Miracle-dz/UniFAR-FTUs huggingface dataset:
Investigating the relationship between school facilities and academic achievements through geographically weighted regression

ABSTRACT In this study, the authors investigated spatial variations in the effects of school amenities on academic achievements of a cluster of provinces in the Philippines. Semiparametric geographically weighted regression (SGWR) techniques were applied to public school facility data to determine whether the effects of school facilities varied depending on school locations. The analysis results presented significant spatial variations and differing effects of school sizes and utilities on the academic achievements of top performing schools across the study area. SGWR modelling revealed that schools in sparsely populated rural areas with basic facilities have performed better than schools in urban areas with poor facilities, indicating that basic facilities are important in far-flung schools. Since the effect on academic achievement varies depending on the social and economic infrastructure, the provision of school facilities should be based on the unique needs of each community. A decentralized approach is beneficial for the management of school facilities in the Philippines where education resources are limited.
Pex2 and Pex12 Function as Protein-Ubiquitin Ligases in Peroxisomal Protein Import

ABSTRACT The PTS1-dependent peroxisomal matrix protein import is facilitated by the receptor protein Pex5 and can be divided into cargo recognition in the cytosol, membrane docking of the cargo-receptor complex, cargo release, and recycling of the receptor. The final step is controlled by the ubiquitination status of Pex5. While polyubiquitinated Pex5 is degraded by the proteasome, monoubiquitinated Pex5 is destined for a new round of the receptor cycle. Recently, the ubiquitin-conjugating enzymes involved in Pex5 ubiquitination were identified as Ubc4 and Pex4 (Ubc10), whereas the identity of the corresponding protein-ubiquitin ligases remained unknown. Here we report on the identification of the protein-ubiquitin ligases that are responsible for the ubiquitination of the peroxisomal protein import receptor Pex5. It is demonstrated that each of the three RING peroxins Pex2, Pex10, and Pex12 exhibits ubiquitin-protein isopeptide ligase activity. Our results show that Pex2 mediates the Ubc4-dependent polyubiquitination whereas Pex12 facilitates the Pex4-dependent monoubiquitination of Pex5.
Functional echocardiography in the fetus with non‐cardiac disease

We describe the hemodynamic changes observed in fetuses with extra cardiac conditions such as intrauterine growth restriction, tumors, twin–twin transfusion syndrome, congenital infections, and in fetuses of mothers with diabetes. In most fetuses with mild extra cardiac disease, the alterations in fetal cardiac function remain subclinical. Cardiac function assessment has however helped us to achieve a better understanding of the pathophysiology of these diseases. In fetuses at the more severe end of the disease spectrum, functional echocardiography may help in guiding clinical decision‐making regarding the need for either delivery or fetal therapy.
Contrast sensitivity after +Gz acceleration.

BACKGROUND This study was designed to determine the extent and duration of contrast sensitivity (CS) loss after high sustained +Gz acceleration in a centrifuge. METHODS The subjects were 12 healthy male flight surgeons between 20 and 22 (mean = 21.1) yr of age. The human centrifuge at the Aviation Physiology Research Laboratory in Tainan, Taiwan, was used to expose the subjects to an acceleration profile. Each subject experienced three centrifuge runs made up of one gradual onset and two rapid onset profiles. Contrast sensitivity (CS) was measured before, and at 5 min, 10 min, and 20 min for the right eye; and 7 min, 12 min, and 22 min for the left eye after the acceleration. Both eyes were measured with the right eye being tested first. RESULTS There was a generalized depression of CS at 5-12 min for both eyes. The depression was more severe at low and medium frequencies (1.5, 3.0, 6.0 cycles per degree, cpd) than at a high spatial frequency (18.0 cpd). There was a significant decrease in CS of the right eye at 1.5 cpd (p < 0.05 between control and 5 min), and on the left eye at 3.0 cpd (p < 0.05 between control and 7 min, p < 0.05 between control and 12 min) and 6.0 cpd (p < 0.05 between control and 12 min). The CS loss was more obvious at 5-12 min for both eyes, and there was only partial recovery at 22 min after the acceleration. CONCLUSIONS These results demonstrated that +Gz acceleration is associated with CS loss. The recovery time was greater than expected. Factors other than ocular blood flow may be involved in the prolonged CS loss.
The polycomb group protein complex of Drosophila melanogaster has different compositions at different target genes

