Miracle-dz/UniFAR-FTUs huggingface dataset:
BMP2 and FGF2 cooperate to induce neural-crest-like fates from fetal and adult CNS stem cells

CNS stem cells are best characterized by their ability to self-renew and to generate multiple differentiated derivatives, but the effect of mitogenic signals, such as fibroblast growth factor 2 (FGF2), on the positional identity of these cells is not well understood. Here, we report that bone morphogenetic protein 2 (BMP2) induces telencephalic CNS stem cells to fates characteristic of neural crest and choroid plexus mesenchyme, a cell type of undetermined lineage in rodents. This induction occurs both in dissociated cell culture and cortical explants of embryonic day 14.5 (E14.5) embryos, but only when cells have been exposed to FGF2. Neither EGF nor IGF1 can substitute for FGF2. An early step in this response is activation of β-catenin, a mediator of Wnt activity. The CNS stem cells first undergo an epithelial-to-mesenchymal transition and subsequently differentiate to smooth-muscle and non-CNS glia cells. Similar responses are seen with stem cells from E14.5 cortex, E18.5 cortex and adult subventricular zone, but with a progressive shift toward gliogenesis that is characteristic of normal development. These data indicate that FGF2 confers competence for dorsalization independently of its mitogenic action. This rapid and efficient induction of dorsal fates may allow identification of positional identity effectors that are co-regulated by FGF2 and BMP2.
Modulation of arachidonic acid release and membrane fluidity by albumin in vascular smooth muscle and endothelial cells.

Albumin is the major plasma protein circulating in blood. Albumin potently decreases capillary permeability, although the mechanisms are not understood completely. Albumin also effectively binds arachidonic acid (AA), which increases capillary permeability. To investigate the interactions of BSA and AA with the cell membrane, the effect of these substances on [3H]AA release and membrane fluidity was studied in vascular myocytes and endothelial cells. BSA (0.2 and 1 mg . mL-1) stimulated a significant release of [3H]AA from both intact rat aorta and cultured smooth muscle cells. This effect was not mimicked by gamma-globulin or myoglobin (both 1 mg . mL-1) in intact tissue. BSA, but not gamma-globulin and myoglobin, decreased the membrane fluidity (assessed as changes in the steady-state fluorescence anisotropy of 1,6-diphenyl-1,3, 5-hexatriene) in a concentration-dependent manner with a half-maximum concentration between 0.007 and 0.4 mg . mL-1 in both freshly isolated and cultured rat aortic myocytes and human umbilical vein endothelial cells. AA (1 to 200 micromol/L) caused the opposite effect, increasing membrane fluidity and antagonizing the effect of BSA. BSA modified at its arginine residues, which are thought to be important in AA binding, did not stimulate [3H]AA release and was significantly less potent than native BSA in altering the membrane fluidity. The effect of BSA can be explained by a high-affinity binding of AA to the protein and extraction of AA from the cell membrane. The interaction between BSA and AA could play a role in the regulation of vascular permeability.
Prescription medications: a modifiable contributor to obesity.

BACKGROUND While usually not the only factor in obese patients, prescription medications, which may increase appetite or body weight, can be important in some individuals. The cause of weight gain in such cases may go unrecognized or lead to cessation of medication with or without the practitioner's knowledge or approval. METHODS We found illustrative cases among patients treated at the Johns Hopkins Weight Management Center, searched MEDLINE and the Micromedex Drug Information database, and organized this information by drug mechanism and indications for use. RESULTS Most reports of medication-induced weight gain are anecdotal or gleaned from clinical trials. Notable offenders include hormones (especially corticosteroids and insulinotropic agents), and psychoactive medications (especially tricyclic antidepressants, lithium, and some antipsychotics). CONCLUSIONS Medication-related increases in appetite and body weight are under-recognized and cause noncompliance with pharmacotherapy. A high index of awareness of the known mechanisms by which medications can lead to weight gain has the potential to prevent most medication-related contributions to weight gain and obesity.
Load Balancing of Nodes in Cloud Using Ant Colony Optimization

