Miracle-dz/UniFAR-FTUs huggingface dataset:
Dnmt2-dependent methylomes lack defined DNA methylation patterns

Several organisms have retained methyltransferase 2 (Dnmt2) as their only candidate DNA methyltransferase gene. However, information about Dnmt2-dependent methylation patterns has been limited to a few isolated loci and the results have been discussed controversially. In addition, recent studies have shown that Dnmt2 functions as a tRNA methyltransferase, which raised the possibility that Dnmt2-only genomes might be unmethylated. We have now used whole-genome bisulfite sequencing to analyze the methylomes of Dnmt2-only organisms at single-base resolution. Our results show that the genomes of Schistosoma mansoni and Drosophila melanogaster lack detectable DNA methylation patterns. Residual unconverted cytosine residues shared many attributes with bisulfite deamination artifacts and were observed at comparable levels in Dnmt2-deficient flies. Furthermore, genetically modified Dnmt2-only mouse embryonic stem cells lost the DNA methylation patterns found in wild-type cells. Our results thus uncover fundamental differences among animal methylomes and suggest that DNA methylation is dispensable for a considerable number of eukaryotic organisms.
Recency-Bounded Verification of Dynamic Database-Driven Systems

We propose a formalism to model database-driven systems, called database manipulating systems (DMS). The actions of a (DMS) modify the current instance of a relational database by adding new elements into the database, deleting tuples from the relations and adding tuples to the relations. The elements which are modified by an action are chosen by (full) first-order queries. (DMS) is a highly expressive model and can be thought of as a succinct representation of an infinite state relational transition system, in line with similar models proposed in the literature. We propose monadic second order logic (MSO-FO) to reason about sequences of database instances appearing along a run. Unsurprisingly, the linear-time model checking problem of (DMS) against (MSO-FO) is undecidable. Towards decidability, we propose under-approximate model checking of (DMS), where the under-approximation parameter is the "bound on recency". In a k-recency-bounded run, only the most recent k elements in the current active domain may be modified by an action. More runs can be verified by increasing the bound on recency. Our main result shows that recency-bounded model checking of (DMS) against (MSO-FO) is decidable, by a reduction to the satisfiability problem of MSO over nested words.
Morphology and Mechanical Properties of Foamed Polyethylene-Polypropylene Blends

Blends of high-density polyethylene and polypropylene are foamed by means of extrusion using azodicarbonamide as a chemical blowing agent to study the effect of blending on the morphological and mechanical properties. At 0.5 wt% of blowing agent, optimum foam density is found to be around 417 kg/m3 for each blend composition, but the average cell size ranges between 130 and 301 mm depending on the blend composition. It is believed that the dispersed polymer phase acts as nucleating sites producing foams with smaller cell sizes. Owing to the incompatibility between both the polymers, the best tensile and impact properties are obtained for neat polymers. Simple semi-empirical models are proposed to predict the tensile and impact properties of the foams.
The Uncoordinated-5 Homolog B Receptor Affects Hepatic Ischemia Reperfusion Injury

Recent evidence has demonstrated additional roles for the neuronal guidance protein receptor UNC5B outside the nervous system. Given the fact that ischemia reperfusion injury (IRI) of the liver is a common source of liver dysfunction and the role of UNC5B during an acute inflammatory response we investigated the role of UNC5B on acute hepatic IRI. We report here that UNC5B+/− mice display reduced hepatic IRI and neutrophil (PMN) infiltration compared to WT controls. This correlated with serum levels of lactate dehydrogenase (LDH), aspartate- (AST) and alanine- (ALT) aminotransferase, the presence of PMN within ischemic hepatic tissue, and serum levels of inflammatory cytokines. Moreover, injection of an anti-UNC5B antibody resulted in a significant reduction of hepatic IR injury. This was associated with reduced parameters of liver injury (LDH, ALT, AST) and accumulation of PMN within the injured hepatic tissue. In conclusion our studies demonstrate a significant role for UNC5B in the development of hepatic IRI and identified UNC5B as a potential drug target to prevent liver dysfunction in the future.
Residual stress in porous silicon film with micro-Raman spectroscopy

