Miracle-dz/UniFAR-FTUs huggingface dataset:
Extracellular Ser/Thr/Tyr phosphorylated proteins of Pseudomonas aeruginosa PA14 strain

Protein phosphorylation on serine, threonine, and tyrosine is known to be involved in a wide variety of cellular processes, signal transduction, and bacterial virulence. We characterized, for the first time, the extracellular phosphoproteins of the Pseudomonas aeruginosa PA14 strain. We identified 28 phosphoproteins (59 phosphosites) including enzymes, with various phosphorylation sites, known as potent secreted virulence factors in P. aeruginosa. The high phosphorylation level of these virulence factors might reflect a relationship between Ser/Thr/Tyr phosphorylation and virulence.
Evaluation of the Bangor Dyslexia Test (BDT) for use with Adults.

The Bangor Dyslexia Test (BDT) is a short, easy-to-administer screener for use with a broad age range, which has been in use in the UK for over three decades. A distinctive feature of the battery is its focus on skills requiring aspects of verbal and phonological processing without, however, measuring literacy skills per se. Despite its longstanding existence and usage, there has been no evaluation of the psychometric properties of the battery as an adult dyslexia screener. We examined the psychometric properties of the BDT and evaluated its capacity to discriminate between adults with and without dyslexia. A large archival sample of university students with dyslexia (n = 193) and students with no reported literacy difficulties (n = 40) were compared on the BDT as well as on literacy and cognitive measures. Statistical analyses revealed the BDT to be a reliable (α = .72) and valid dyslexia screening tool with the capacity to effectively identify adults at risk of the disorder with an overall classification rate of 94% (sensitivity 96.4% and specificity 82.5%). In addition, higher indices of dyslexia risk on the BDT were associated with lower scores on standardized measures of literacy.
Perceived Influences on Physical Activity and Diet in Low-Income Adults From Two Rural Counties

Background: Despite the increased use of ecological models in health behavior research, multilevel influences on health behaviors in rural, low-income people, an aggregate at high risk for sedentary behavior and inadequate diets, have been examined in few studies. Objective: The purpose of this study was to describe influences on physical activity and diet in low-income, rural adults. Method: A cross-sectional survey was conducted using face-to-face interviews in a convenience sample of 137 low-income Anglo and Latino adults recruited from two rural Wisconsin counties. The survey included questions on health behaviors, self-efficacy, barriers, social support, and community environments. Self-report data on physical activity and fruit and vegetable intake were categorized into outcome variables of meets recommendation or does not meet recommendation. Latent class cluster analysis was used to identify clusters of participants with similar influences on health behaviors, and cluster membership was used as an independent variable in logistic regression of physical activity and diet outcomes. Results: Fifty-two percent of participants met a recommendation for physical activity, but only 8% met their MyPyramid recommendation for fruit and vegetable intake. Participants in the moderate self-efficacy/high safety cluster were significantly more likely than those in the low self-efficacy/moderate safety cluster to meet a recommendation for physical activity (odds ratio = 2.65). For healthy diet, participants in the low barriers cluster were significantly more likely to eat more fruits and vegetables (odds ratio = 4.13) than those in the high barriers cluster. Discussion: People with healthier behaviors were distinguished from those with less healthy behaviors by higher levels of intrapersonal, interpersonal, and community supports. Results support the importance of multilevel approaches to promoting healthy lifestyles in rural, low-income adults.
The Gly ( 972 ) Arg Variant of Human Insulin Receptor Substrate 1 Gene Is Associated With Variation in Glomerular Filtration Rate Likely Through Impaired Insulin Receptor Signaling