In Drosophila the Polycomb group genes are required for the long-term maintenance of the repressed state of many developmental regulatory genes. Their gene products are thought to function in a common multimeric complex that associates with Polycomb group response elements (PREs) in target genes and regulates higher-order chromatin structure. We show that the chromodomain of Polycomb is necessary for protein-protein interactions within a Polycomb-Polyhomeotic complex. In addition, Posterior Sex Combs protein coimmunoprecipitates Polycomb and Polyhomeotic, indicating that they are members of a common multimeric protein complex. Immunoprecipitation experiments using in vivo cross-linked chromatin indicate that these three Polycomb group proteins are associated with identical regulatory elements of the selector gene engrailed in tissue culture cells. Polycomb, Polyhomeotic, and Posterior Sex Combs are, however, differentially distributed on regulatory sequences of the engrailed-related gene invected. This suggests that there may be multiple different Polycomb group protein complexes which function at different target sites. Furthermore, Polyhomeotic and Posterior Sex Combs are also associated with expressed genes. Polyhomeotic and Posterior Sex Combs may participate in a more general transcriptional mechanism that causes modulated gene repression, whereas the inclusion of Polycomb protein in the complex at PREs leads to stable silencing.
Heavy meta: Model-driven domain-specific generation of generative domain-specific modeling tools

Software is so prevalent in all areas of life that one could expect we have come up with more simple and intuitive ways for its creation by now. However, software development is still too complicated to easily and efficiently cope with individual demands, customizations, and changes. Model-based approaches promise improvements through a more comprehensible layer of abstraction, but they are rarely fully embraced in practice. They are perceived as being overly complex, imposing additional work, and lacking the flexibility required in the real world. This thesis presents a novel approach to model-driven software engineering that focuses on simplicity through highly specialized tools. Domain experts are provided with development tools tailored to their individual needs, where they can easily specify the intent of the software using their known terms and concepts. This domain specificity (D) is a powerful mechanism to boil down the effort of defining a system to relevant aspects only. Many concepts are set upfront, which imposes a huge potential for automated generation. However, the full potential of domain-specific models can only unfold, if they are used as primary artifacts of development. The presented approach thus combines domain specificity with full generation (F) to achieve an overall pushbutton generation that does not require any round-trip engineering. Furthermore, service orientation (S) introduces a ‘just use’ philosophy of including arbitrarily complex functionality without needing to know their implementation, which also restores flexibility potentially sacrificed by the domain focus. The unique combination of these three DFS properties facilitates a focused, efficient, and flexible simplicity-driven way of software development. Key to the approach is a holistic solution that in particular also covers the simplicity-driven development of the required highly specialized DFS tools, as nothing would be gained if the costs of developing such tools outweighed the resulting benefits. This simplicity is achieved by applying the very same DFS concepts to the domain of tool development itself: DFS modeling tools are fully generated from models and services specialized to the (meta) domain of modeling tools. The presented Cinco meta tooling suite is a first implementation of such a meta DFS tool. It focuses on the generation of graphical modeling tools for graph structures comprising of various types of nodes and edges. Cinco has been very successfully applied to numerous industrial and academic projects, and thus also serves as a proof of concept for the DFS approach itself. The unique combination of the three DFS strategies and Cinco’s meta-level approach towards their realization in practice lay the foundation for a new paradigm of software development that is strongly focused on simplicity.
water Simulation by Merge-split Method based on State

It provides a method which uses water movement to simulate diverse situations generated in virtual environments. The existing simulation models are limited to a fixed set of situations or focused on visual effects. Our model is based on diverse set of water activities that sense and react to geographical information acquired externally. Our model has three major elements such as water, environment and rules. This method makes water can act properly on diverse situations generated in virtual environments.
Pay for Performance Through the Lens of Medical Professionalism