In this paper, we proposed an algorithm for load distribution of workloads among nodes of a cloud by the use of Ant Colony Optimization (ACO). This is a modified approach of ant colony optimization that has been applied from the perspective of cloud or grid network systems with the main aim of load balancing of nodes. This modified algorithm has an edge over the original approach in which each ant build their own individual result set and it is later on built into a complete solution. However, in our approach the ants continuously update a single result set rather than updating their own result set. Further, as we know that a cloud is the collection of many nodes, which can support various types of application that is used by the clients on a basis of pay per use. Therefore, the system, which is incurring a cost for the user should function smoothly and should have algorithms that can continue the proper system functioning even at peak usage hours.
Finding function clones in Web applications

Many Web applications use a mixture of HTML and scripting language code as the front-end to business services. Analogously to traditional applications, redundant code is introduced by copy-and-paste practices. Code duplication is a pathological form of software reuse because of its effects on the maintenance of large software systems. This paper describes how a simple semi-automated approach can be used to identity cloned functions within scripting code of Web applications. The results obtained from applying our approach to three Web applications show that the approach is useful for a fast selection of script function clones, and can be applied to prevent clone spreading or to remove redundant scripting code.
Bidirectional Attention Flow for Machine Comprehension

Machine comprehension (MC), answering a query about a given context paragraph, requires modeling complex interactions between the context and the query. Recently, attention mechanisms have been successfully extended to MC. Typically these methods use attention to focus on a small portion of the context and summarize it with a fixed-size vector, couple attentions temporally, and/or often form a uni-directional attention. In this paper we introduce the Bi-Directional Attention Flow (BIDAF) network, a multi-stage hierarchical process that represents the context at different levels of granularity and uses bi-directional attention flow mechanism to obtain a query-aware context representation without early summarization. Our experimental evaluations show that our model achieves the state-of-the-art results in Stanford Question Answering Dataset (SQuAD) and CNN/DailyMail cloze test.
Outcome and early complications of ERCP: a prospective single center study.

BACKGROUND/AIMS ERCP has been used since 1968 both as a diagnostic and as a therapeutic procedure. In the last ten years several less invasive imaging methods have developed which allow visualization of bile ducts and pancreatic ducts; therefore ERCP has become mainly a therapeutic tool. The aim of the study was to prospectively evaluate the early outcome of ERCP when used essentially as a therapeutic tool. METHODOLOGY All patients referred to our unit between April 1 1998 and March 31 2000 were included in the study. The indication for the procedure, number of cannulations, duration of procedure, performance of endoscopic sphinterotomy or pre-cut, insertion of stent and the final outcome were recorded. All patients were visited (in-patients) or contacted by phone (outpatients) 24 hours and one week after the procedure. If a complication occurred the patient was followed until it was resolved. RESULTS 722 ERCP procedures were performed on 534 patients (59% females), mean age 63.4 years (range 3 to 98 years). The procedure was performed with a therapeutic intention in 95% of cases because of suspicion of: cholelithiasis (58%), tumor of pancreas/bile ducts (30%), post-cholecystectomy bile leak or bile duct stenosis (6%) or treatment of chronic pancreatitis (1%). The overall success rate of selective duct cannulation was 92%. Endoscopic sphincterotomy was performed in 375 procedures (52%), pre-cut in 152 (21%) and stent inserted in 180 (25%). Among the 701 procedures with complete information 76 complications occurred in 73 patients (10.8%): pancreatitis 4.3%, perforation 1.3%, sepsis 3.7%, bleeding 1.4%. Most of the complications (63/701, 9%) were mild to moderate. Procedure-related mortality was 0.6% due to perforation (1 patient), and sepsis (3 patients). The main factors influencing the complication rate were the difficulty of the examination, performance of an invasive procedure or the operator. CONCLUSIONS In the era of therapeutic ERCP, the risk of severe complication from the procedure is low--1.8% (including a mortality rate of 0.6%) when using the appropriate technique in experienced and skilled hands.
Differential analysis of genome-wide methylation and gene expression in mesenchymal stem cells of patients with fractures and osteoarthritis