The objective of this study is to identify and characterize the genetic variants related to the glomerular filtration rate (GFR) linkage on 2q37. Of the positional candidate genes, we selected insulin receptor substrate 1 (IRS1) and resequenced its 2-kb promoter region and exons for sequence variants in 32 subjects. A total of 11 single nucleotide polymorphisms (SNPs) were identified. To comprehensively cover the 59-kb-long intron-1, eight additional tagging SNPs were selected from the HapMap. All the 19 SNPs were genotyped by TaqMan Assay in the entire data set (N = 670; 39 families). Association analyses between the SNPs and GFR and type 2 diabetes–related traits were performed using the measured genotype approach. Of the SNPs examined for association, only the Gly(972)Arg variant of IRS1 exhibited a significant association with GFR (P = 0.0006) and serum triglycerides levels (P = 0.003), after accounting for trait-specific covariate effects. Carriers of Arg972 had significantly decreased GFR values. Gly(972)Arg contributed to 26% of the linkage signal on 2q. Expression of IRS1 mutant Arg972 in human mesangial cells significantly reduced the insulin-stimulated phosphorylation of IRS1 and Akt kinase. Taken together, the data provide the first evidence that genetic variation in IRS1 may influence variation in GFR probably through impaired insulin receptor signaling.
Doped QDs Based Photoelectrochemical Sensors for Detection of H $_{2}$O$_{2}$ and Glucose

In this paper, a novel photoelectrochemical sensor based on doped quantum dots (QDs) without enzymes was designed for direct detection of H2O2 and indirect detection of glucose. First, the fabrication processes of doped QDs based sensors were described. Second, doped QDs based sensors were tested under different applied potentials and light sources to optimize the measurement conditions. Third, the sensing properties of doped QDs on H2O2 were given, which have been compared with the results from other QDs. Cu doped QDs showed better sensing properties. Finally, detection of glucose was achieved by doped QDs based photoelectrochemical sensors. From the experimental results, it can be concluded that the doped QDs based sensors designed by us can be used to detect H2O2 and glucose.
The relationship between mRNA stability and length in Saccharomyces cerevisiae.

A rapid and convenient procedure has been developed for the measurement of mRNA half-life in S.cerevisiae using the transcriptional inhibitor, 1,10-phenanthroline. A range of half-lives from 6.6 +/- 0.67 minutes to over 100 minutes, relative to the stability of the 18S rRNA control, has been obtained for fifteen mRNAs. They include the pyruvate kinase and actin mRNAs, as well as 13 randomly picked mRNAs of unknown function. The mRNAs clearly fall into two populations when their lengths and half-lives are analysed; one population is considerably more stable than the other when mRNAs of similar length are compared. Also, within each population, there is an inverse relationship between mRNA length and half-life. These results suggest that mRNA length and at least one additional factor strongly influence mRNA stability in yeast.
Choice of Summary Statistic Weights in Approximate Bayesian Computation

In this paper, we develop a Genetic Algorithm that can address the fundamental problem of how one should weight the summary statistics included in an approximate Bayesian computation analysis built around an accept/reject algorithm, and how one might choose the tolerance for that analysis. We then demonstrate that using weighted statistics, and a well-chosen tolerance, in such an approximate Bayesian computation approach can result in improved performance, when compared to unweighted analyses, using one example drawn purely from statistics and two drawn from the estimation of population genetics parameters.
Attenuated poxvirus vectors MVA and NYVAC as promising vaccine cadidates against HIV/AIDS

As yet, the only human infectious disease eradicated from our planet is smallpox, caused by variola virus a member of the poxvirus family. The vaccination success, with the declaration by WHO in 1980 of a worldwide free of smallpox, was largely due to the availability of a quite effective and stable live vaccine, as well as the restricted human host for virus infection. Variola was considered one of the most devastating diseases of human mankind. With the sudden appearance of the HIV/AIDS in 1981, an infection which spread rapidly to become a pandemic in a short time, causing up to date more than 22 million deaths, about 40 million people infected and a current incidence of about 3 million deaths per year, this dreadful pandemic has become one of the most severe diseases in the World, specially in poor countries. While different antiviral drugs have been developed that block virus replication at various stages of infection, however the rapid virus escape that follows during the drug therapy due to mutations, makes the development of vaccines the most secure option to control and eradicate the disease. Numerous vaccines have been developed, but to date the clinical trials have failed to show any efficacy against HIV infection. Due to the proven success of vaccinia virus in the control of smallpox as well as of poxvirus recombinants against veterinary diseases, a major effort has been directed to document the advantages of poxvirus vectors as vaccines against multiple diseases. Two of the most promising poxvirus vectors are the highly attenuated modified vaccinia virus Ankara (MVA) and the modified Copenhagen strain NYVAC. In this commentary I describe the biological characteristics of the attenuated poxvirus vectors, MVA and NYVAC, with emphasis in their application in HIV preclinical and clinical trials, and considerations as future HIV vaccines.
REGULATION OF-AMINOBUTYRIC ACID A ( GABA A ) RECEPTOR DYNAMICS BY INTERACTION WITH PURINERGIC P 2 X 2 RECEPTORS