Porous silicon (PS) film was widely used in micro-systems sensors duo to its special properties. Nevertheless, intrinsic and processing residual stresses always introduced into porous silicon, always inducing the collapses and cracks inside the film and on the interface when the PS structure in service and/or during manufacture and storage. This paper presents a systematic study on the Raman stress measurement of porous silicon. Firstly, a theoretical model on the analytic relationship between stress and Raman-shift is presented by analyzing the micro-structures and transversely isotropy property of forest-like porous silicon film prepared on Si wafer by electrochemical etching. Meanwhile, the nano-indentation and digital Speckle correlations is utilized to determined the Young's moduli and Poisson's ratios of the PS samples, respectively. Based on the theoretical model and material parameters above, the coefficients in the Raman to stress relationship of porous silicon are achieved. By applying Micro-Raman spectroscopy, the distribution of intrinsic residual stress along the depth of PS-film/Si-substrate structure is measured. Then, a dynamical capillarity experiment is preformed to analyze the real-time stress transformation during PS drying, and the failure mechanisms by capillarity are discussed.
Emerging drugs for autonomic dysfunction in Parkinson's disease

Introduction: Autonomic dysfunction, including orthostatic hypotension (OH), sialorrhea, sexual dysfunction, urinary dysfunction and constipation is a common feature of Parkinson's disease (PD). Even though its treatment has been recognized as a major unmet need in PD, there is a paucity of clinical trials to assess their treatment. Areas covered: Evidence about the efficacy and safety of available treatments for autonomic dysfunction is summarized. Potential targets for upcoming therapies are then discussed in light of what is currently known about the physiopathology of each disorder in PD. Proof-of-concept trials and circumstantial evidence about treatments for autonomic dysfunction as well as upcoming clinical trials are discussed. Finally, critical aspects of clinical trials design are considered. Expert opinion: Botulinum toxin (BTX) or glycopyrrolate might be used for sialorrhea whereas macrogol could be useful in constipation. There is preliminary evidence suggesting that fludrocortisone, domperidone, droxidopa or fipamezole may be effective for the treatment of OH. Tropicamide, clonidine or radiotherapy are under development for sialorrhea. Sildenafil may be effective for the treatment of erectile dysfunction; BTX or behavioral therapy for urinary incontinence and lubiprostone and probiotics for constipation. Sound clinical trials are needed in order to allow firm evidence-based recommendations about these treatments.
Spaces of IT intrapreneurial freedom: a classic grounded theory

This paper addresses the question of fostering and developing innovation in IT companies and IT departments. This paper uses a Classic Grounded Theory based on interviews with CEOs, CIOs, IT Managers and IT employees. Spaces of IT Intrapreneurial Freedom (SoIF) is the theoretical core category of our model. SoIF has several characteristics related to its establishment and maintenance (e.g. Protecting the SoIF, Leaving the space) and is composed of seven lower-level concepts (e.g. material SoIF, Organizational Freedom). In addition, through the development of SoIF, we suggest that CEO, IT entrepreneurs, CIO and IT managers can improve the retention and innovativeness of their best and most innovative IT intrapreneurial employees.
Measurement and analysis of truck transport environment in Brazil

Increasing trade in today's global economy requires packaging to be designed to contain, protect and deliver products without damage during transportation and handling. Vibration forces that occur during transportation are one of the most significant causes of damage during shipping. The objective of this study was to quantify and analyse the vibration that occurs during truck transport in Brazil. The study was done using two types of trucks: small local trucks for local metropolitan distribution areas and larger tractor‐trailers for cross‐country transportation. Ten metropolitan areas in different regions of Brazil were selected for 1‐day trips representing normal delivery. These trips encountered varying road surfaces (asphalt, concrete, stone and dirt). The long distance trips were done on highways that were more than 1200 km long. The vertical vibration levels were higher than the lateral and longitudinal levels as expected. A composite power density spectrum of all trips is provided in this paper to simulate truck transport in Brazil using random vibration test methods. Copyright © 2007 John Wiley & Sons, Ltd.
Self-control and health outcomes in a nationally representative sample.