ABSTRACT Insufficient activity of the bone-forming osteoblasts leads to low bone mass and predisposes to fragility fractures. The functional capacity of human mesenchymal stem cells (hMSCs), the precursors of osteoblasts, may be compromised in elderly individuals, in relation with the epigenetic changes associated with aging. However, the role of hMSCs in the pathogenesis of osteoporosis is still unclear. Therefore, we aimed to characterize the genome-wide methylation and gene expression signatures and the differentiation capacity of hMSCs from patients with hip fractures. We obtained hMSCs from the femoral heads of women undergoing hip replacement due to hip fractures and controls with hip osteoarthritis. DNA methylation was explored with the Infinium 450K bead array. Transcriptome analysis was done by RNA sequencing. The genomic analyses revealed that most differentially methylated loci were situated in genomic regions with enhancer activity, distant from gene bodies and promoters. These regions were associated with differentially expressed genes enriched in pathways related to hMSC growth and osteoblast differentiation. hMSCs from patients with fractures showed enhanced proliferation and upregulation of the osteogenic drivers RUNX2/OSX. Also, they showed some signs of accelerated methylation aging. When cultured in osteogenic medium, hMSCs from patients with fractures showed an impaired differentiation capacity, with reduced alkaline phosphatase activity and poor accumulation of a mineralized matrix. Our results point to 2 areas of potential interest for discovering new therapeutic targets for low bone mass disorders and bone regeneration: the mechanisms stimulating MSCs proliferation after fracture and those impairing their terminal differentiation.
Unraveling the Contextual Effects on Student Suspension and Juvenile Arrest: An Examination of School, Neighborhood, and Family Controls

Scholars of human development argue that a variety of social contexts affect youth development, and that the interdependency of these contexts bears upon the shape of human lives. However, few studies of contextual effects have attempted to model the effects of school, neighborhood, and family context at the same time, or to explore the relative and interdependent impact of these contexts on youth outcomes. The present study provides an examination of the independent and interdependent influences of school, neighborhood, and familial contexts through an analysis of student suspension and juvenile arrest. Findings reveal that school-based and family-based informal social controls additively combine to reduce the likelihood of suspension and arrest. Moreover, for suspension, results support the hypothesis that there is an interdependent compensatory relation between the extent of collective efficacy in schools and in the surrounding neighborhood; school collective efficacy has a controlling influence on the likelihood of suspension which becomes even stronger in absence of neighborhood collective efficacy. However, for arrest, there is an accentuating effect of school-based social controls rather than a compensatory effect. A lack of neighborhood collective efficacy and a lack of school-based social controls combine to exert a substantial increase in the likelihood of arrest.
'YOU'VE SEEN US!' : MASCULINITIES IN THE LIVES OF BOYS WITH INTELLECTUAL DISABILITY (ID)

Access to the world of men can be closely guarded by non-disabled people and so disabled men can be persuaded to either conform, subvert or attempt to create an alternative masculine hegemony. For boys and men with Intellectual Disability (ID) little is known about their attempts to develop their gendered identities. This study aimed to explore whether boys with ID have ideas of what it means to be a boy, what influenced this and what ideas the boys had about their futures as men. Using an approach based on grounded theory, group and individual interviews were conducted with 21 boys in 7 groups from a special school engaged in plans about transition from school to the adult world. Using innovative methods including a sorting exercise and the boys own artwork, interviews were recorded and then transcribed. Analysis of the data revealed a developing construct of masculine identity established both outside and inside the interview room that could be identified as the way we do boy. The way we do boy is described in four themes: changes; ideals; experiences; vicariousness. Findings demonstrate that the four themes were instrumental in assisting the boys to think about their identities. However, the opportunities to practice their developing masculinity was limited and the boys talked about their struggles when their attempt to do this resulted in the uncovering of their difference and vulnerability. The analysis and discussion of this study develops into an explanatory theoretical framework for working with boys and men with ID about their masculinity. With the addition of Thomas’s (1999) work expressed as lenses, it is hoped this will provide a practical framework for use in services for both boys and men with ID.
A comparison of the antinociceptive effects of xylazine, detomidine and romifidine on experimental pain in horses.