Lagging quality of care in the U.S. health care system has been a persistent problem and challenge. In the past, medical professionalism and professional certification have served as cornerstones for improving quality in health care. Among newer efforts to improve quality, pay for performance has been proposed to propel better results, but many observers are concerned that pay for performance is at odds with medical professionalism. The authors examine the potential conflicts between pay for performance and medical professionalism and conclude that properly designed pay-for-performance models can support professional objectives.
Automatic Detection of Words Associations in Texts Based on Joint Distribution of Words Occurrences

In this article, we propose a novel approach for measuring word association based on the joint occurrences distribution in a text. Our approach relies on computing a sum of distances between neighboring occurrences of a given word pair and comparing it with a vector of randomly generated occurrences. The idea behind this assumption is that if the distribution of co‐occurrences is close to random or if they tend to appear together less frequently than by chance, such words are not semantically related. We devise a distance function S that evaluates the words association rate. Using S, we build a concept tree, which provides a visual and comprehensive representation of keywords association in a text. In order to illustrate the effectiveness of our algorithm, we apply it to three different texts, showing the consistency and significance of the obtained results with respect to the semantics of documents. Finally, we compare the results obtained by applying our proposed algorithm with the ones achieved by both human experts and the co‐occurrence correlation method. We show that our method is consistent with the experts' evaluation and outperforms with respect to the co‐occurrence correlation method.
Solvent‐induced lid opening in lipases: A molecular dynamics study

In most lipases, a mobile lid covers the substrate binding site. In this closed structure, the lipase is assumed to be inactive. Upon activation of the lipase by contact with a hydrophobic solvent or at a hydrophobic interface, the lid opens. In its open structure, the substrate binding site is accessible and the lipase is active. The molecular mechanism of this interfacial activation was studied for three lipases (from Candida rugosa, Rhizomucor miehei, and Thermomyces lanuginosa) by multiple molecular dynamics simulations for 25 ns without applying restraints or external forces. As initial structures of the simulations, the closed and open structures of the lipases were used. Both the closed and the open structure were simulated in water and in an organic solvent, toluene. In simulations of the closed lipases in water, no conformational transition was observed. However, in three independent simulations of the closed lipases in toluene the lid gradually opened. Thus, pathways of the conformational transitions were investigated and possible kinetic bottlenecks were suggested. The open structures in toluene were stable, but in water the lid of all three lipases moved towards the closed structure and partially unfolded. Thus, in all three lipases opening and closing was driven by the solvent and independent of a bound substrate molecule.
Bone turnover in untreated polymyalgia rheumatica.

BACKGROUND Polymyalgia rheumatica (PMR) is a common condition in the elderly. A previous study demonstrated that it is associated with an increase in bone resorption. This effect was ameliorated by steroids, implying that inflammation is the cause of increased bone resorption and that this can be reduced by steroids. This is in keeping with accumulating evidence that systemic inflammation is associated with bone resorption and bone loss. We studied bone formation and resorption markers in 53 patients with PMR prior to any therapeutic intervention. METHODS Bone resorption was measured by estimating urinary free pyridinoline (fPYD) and deoxypyridinoline (fDPD). Bone formation was estimated by measuring serum concentrations of procollagen type 1 N-terminal propeptide (P1NP). Disease activity was assessed using inflammatory markers (erythrocyte sedimentation rate and C-reactive protein). Patients had a baseline dual-energy X-ray absorptiometer scan to assess bone mineral density. RESULTS Bone resorption markers were significantly increased and bone formation markers significantly decreased in PMR patients prior to treatment, compared with a control population matched for gender and age. CONCLUSIONS This implies that bone turnover is uncoupled in PMR. This may lead to a decrease in skeletal mass in the long term due to the disease process alone. However, no significant loss of bone mineral density was detected. It is possible that, due to the acute onset of PMR, increased bone resorption is not present long enough to result in a detectable decrease in bone mineral density. The effects of steroid treatment on bone metabolism and the subsequent long-term outcome need to be investigated.
Susceptibility to Infectious Diseases Based on Antimicrobial Peptide Production

