lateral flow device (LFD, penside test routinely used in the field for rapid immunodetection of FMDV), allowing its subsequent detection and typing by RT-PCR and recovery of live virus upon RNA transfection into permissive cells. After live FMDV collection onto LFD strip and soaking in 0.2% citric acid solution, the virus is totally inactivated. Viral RNA is still detectable by real-time RT-PCR following inactivation, and the virus strain can be characterized by sequencing of the VP1 coding region. In addition, live virus can be rescued by transfecting RNA extract from treated LFD into cells. This protocol should help promoting submission of FMD suspected samples to reference laboratories (by reducing the cost of sample shipping) and thus characterization of FMDV strains circulating in endemic regions.
Effects of Flour and Milling Debris on Efficacy of Beta-Cyfluthrin for Control of Tribolium castaneum (Coleoptera: Tenebrionidae)

ABSTRACT Laboratory and field studies were conducted to determine if accumulation of a flour food source or milling debris affected residual efficacy of beta-cyfluthrin for control of Tribolium castaneum (Herbst), the red flour beetle. In the laboratory study, the high label rate of 20 mg active ingredient (AI)/m2 gave effective control for 8 wks, regardless of whether or not the concrete was sealed prior to application or the presence of flour contamination. However, with the low label rate of 10 mg AI/m2, the flour apparently absorbed the insecticide residues from the treated surface, and sealing the concrete did not have a beneficial effect on efficacy. Two field studies with the low label rate were conducted during autumn of 2012 and 2013 and summer of 2013, using only unsealed concrete. Accumulated milling debris caused a reduction in efficacy in the autumn studies, as shown by increased time to 100% knockdown, decreased mortality, and decreased residual efficacy. There was no such corresponding decrease in residual efficacy in the summer study. Overall, results of both studies show that accumulated food and milling debris can absorb residue of beta-cyfluthrin from a treated surface and have a negative impact on residual efficacy, particularly with the low label rate of 10 mg AI/m2.
Discrete Polarisation with an Application to the Determinants of Genocides

Inequality and polarisation are two different measures of heterogeneity. As in the case of inequality, the measurement of polarisation was initially developed in the context of a continuous dimension (income). However, in many important dimensions, like ethnicity, there are no available measures of distance across ethnic groups and individuals are mostly separated by the dichotomous perception 'we versus they'. In this article we analyse the theoretical properties of a measure of polarisation based on classifications (discrete polarisation) instead of continuous distances across groups. The second part of the article presents an application of the index of discrete ethnic polarisation to the explanation of genocides. Copyright © The Author(s). Journal compilation © Royal Economic Society 2008.
An outbreak of Escherichia coli O157:H7 infection in southern Sweden associated with consumption of fermented sausage; aspects of sausage production that increase the risk of contamination

SUMMARY A large outbreak of enterohaemorrhagic Escherichia coli (EHEC) infections occurred in southern Sweden during autumn 2002. A matched case-control study was performed and indicated an association between consumption of fermented sausage and EHEC infection (odds ratio 5·4, P<0·002). Pulsed-field gel electrophoresis analysis identified a strain of E. coli O157:H7 in clinical faecal isolates, which was identical to a strain isolated from sausage samples obtained from households of infected individuals. A combination of microbiological and epidemiological results established a link between sausage consumption and the outbreak in 30 out of a total of 39 investigated cases. Contaminated beef was suspected to be the source of infection. Delayed start of fermentation, lack of heat-treatment and a short curing period in cold temperature were identified as the main factors enabling EHEC survival. EHEC can survive throughout the entire production process of fermented sausage if curing conditions are inadequate.
Protocol Biopsies in Renal Transplantation: Insights into Patient Management and Pathogenesis

A 1‐day symposium on the application of protocol biopsies in renal transplantation was held in Boston, 21 July 2006. Representatives from centers with extensive experience in the use of protocol biopsies for routine patient care and research reported results on the pathological findings and their value in patient management. The consensus was that protocol biopsies, in experienced hands, are a safe and valuable means of detecting subclinical disease that can benefit from modification of therapy. Furthermore, molecular studies reveal evidence of activity or progression not readily appreciated by histological techniques. Wider application is expected in multicenter clinical trials to predict and validate outcomes. The principal barrier to wider use of protocol biopsies is knowledge of the benefits of intervention.
A Predictor-Corrector Algorithm for Reaction-Diffusion Equations Associated with Neural Activity on Branched Structures