OBJECTIVE To study the analgesic potency of the alpha2-agonist romifidine in the horse using both an electrical current and a mechanical pressure model for nociceptive threshold testing. In addition, a comparison was made with doses of detomidine and xylazine that produce equivalent degrees of sedation. STUDY DESIGN Randomized, placebo-controlled, blinded cross-over study. ANIMALS Six adult Swiss warmblood horses, one mare and five geldings, weighing from 530 to 650 kg and aged 6-15 years. METHODS Nociceptive thresholds were measured using an electrical stimulus applied to the coronary band and using a pneumatically operated pin pressing on the cannon bone. Measurements were made immediately before and every 15 minutes for 2 hours after IV injection of the test substances. Lifting of the foot indicated the test end point. RESULTS The three alpha2-agonists caused a temporary increase in nociceptive thresholds with a maximal effect within 15 minutes and a return to baseline levels within 1 hour. Using electrical current testing nociceptive thresholds were significantly different from placebo (mean +/- SD) for detomidine at 15 minutes (from control 5.8 +/- 0.9 to 23.3 +/- 3.9 mA, p = 0.0066) and 30 minutes (from control 6.6 +/- 1.1 to 18.8 +/- 3.3 mA, p = 0.0091). The difference was significant for romifidine at 15 minutes only (from control 5.8 +/- 0.9 to 18.7 +/- 3.8 mA, p = 0.0066). With mechanical pressure testing nociceptive thresholds were significantly different from control for detomidine at 15 minutes (from 3.2 +/- 0.2 to 6.2 +/- 0.5 N, p = 0.00076) and 30 minutes (from 3.2 +/- 0.7 to 5.7 +/- 0.8 N, p = 0.0167). The difference was significant for xylazine at 15 minutes (from control 3.2 +/- 0.2 to 5.6 +/- 0.7 N, p = 0.0079). At 15 minutes the order of magnitude of the measured antinociceptive effect was significantly different between the two pain tests for both romifidine and detomidine, but not for xylazine. For romifidine, the increase of mean thresholds compared to placebo was 4.0 +/- 1.3 times placebo levels with the electrical current test compared to 1.3 +/- 0.3 times for the mechanical pressure test (p = 0.037). For detomidine, the increase of mean thresholds compared to placebo was 5.4 +/- 1.7 times control levels with the electrical current test compared to 2.0 +/- 0.2 times for the mechanical pressure test (p = 0.040). This represents a 2.7 (romifidine) and 3.4 times (detomidine) greater increase in thresholds using electrical current testing compared to the use of mechanical pressure testing. CONCLUSION AND CLINICAL RELEVANCE This study demonstrates the analgesic potential of alpha2-agonists in the horse for somatic pain and that they can have quantitatively different antinociceptive effects according to the antinociceptive test used.
Non–digestible oligosaccharides and defense functions: lessons learned from animal models

Animals are constantly exposed to a diversity of health challenges and the gastrointestinal tract (GIT) is a major, if not the principal, site of exposure. Animal models and a limited number of human clinical studies have shown that the assemblages and metabolic activities of the resident bacteria are important determinants of the effectiveness of the various host defense mechanisms and thereby influence the ability of animals to respond to health challenges. The assemblages of bacteria resident in the GIT provide a first line of defense that can exclude invading pathogens, reduce the proliferation of opportunistic pathogens already resident in the GIT, and reduce the availability, carcinogenicity, or toxicity of noxious chemicals. The mucosa of the GIT is a second, multilayered line of defense that includes the mucous and other secretions, the epithelial cells, and immune-associated cells scattered within and under the epithelium. The final line of defense contends with pathogens or noxious chemicals that transcend the mucosal barrier and enter the host and consists of the innate and acquired components of the systemic immune system and the xenobiotic metabolizing enzymes. The lactic acid producing bacteria (LAB) are considered to be immunomodulatory and directly or indirectly influence the GIT and systemic defense functions. Corresponding with this, supplementing the diet with inulin, oligofructose, or other nondigestible oligosaccharides that increase the densities and metabolic capacities of the LAB enhances defense mechanisms of the host, increases resistance to various health challenges, and accelerates recovery of the GIT after disturbances.
Changes in Candida albicans colonization and morphology under influence of voriconazole