From Department of Biochemistry and Molecular Biology, Center for Brain Research 1 , Medical University of Vienna, Vienna, Austria 1 . Ecolé Normale Supérieure, Institut de Biologie de l’Ecole Normale Supérieure (IBENS) Paris France; Inserm U1024, Paris France; CNRS UMR8197, 75005 Paris, France 2 . Running Title: GABAA and P2X2 receptor interaction Address correspondence to: Isabella Sarto-Jackson, PhD, Department of Biochemistry and Molecular Biology, Center for Brain Research, Medical University of Vienna, Spitalgasse 4, Vienna-1090, Austria, Ph: +43 1 40160 34065, Fax: +43 1 40160 934054, E-mail: isabella.sarto-jackson@meduniwien.ac. at
Effect of coenzyme Q10 supplementation on mitochondrial function after myocardial ischemia reperfusion.

BACKGROUND Coenzyme Q10 (CoQ10) protects myocardium from ischemia-reperfusion (IR) injury as evidenced by improved recovery of mechanical function, ATP, and phosphocreatine during reperfusion. This protection may result from CoQ10's bioenergetic effects on the mitochondria, from its antioxidant properties, or both. The purpose of this study was to elucidate the effects of CoQ10 supplementation on mitochondrial function during myocardial ischemia-reperfusion using an isolated mitochondrial preparation. METHODS Isolated hearts (n = 6/group) from rats pretreated with liposomal CoQ10 (10 mg/kg iv, CoQ10), vehicle (liposomal only, Vehicle), or saline (Saline) 30 min before the experiments were subjected to 15 min of equilibration (EQ), 25 min of ischemia (I), and 40 min of reperfusion (RP). Left ventricular-developed pressure (DP) was measured. Mitochondria were isolated at end-equilibration (end-EQ), at end-ischemia (end-I), and at end-reperfusion (end-RP). Mitochondrial respiratory function (State 2, 3, and 4, respiratory control index (RCI, ratio of State 3 to 4), and ADP:O ratio) was measured by polarography using NADH (alpha-ketoglutarate, alpha-KG)- or FADH (succinate, SA)-dependent substrates. RESULTS CoQ10 improved recovery of DP at end-RP (67 +/- 11% in CoQ10 vs 47 +/- 5% in Vehicle and 50 +/- 11% in Saline, P < 0.05 vs Vehicle and Saline). CoQ10 did not change preischemic mitochondrial function. IR decreased State 3 and RCI in all groups using either substrate. CoQ10 had no effect in the mitochondrial oxidation of alpha-KG at end-I. CoQ10 improved State 3 at end-I when SA was used (167 +/- 21 in CoQ10 vs 120 +/- 10 in Saline and 111 +/- 10 ng-atoms O/min/mg protein in Vehicle, P < 0.05). Using alpha-KG as a substrate, CoQ10 improved RCI at end-RP (4.2 +/- 0.2 in CoQ10 vs 3.2 +/- 0.2 in Saline and 3.0 +/- 0.3 in Vehicle, P < 0.05). Using SA, CoQ10 improved State 3 (181 +/- 10 in CoQ10 vs 142 +/- 9 in Saline and 140 +/- 12 ng-atoms O/min/mg protein in Vehicle, P < 0.05) and RCI (2.21 +/- 0.06 in CoQ10 vs 1.85 +/- 0.11 in Saline and 1.72 +/- 0.08 in Vehicle, P < 0.05) at end-RP. CONCLUSIONS The cardioprotective effects of CoQ10 can be attributed to the preservation of mitochondrial function during reperfusion as evidenced by improved FADH-dependent oxidation.
Phylogeny of Chaetothyriaceae in northern Thailand including three new species