OBJECTIVES To explore the link between low self-control during adolescence and health problems in early adulthood. METHODS Using data from the National Longitudinal Study of Adolescent Health, we examined the relationship between varying levels of self-control and the likelihood of being diagnosed with a variety of physical and brain-based health conditions. RESULTS Results from logistic regression analyses indicated that subjects with lower levels of self-control had significantly higher odds of being diagnosed with 9 of the 10 health outcomes. CONCLUSIONS Targeting the development of self-control in childhood and adolescence may be valuable in preventing future health problems.
Cell differentiation defines acute and chronic infection cell types in Staphylococcus aureus

A central question to biology is how pathogenic bacteria initiate acute or chronic infections. Here we describe a genetic program for cell-fate decision in the opportunistic human pathogen Staphylococcus aureus, which generates the phenotypic bifurcation of the cells into two genetically identical but different cell types during the course of an infection. Whereas one cell type promotes the formation of biofilms that contribute to chronic infections, the second type is planktonic and produces the toxins that contribute to acute bacteremia. We identified a bimodal switch in the agr quorum sensing system that antagonistically regulates the differentiation of these two physiologically distinct cell types. We found that extracellular signals affect the behavior of the agr bimodal switch and modify the size of the specialized subpopulations in specific colonization niches. For instance, magnesium-enriched colonization niches causes magnesium binding to S. aureusteichoic acids and increases bacterial cell wall rigidity. This signal triggers a genetic program that ultimately downregulates the agr bimodal switch. Colonization niches with different magnesium concentrations influence the bimodal system activity, which defines a distinct ratio between these subpopulations; this in turn leads to distinct infection outcomes in vitro and in an in vivo murine infection model. Cell differentiation generates physiological heterogeneity in clonal bacterial infections and helps to determine the distinct infection types.
Effect of Non-Rubber Components on Properties of Sulphur Crosslinked Natural Rubbers

Non-rubber components (mainly proteins and lipids) in natural rubber (NR) play important roles for controlling the properties of NR. Crosslinking process creates intermolecular chemical bonds in order to obtain a three-dimensional network, resulting in more elastic rubber. Sulphur crosslinking is the most popular method and is applied in the present study. Two types of NR were prepared, namely, whole natural rubber (WNR) and purified natural rubber (PNR). PNR was deproteinized by centrifugation method and then acetone extraction. These rubbers were crosslinked by an efficient vulcanization (EV) system. They were cured for three curing times (1xt90, 2xt90, 3xt90) at 150°C. WNR presents shorter curing time than PNR because there are some phospholipids and proteins which are natural accelerators for curing reaction. The presence of non-rubber components seems to play a major role on crosslinking density and adhesion phenomenon for rubber/glass system. AFM images of WNR show more heterogeneity and roughness compared to PNR.
Dose-Dependent Response to Cyclodextrin Infusion in a Rat Model of Verapamil Toxicity