ABSTRACT In the last few years, the great impact of antimicrobial peptides on infectious disease susceptibility and natural resistance has been reported. In some cases, susceptibility to diseases is related to antimicrobial peptide polymorphisms and gene copy numbers, but for the vast majority of infectious diseases, these phenomena need to be elucidated. This review is focused on the current knowledge about susceptibility and resistance conferred by genetic variations in antimicrobial peptide expression in infectious diseases.
Searching for Non‐B DNA‐Forming Motifs Using nBMST (Non‐B DNA Motif Search Tool)

This unit describes basic protocols on using the non‐B DNA Motif Search Tool (nBMST) to search for sequence motifs predicted to form alternative DNA conformations that differ from the canonical right‐handed Watson‐Crick double‐helix, collectively known as non‐B DNA, and on using the associated PolyBrowse, a GBrowse–based genomic browser. The nBMST is a Web‐based resource that allows users to submit one or more DNA sequences to search for inverted repeats (cruciform DNA), mirror repeats (triplex DNA), direct/tandem repeats (slipped/hairpin structures), G4 motifs (tetraplex, G‐quadruplex DNA), alternating purine‐pyrimidine tracts (left‐handed Z‐DNA), and A‐phased repeats (static bending). The nBMST is versatile, simple to use, does not require bioinformatics skills, and can be applied to any type of DNA sequences, including viral and bacterial genomes, up to an aggregate of 20 megabasepairs (Mbp). Curr. Protoc. Hum. Genet. 73:18.7. 1‐18.7. 22. © 2012 by John Wiley & Sons, Inc.
Tear lipid composition of hydrogel contact lens wearers.

The lipid layer plays a major role in retarding the evaporation of the tear film during the inter-blink period and in influencing the stability of the tear film. Previous investigations have shown that the stability of the tear film is influenced by the differential mixing of lipids. This is observed by clinicians as different visible patterns within the lipid layer.1. 2However, the visualization of the patterns, while possible with specialized biomicroscopic techniques such as the TearscopeTM, is a difficult clinical technique. Furthermore both the tear lipid pattern and tear film stability are different for preocular and the prehydrogel contact lens tear film. 1-3 It is, therefore, postulated that the composition of the lipid layer is influential on tear film stability and different for the preocular and prehydrogel contact lens tear film.
Sniff nasal inspiratory pressure. A noninvasive assessment of inspiratory muscle strength.

The measurement of esophageal pressure during maximal sniffs (sniff Pes) has been shown useful to assess inspiratory muscle strength. The aim of this study was to validate a noninvasive method for estimating sniff Pes. The sniff nasal inspiratory pressure (SNIP) was measured through a plug occluding one nostril during sniffs performed through the contralateral nostril. Sniff Pes was simultaneously measured with an esophageal balloon. Ten normal subjects performed 338 sniffs of variable intensity. The correlation coefficient of SNIP and sniff Pes was 0.99 +/- 0.01 (p < 0.001). The ratio SNIP/sniff Pes was 0.91 (range, 0.82 to 0.99) and the mean difference between the two measures (SNIP - sniff Pes) was -4.56 cm H2O (-1.2 to -8.6 cm H2O). Twelve patients with neuromuscular or skeletal disorders performed 181 maximal sniffs. The correlation coefficient of SNIP and sniff Pes was 0.96 +/- 0.04 (p < 0.001). The ratio SNIP/sniff Pes was 0.93 (0.77 to 1.07) and the mean difference (SNIP - sniff Pes) was -4.66 cm H2O (+0.47 to -14.26 cm H2O). Nasal mucosal congestion was induced by nebulization of increasing doses of histamine in four normal subjects. The ratio SNIP/sniff Pes was 0.93 (0.72 to 1.02) when nasal peak flow was > 100 L/min, and 0.49 (0.36 to 0.57 L/min) when nasal peak flow fell below 100 L/min. We conclude that SNIP provides a reliable and noninvasive estimation of sniff Pes in normal subjects and in patients with neuromuscular or skeletal disorders. The validity of this method may by impaired by severe nasal congestion.
Pharmacological Enhancement of the Kallikrein-Kinin System Promotes Anti-Fibrotic Responses in Human Mesangial Cells