In a recent study unusual taxa of epiphyllous ascomycota belonging to Chaetothyriaceae (Eurotiomycetes) were collected in northern Thailand. This family is poorly understood due to morphological confusion and lack of phylogenetic studies. This paper deals with three new species, Ceramothyrium thailandicum, Chaetothyrium brischofiacola and Phaeosaccardinula ficus, which are fully described and illustrated. A DNA sequence analyses of LSU and ITS rDNA genes shows that the new species cluster in the Chaetothyriaceae. This paper adds six sequences for Chaetothyriaceae to GenBank, providing much needed data for the family.
On the geometrisation of the Chung-Lu model and its component structure

We consider a model for complex networks that was introduced by Krioukov et al. [18], in which conceptually the intrinsic hierarchies of a network are mapped into the hyperbolic plane. This model gives rise to a random graph on the hyperbolic plane, which turns out to behave locally like the well-known Chung-Lu model. The latter is a special case of inhomogeneous random graphs, where two nodes are joined independently with probability proportional to the product of some pre-assigned weights whose distribution follows a power law. However, in our setting independence is no longer present. In fact, it is the existence of dependencies that gives rise to clustering, which is a ubiquitous property of complex networks. More specifically, in our setting, N points are chosen randomly on the hyperbolic plane and any two of them are joined by an edge if they are within a certain hyperbolic distance. The N points are distributed according to a quasi-uniform distribution, which is a distorted version of the uniform distribution and is controlled by a parameter α – when α = 1 this coincides with the uniform distribution. The present paper focuses on the evolution of the component structure of the random graph as this is determined by α. For α > 1, we show that with high probability as N grows the largest component of the random graph has sublinear order. When α crosses 1 a “giant” component of linear order emerges. ∗This research has been supported by a Marie Curie Career Integration Grant PCIG09-GA2011-293619.
Fast Antenna Testing With Reduced Near Field Sampling

This paper proposes an innovative functional testing methodology suitable for RF end-to-end antenna testing. Any measurement point requires mechanical movement and signal integration time to produce a sample; thus, the most radical way to reduce testing time is to reduce the number of required measured samples to a minimum. The presented approach exploits existing measurement capabilities, and allows a radical under-sampling via insertion of a-priori information by way of suitable use of advanced numerical modeling tools. The methodology can be used also with non-canonical grids, and when only a limited number of measured points is available. Experimental results are provided to show the potentials of the method.
Change in the Biotype Composition of Bemisia tabaci in Shandong Province of China from 2005 to 2008

ABSTRACT Certain biotypes of the Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae) complex cause extensive damage and are important pests and virus vectors in agricultural crops throughout the world. Among the most invasive and well studied are the B and Q biotypes. Recent reports in Shandong Province, China, have indicated that the Q biotype was introduced there in ≈ 2005, whereas the B biotype has been established there for ∼10 yr. Even so, the present distribution of the two biotypes in Shandong has not been examined. The results of this study showed that the B and Q biotypes are both present in Shandong Province based on bar-coding using a ≈450-base fragment of the mitochondrial cytochrome oxidase I (mtCOI) gene. In addition, a B biotype-specific polymerase chain reaction primer pair that amplifies a ≈300 bp mtCOI fragment was designed and used to examine the biotype composition of B. tabaci in selected crops from six provincial locations, using the general mtCOI primers as an internal positive control for DNA quality. The results of this study indicated that the Q biotype was the predominant B. tabaci colonizing all of the crops in the study sites examined. This suggests that the Q biotype has displaced the B biotype in Shandong Province of China, which until now was the predominant biotype. This is the first report of the displacement of the B by the Q biotype in field grown crops in China, and in a locale where neither the B nor the Q biotype is native. We hypothesize that this phenomenon may have been exacerbated by the widespread use of neonicotinoid insecticides for whitefly control, given the sustained efficacy thus far of neonicotinoids against the B biotype, and their failure at times to effectively control the Q biotype.
Phonology acquired through the eyes and spelling in deaf children.