Introduction Sulfobutylether-β-cyclodextrin (SBE-CD) is a pharmaceutical excipient known to bind verapamil. Following intravenous administration, clearance of SBE-CD approximates glomerular filtration rate. We hypothesized that infusion of SBE-CD would increase time to asystole in a rat model of verapamil toxicity in a dose-dependent manner. The objective was to demonstrate the effect of a range of SBE-CD concentrations in a rat model of verapamil toxicity. Methods Twenty-five Wistar rats were allocated to control or 1 of 4 intervention groups. All received ketamine and diazepam anesthesia followed by verapamil infusion 32 mg/kg/h. The verapamil infusion for the intervention groups was premixed with SBE-CD in a 1:1, 1:2, 1:4, or 1:8 molar ratio (verapamil to SBE-CD). The control group infusion did not contain SBE-CD. Additional saline or water was added to the infusion so that the total volume infused was the same across groups, and the osmolality was maintained as close to physiologic as possible. Heart rate, respiratory rate, and temperature were monitored. The primary endpoint was time to asystole. Results Verapamil coinfused with SBE-CD in a molar ratio of 1:4 resulted in prolonged time to asystole compared to control (21.2 minutes vs 17.6 minutes, P < 0.05). There were no differences in time to asystole between control and any other intervention group. There was no significant difference in time to apnea between control and any intervention group. We assessed the effect of a range of SBE-CD concentrations and identified 1 concentration that prolonged time to asystole. Mechanisms that may explain this effect include optimal volume expansion with a hyperosmolar cyclodextrin containing solution, complexation of verapamil within the hydrophobic cyclodextrin pore, and/or complexation within micelle-like aggregates of cyclodextrin. However, mechanistic explanations for the observed findings are speculative at this point. Conclusion The 1:4 verapamil to SBE-CD concentration was modestly effective with SBE-CD concentrations above and below this range demonstrating nonstatistically significant improvements in time to asystole.
Epidermal psoriasiform hyperplasia, an unrecognized sign of folliculitis decalvans: A histological study of 26 patients

Follicular hyperkeratosis along with hyperplasia of the follicular and interfollicular epithelia are major histopathological characteristics of hidradenitis suppurativa (HS). The presence of an occasional thickening of lesional skin in some folliculitis decalvans (FD) patients and histological similarities between FD and HS led us to look for epidermal hyperplasia and follicular hyperkeratosis in FD patients.
Epidemiology of patients admitted to a major trauma centre in northern India.

OBJECTIVE Trauma in India is an increasingly significant problem, particularly in light of rapid development and increasing motorization. Social changes are resulting in alterations in the epidemiology of trauma. The aim of the study was to assess the various epidemiological parameters that influence the cause of injury in the patients admitted to a major trauma centre in northern India. METHODS An observational study of 748 patients chosen by random assortment was carried out over a period of 1 year (August 2008 to July 2009). Age, sex, injury type and pattern were noted. Injury mode of upper and lower limbs was also noted. RESULTS Injuries occur predominately in the age group of 15-30 years. Males incurred more injury with male to female ratio of 6:1. The most vulnerable group was motorcycle users. Among the injured, farmers were the most commonly involved. Blunt injuries (94.92%) were much more common than penetrating injuries. Among patients with head injury, two-wheeler related accidents were the most common (40.3%). Most spinal cord injuries were caused by falls from height (51.09%). Most lower limb fractures were simple type. Compound fractures of the lower limb were more common than upper limb fractures. CONCLUSION Strict enforcement of traffic rules, combined with improved infrastructure and behavior change can decrease the burden of road traffic accidents in India and other developing countries. This study could assist in raising the profile of road traffic accidents as a public health problem which needs to be addressed as a preventable cause of mortality and morbidity, and planning appropriate interventions for this major challenge. Preventive strategies should be made on the basis of these epidemiological trends.
Occupational exposure to volatile organic compounds in the Portuguese printing industry

In the printing industry, volatile organic compounds main sources are the uses of organic solvents, fountain solutions and cleaning agents. Nowadays, one circumstance which might confuse the exposure reality is that the majority of solvents which are often used have a faint odour. Therefore, the conditions at offset printing in regard to solvent exposure may seem acceptable to workers. Fortunately, general ventilation and local exhaust systems have also become more common, and new printing machines, often with automatic cleaning, have entered the market. The health effects of volatile organic solvents are dependent on the chemicals involved but, normally, are associated with affecting the nervous system, the liver and also the kidneys. The purpose of this study was to document the conditions regarding exposure to volatile organic compounds in an offset printing unit and to permit identify task with higher exposure and with priority for preventive measures application. Exposure assessment was done before and after installation of general ventilation and local exhaust equipments and during printing and cleaning procedure. It was use portable VOCs measurement equipment with real-time measurements (MultiRAE, RAE Systems model) that allowed identify task with higher exposure. The need and appropriateness of ventilation introduction is measured by the significant statistically difference (p<.001) in the concentration results before
In Vivo Expression Technology