The aim of the present study was to investigate whether pharmacological enhancement of the renal kallikrein-kinin system using the vasopeptidase inhibitor omapatrilat plays a direct role in modulating the fibrotic responses of human mesangial cells to injury. Treatment with 40µmol/L omapatrilat was able to reduce macrophage-conditioned medium (MPCM)-induced fibronectin levels without affecting mRNA expression. MPCM injury also suppressed kallikrein and low molecular weight kininogen mRNA. Omapatrilat was able to attenuate this suppression. Bradykinin levels in contrast were increased by MPCM and treatment with omapatrilat further augmented levels. Co-incubation with the bradykinin B2 receptor antagonist HOE 140 attenuated the omapatrilat-induced lowering of fibronectin. Moreover, inhibition of cGMP release had a similar effect. Paradoxically, RT-PCR and Southern blotting demonstrated that bradykinin B2 receptor mRNA levels were down regulated in response to omapatrilat. Western blotting supported this data. Supernatant levels of tissue plasminogen activator (tPA), a product of bradykinin stimulation, were decreased by omapatrilat while cell associated tPA levels were increased. Matrix metalloproteinase-9 (MMP-9) mRNA expression was up regulated by omapatrilat treament, although no difference in active zymogen levels was observed. In conclusion enhancement of kallikrein-kinin system appears to play a direct role in promoting anti-fibrotic responses in MPCM-injured human mesangial cells.
Nondefective rotavirus mutants with an NSP1 gene which has a deletion of 500 nucleotides, including a cysteine-rich zinc finger motif-encoding region (nucleotides 156 to 248), or which has a nonsense codon at nucleotides 153-155

We isolated two nondefective bovine rotavirus mutants (A5-10 and A5-16 clones) which have nonsense mutations in the early portion of the open reading frame of the NSP1 gene. In the NSP1 gene (1,587 bases long) of A5-10, a nonsense codon is present at nucleotides 153 to 155 just upstream of the coding region (nucleotides 156 to 230) of a cysteine-rich Zn finger motif. A5-16 gene 5 (1,087 bases long) was found to have a large deletion of 500 bases corresponding to nucleotides 142 to 641 of a parent A5-10 NSP1 gene and to have a nonsense codon at nucleotides 183 to 185, which resulted from the deletion. Expression of gene 5-specific NSP1 could not be detected in MA-104 cells infected with the A5-10 or A5-16 clone or in an in vitro translation system using the plasmids with gene 5 cDNA from A5-10 or A5-16. Nevertheless, both A5-10 and A5-16 replicated well in cultured cells, although the plaque size of A5-16 was extremely small.
A Perceptual Traffic Jam on Highway N170

Whether face processing is modular or not has been the topic of a lively empirical and theoretical debate. In expert observers, the perception of nonface objects in their domain of expertise is remarkably similar to their perception of faces, in patterns of both behavioral performance and brain activation, providing some evidence against the modularity of face perception. However, the studies that have yielded these results do not rule out the possibility that object expertise and face processing occur in spatially overlapping, but functionally independent, brain regions. Recent research using an interference paradigm reveals that expert object (car) processing interferes with face processing. The level of interference was proportional to an individual's level of car expertise. These results may provide the most direct evidence to date that face and object recognition are not functionally independent.
Are we all transnationals now? Network transnationalism and transnational subjectivity: the differing impacts of globalization on the inhabitants of a small Swiss city

Abstract I ask in this article how the inhabitants – migrants and non-migrants – of a specific geographical space, a small Swiss city in French-speaking Switzerland, live out different forms of transnationalism. Transnationalism is for this purpose defined and operationalized on two dimensions: I make a distinction between network transnationalism and what I call transnational subjectivity. The first dimension includes the transnational social networks; the latter refers to the cognitive classifications of a person's membership and belongings in transnational space. Analysis of the personal social networks of 250 inhabitants of this city, supplemented by data from qualitative interviews, brings to light four different ideal types of how transnationalism is lived. It reveals that these morphologies are closely related to questions of social positioning as well as processes of integration, locally or in transnational space.