Hearing and deaf children, ranging in age from 6 years 8 months to 14 years 4 months, and matched for general spelling level, were required to spell high-frequency and low-frequency words. Of interest was performance in relation to degree of exposure to Cued Speech (CS), which is a system delivering phonetically augmented speechreading through the visual modality. Groups were (a) hearing children, (b) deaf children exposed early and intensively to CS at home (CS-Home), and (c) deaf children exposed to CS later and at school only (CS-School). Most of the spelling productions of hearing children as well as of CS-Home children were phonologically accurate for high-frequency as well as for low-frequency words. CS-School children, who had less specified phonological representations, made a lower proportion of phonologically accurate spellings. These findings indicate that the accuracy of phonological representations, independent of the modality (acoustic versus visual) through which spoken language is perceived, determines the acquisition of phonology-to-orthography mappings. Analyses of the spelling productions indicate that the acquisition of orthographic representations of high precision depends on fully specified phonological representations.
The Impact of Schwartz's Cultural Value Types on ICT Use: A Multi-National Individual-Level Analysis

We introduce and examine the roles of Schwartz’s cultural value types in Information and communication technologies (ICT) use (PC and the Internet) at an individual level. Our study used the World Value Survey (WVS) data of 2009 from 49 nations with around 75,000 data points. For all nations, we find that 7 out of eight considered Schwartz’s value types matter. We also find that the use of ICT is predominant among highly educated, high-income, employed and young people. Males use PC and Internet significantly more. Overall, we also find remarkable similarities and differences in results across developed and developing nations. Broadly, for ICT use, impacts of some cultural values differ and some are same between the two groups, while impacts of demographics are somewhat similar across developing and developed nations.
A systematic review and critical analysis of cost-effectiveness studies for coronary artery disease treatment

Background: Cardiovascular disease remains the primary cause of death among Australians, despite dramatic improvements in overall cardiovascular health since the 1980s. Treating cardiovascular disease continues to place a significant economic strain on the Australian health care system, with direct healthcare costs exceeding those of any other disease. Coronary artery disease accounts for nearly one third of these costs and spending continues to rise. A range of treatments is available for coronary artery disease yet evidence of cost-effectiveness is missing, particularly for the Australian context. Cost-effectiveness evidence can signal waste and inefficiency and so is essential for an efficient allocation of healthcare resources. Methods: We used systematic review methods to search the literature across several electronic databases for economic evaluations of treatments for stable coronary artery disease. We critically appraised the literature found in searches, both against the CHEERS statement for quality reporting of economic evaluations and in terms of its usefulness for policy and decision-makers. Results: We retrieved a total of 308 references, 229 once duplicates were removed. Of these, 26 were excluded as they were not full papers (letters, editorials etc.), 55 were review papers, 50 were not cost-effectiveness analyses and 93 related to a highly specific patient sub-group or did not consider all treatment options. This left five papers to be reviewed in full. Conclusions: The current cost-effectiveness evidence does not support the increased use of PCI that has been seen in Australia and internationally. Due to problems with accessibility, clarity and relevance to policy and decision-makers, some otherwise very scientifically rigorous analyses have failed to generate any policy changes.
Group Re-keying Protocol Based on Modular Polynomial Arithmetic Over Galois Field GF(2n)

Problem statement: In this study we propose a group re-keying protocol based on modular polynomial arithmetic over Galois Field GF(2n). Common secure group communications requires encryption/decryption for group re-keying process, especially when a group member is leaving the group. Approach: This study proposes secret keys multiplication protocol based on modular polynomial arithmetic (SKMP), which eliminates the need for the encryption/decryption during the group re-keying. Results: The implementation based on modular polynomial arithmetic over Galois Field GF(2n) offers fast re-keying process (about 50% faster than Secret Keys Multiplication Protocol (SKM) for 128 bit key) and compact key size representation against other secret keys multiplication protocols. With SKMP group re-keying is handled more efficiently through modular polynomial arithmetic manipulation rather than the expensive encryption/encryption which need to be done on every membership change.
Inférence de requêtes régulières dans les arbres et applications à l'extraction d'information sur le Web

Cette these se place dans le cadre de l'inference de programmes d'extraction d'information a partir du Web. Elle soutiens les deux idees suivantes: - l'ultilisation de la structure arborescente des documents du Web permet de definir des programmes d'extraction expressifs et efficaces; - les techniques d'inferences grammaticale sur les arbres sont bien adaptees pour l'inferences de programmes d'extraction d'information.