The aim was the investigation of fungal colonization and morphological alterations under the influence of voriconazole in an in vitro system. Voriconazole stopped growth and colonization of Candida albicans (wild type SC5314) on cover slips in microtiter plates dependent on drug concentration, the time of Candida growth before the input of voriconazole and oxygen concentration. The direct microscopy by fluorescence staining with the optical brightener Blancophor® showed short bizarrely deformed mycelia looking swollen. The colonization on cover glass was diminished. Microcolonies or starting of biofilm formation as in the control was not observed. The metabolic activity was demonstrated by vital staining with FUN® 1 resulting in red fluorescent structures in the yeast forms and mycelia in the controls. Under voriconazole influence the remaining cells only showed a green or pale yellow fluorescence. Most of the cells lost their metabolic activity.
Knowledge Graph Embedding with Iterative Guidance from Soft Rules

Embedding knowledge graphs (KGs) into continuous vector spaces is a focus of current research. Combining such an embedding model with logic rules has recently attracted increasing attention. Most previous attempts made a one-time injection of logic rules, ignoring the interactive nature between embedding learning and logical inference. And they focused only on hard rules, which always hold with no exception and usually require extensive manual effort to create or validate. In this paper, we propose Rule-Guided Embedding (RUGE), a novel paradigm of KG embedding with iterative guidance from soft rules. RUGE enables an embedding model to learn simultaneously from 1) labeled triples that have been directly observed in a given KG, 2) unlabeled triples whose labels are going to be predicted iteratively, and 3) soft rules with various confidence levels extracted automatically from the KG. In the learning process, RUGE iteratively queries rules to obtain soft labels for unlabeled triples, and integrates such newly labeled triples to update the embedding model. Through this iterative procedure, knowledge embodied in logic rules may be better transferred into the learned embeddings. We evaluate RUGE in link prediction on Freebase and YAGO. Experimental results show that: 1) with rule knowledge injected iteratively, RUGE achieves significant and consistent improvements over state-of-the-art baselines; and 2) despite their uncertainties, automatically extracted soft rules are highly beneficial to KG embedding, even those with moderate confidence levels. The code and data used for this paper can be obtained from https://github.com/iieir-km/RUGE.
Identification of Phenolic Dermal Sensitizers in a Wound Closure Tape

A latex-allergic patient presented with a severe local reaction to a non-latex wound closure bandage following surgery. Extracts of the bandage were analyzed by gas chromatograph-electron impact-mass spectrometry (GC EI-MS) in the total ion monitoring mode. Components were identified by their ion mass fingerprint and elution time as a corresponding standard from the GC column. The chemicals identified were 4,4′-thiobis-(6-tert-butyl-m-cresol) (TBBC), 6-tert-Butyl-m-cresol (BC), 2,4-di-tert-butylphenol (BP) and erucamide (EA). Sensitization potential of these chemicals was evaluated using two quantitative structure-activity relationship (QSAR) programs. The phenol 2,6-di-tert-butyl-4-(hydroxymethyl)phenol (BHP) was also included in the test series. It was initially thought to be present in the bandage but detectable levels could not be confirmed. The potential for TBBC to induce a sensitization response was predicted by both Derek for Windows and TOPKAT 6.2. The potential for BC and BP to induce a sensitization response was predicted by Derek for Windows, but not TOPKAT. BHP and EA were not predicted to be sensitizers by either QSAR program. Local lymph node assay (LLNA) analysis of the chemicals identified TBBC, BP, and BC as potential sensitizers with EC3 values between 0.2 and 4.5%. None of the animals exhibited body weight loss or skin irritation at the concentrations tested. In agreement with the toxicological modeling, BHP did not induce a sensitization response in the LLNA. Following a positive LLNA response, TBBC, BP, and BC were further characterized by phenotypic analysis of the draining lymph nodes. A positive LLNA result coupled with a lack of increase in B220+IgE+ cell and serum IgE characterize these chemicals as Type IV sensitizers. These studies used a multidisciplinary approach combining clinical observation, GC-EI-MS for chemical identification, QSAR modeling of chemicals prior to animal testing, and the LLNA for determination of the sensitization potential of chemicals in a manufactured product.