In this paper, we present a numerical method for solving reaction-diffusion equations on one-dimensional branched structures. The method effectively decouples the many branches at the nodal junctions so that the equations can be solved as a system of smaller problems that are purely tridiagonal. This strategy enables a number of improvements. In particular, difficulties associated with implicit methods for closed loops in the network are eliminated, and spatial adaptivity can be easily implemented. We apply this method to the electrical activity of a neuron. A neuron can be effectively represented as a one-dimensional branched structure, and the model equations, based on the Hodgkin-Huxley cable equations, are a set of reaction equations coupled to a single diffusion process. Spatially adaptive methods are particularly effective for neuronal simulations as the region of activity is often very localized in space. Since the algorithm scales with activity instead of network size, it will make a substantial reduction in computational cost over existing methods.
Sgs1 Regulates Gene Conversion Tract Lengths and Crossovers Independently of Its Helicase Activity

ABSTRACT RecQ helicases maintain genome stability and suppress tumors in higher eukaryotes through roles in replication and DNA repair. The yeast RecQ homolog Sgs1 interacts with Top3 topoisomerase and Rmi1. In vitro, Sgs1 binds to and branch migrates Holliday junctions (HJs) and the human RecQ homolog BLM, with Top3α, resolves synthetic double HJs in a noncrossover sense. Sgs1 suppresses crossovers during the homologous recombination (HR) repair of DNA double-strand breaks (DSBs). Crossovers are associated with long gene conversion tracts, suggesting a model in which Sgs1 helicase catalyzes reverse branch migration and convergence of double HJs for noncrossover resolution by Top3. Consistent with this model, we show that allelic crossovers and gene conversion tract lengths are increased in sgs1Δ. However, crossover and tract length suppression was independent of Sgs1 helicase activity, which argues against helicase-dependent HJ convergence. HJs may converge passively by a “random walk,” and Sgs1 may play a structural role in stimulating Top3-dependent resolution. In addition to the new helicase-independent functions for Sgs1 in crossover and tract length control, we define three new helicase-dependent functions, including the suppression of chromosome loss, chromosome missegregation, and synthetic lethality in srs2Δ. We propose that Sgs1 has helicase-dependent functions in replication and helicase-independent functions in DSB repair by HR.
Exploring recollection and familiarity impairments in Parkinson’s disease

There is conflicting evidence on whether patients diagnosed with Parkinson’s disease (PD) have cognitive deficits associated with episodic memory and particularly with recognition memory. The aim of the present study was to explore whether PD patients exhibit deficits in recollection and familiarity, the two processes involved in recognition. A sample of young healthy participants (22) was tested to verify that the experimental tasks were useful estimators of recognition processes. Two further samples—one of elderly controls (16) and one of PD patients (20)—were the main focus of this research. All participants were exposed to an associative recognition test aimed at estimating recollection followed by a two-alternative forced-choice (2AFC) test designed to estimate familiarity. The analyses showed a deficit in associative recognition in PD patients and no difference between elderly controls and PD patients in the 2AFC test. By contrast, young healthy participants were better than elderly controls and PD patients in both components of recognition. Further analyses of results of the 2AFC test indicated that the measure chosen to estimate conceptual familiarity was adequate.
Awareness of cord blood collection and the impact on banking

Umbilical cord blood (UCB) is an important source of hematopoietic stem cells for transplantation especially in minority populations with limited chances of finding a histocompatible volunteer donor in the registry. UCB has the advantages of early availability, successful outcomes despite some histocompatibility mismatch, and low incidence of chronic graft‐versus‐host disease. Public cord blood banks that disseminate UCB products for transplant depend on voluntary donation at participating hospitals and obstetrical providers for collection.
Neurologic manifestations in children with North American Lyme disease

To delineate the spectrum of neurologic manifestations and the relative frequencies of different syndromes associated with North American Lyme disease, we describe 96 children referred for neurologic problems in the setting of Borrelia burgdorferi infection. The most frequent neurologic symptom was headache, and the most common sign was facial palsy. Less common manifestations were sleep disturbance, and papilledema associated with increased intracranial pressure. Signs and symptoms of peripheral nervous system involvement were infrequent. The most common clinical syndromes were mild encephalopathy, lymphocytic meningitis, and cranial neuropathy (facial nerve palsy). In contrast with adult patients with neurologic Lyme disease, meningoradiculitis (Bannwarth's syndrome) and peripheral neuropathy syndromes were rare. However, a “pseudotumor cerebri-like” syndrome seems to be unique to North American pediatric Lyme disease.