The capacity to quickly and efficiently regulate gene expression has helped bacteria to colonize virtually every available niche in the biosphere, including dynamic and extreme ones. In accordance with this, bacterial populations must be ever ready to either take advantage of a favorable change or hunker down when the going gets tough. This proficiency is nicely demonstrated by infection of humans by facultative pathogens, for which up-regulation of genes necessary for survival and growth and down-regulation of genes deleterious to infectivity must occur on cue. To better understand this transition from ex vivo to in vivo conditions and to further our understanding of pathogenesis, it is necessary to identify genes that are specific to infection. Toward this end, in vivo expression technology (IVET) was developed (27). The purpose of this short review is to update the reader on the many variations of IVET that have been developed, to discuss nuances of each method that may be helpful to investigators embarking on studies using this technology, and to discuss offshoot technologies of IVET as tools for studying regulation of virulence genes. The many individual microbial virulence factors that have been identified using IVET are not reviewed here but have been recently reviewed by Mahan et al. (26). Because IVET is but one of several methods that can be used to screen for virulence genes induced during infection of cultured cells but is the only established method for accomplishing the same feat within infected animals, discussion herein is limited to reported uses of IVET in live animal hosts.
Preparation and properties of BSA-loaded microspheres based on multi-(amino acid) copolymer for protein delivery

A multi-(amino acid) copolymer (MAC) based on ω-aminocaproic acid, γ-aminobutyric acid, L-alanine, L-lysine, L-glutamate, and hydroxyproline was synthetized, and MAC microspheres encapsulating bovine serum albumin (BSA) were prepared by a double-emulsion solvent extraction method. The experimental results show that various preparation parameters including surfactant ratio of Tween 80 to Span 80, surfactant concentration, benzyl alcohol in the external water phase, and polymer concentration had obvious effects on the particle size, morphology, and encapsulation efficiency of the BSA-loaded microspheres. The sizes of BSA-loaded microspheres ranged from 60.2 μm to 79.7 μm, showing different degrees of porous structure. The encapsulation efficiency of BSA-loaded microspheres also ranged from 38.8% to 50.8%. BSA release from microspheres showed the classic biphasic profile, which was governed by diffusion and polymer erosion. The initial burst release of BSA from microspheres at the first week followed by constant slow release for the next 7 weeks were observed. BSA-loaded microspheres could degrade gradually in phosphate buffered saline buffer with pH value maintained at around 7.1 during 8 weeks incubation, suggesting that microsphere degradation did not cause a dramatic pH drop in phosphate buffered saline buffer because no acidic degradation products were released from the microspheres. Therefore, the MAC microspheres might have great potential as carriers for protein delivery.
Nanoscale characterisation of rolling contact wear surface of pearlitic steel

Abstract Nanoscale characterisation of a rolling–sliding wear surface layer of pearlitic steel was performed with transmission electron microscopy and atom probe tomography to reveal microstructural changes in the pearlite structure. Plastically deformed fine pearlitic lamellae with interlamellar spacing of ∼10 nm were observed just beneath the contact surface after the rolling–sliding wear test, where the hardness of the surface reached >800 HV, twice the initial bulk hardness of 400 HV. Lamellar cementite was slightly decomposed, but most lamellar cementite was retained as thinned lamellae in the deformed pearlitic structure. The large increment in hardness was mostly explained by the reduction in interlamellar spacing. The formation mechanism of the microstructure of the worn surface was compared with that of the white etching layer on the pearlitic rail surface.
BOUSFIELD LOCALIZATIONS OF CLASSIFYING SPACES OF NILPOTENT GROUPS

Let G be a finitely generated nilpotent group. The object of this paper is to identify the Bousfield localization LhBG of the classifying space BG with respect to a multiplicative complex oriented homology theory h*. We show that LhBG is the same as the localization of BG with respect to the ordinary homology theory determined by the ring ho.