Miracle-dz/UniFAR-FTUs huggingface dataset:
EvolView, an online tool for visualizing, annotating and managing phylogenetic trees

EvolView is a web application for visualizing, annotating and managing phylogenetic trees. First, EvolView is a phylogenetic tree viewer and customization tool; it visualizes trees in various formats, customizes them through built-in functions that can link information from external datasets, and exports the customized results to publication-ready figures. Second, EvolView is a tree and dataset management tool: users can easily organize related trees into distinct projects, add new datasets to trees and edit and manage existing trees and datasets. To make EvolView easy to use, it is equipped with an intuitive user interface. With a free account, users can save data and manipulations on the EvolView server. EvolView is freely available at: http://www.evolgenius. info/evolview.html.
THE IMPLICATIONS OF SUPPLY-SIDE UNCERTAINTIES FOR ECONOMIC POLICY

Supply-side uncertainties have increased the risk of policy errors. The increases in real energy and capital costs caused by the oil price shock and financial turmoil are likely to reduce the productive potential of OECD economies. The extent and the speed of these effects are very difficult to estimate and will depend on how permanent the shocks prove to be. At the same time, past and ongoing structural reforms are boosting potential output, but with long and unknown lags. The net effect has been to increase the uncertainty that surrounds measures of economic slack, such as the “output gap”, the unpredictability of which is a recurrent difficulty for macroeconomic policy setting at the best of times. At the current juncture, heightened uncertainties about supply-side developments combine with weakening activity and concerns about inflation to compound the risk of policy errors.
Use of social media by university accounting students and its impact on learning outcomes

ABSTRACT The proliferation in the use of social media, such as Facebook and Twitter, among university students is well documented. With many universities providing student resources in formats suitable for iPad, laptop, and mobile phone use, the use of social media for university activities has become easier. This study explores the use of social media by university accounting degree students to support their academic activities in an informal setting. It explores the impact these media have on learning outcomes. Our findings suggest that university accounting degree students use social media for a number of academic-related purposes. Students establish and maintain fluid mentor/mentee relationships around academic activities related interactions through the social media. We have found that the use of Social Media is significantly associated with students’ grades.
Information Sharing in Large Scale Teams

E ective communication among agents in large teams is crucial because the members share a common goal but only have a partial views of the environment. Information sharing is di cult in a large team because, a team member may have a piece of valuable information but not know who needs the information, since it is infeasible to know what each other agent is doing. Although much related work has been done on e cient delivery of information, most work is based on assumptions which are not suited to large scale multiagent teams. In this paper, we made two contributions. Firstly, we present a solution to sharing information that is applicable to large teams based on previous research [12]. A key to the solution is imposing a static network topology on the members of the team where each agent requiring communication to be only along very few links in that network. The key observation underlying this solution is that each piece of information is interrelated and the sender of a piece of information can guess who might need some information based on previously sent messages. Thus, when an agent has a piece of information, it can determine which of its neighbors in the network is most likely to either need the information or know who does, based on related messages previously received. Secondly, we investigate the in uence of di erent types of team network topology on the efciency of information sharing. Our results show that our algorithm works with various topologies but gets the best performance on a scale free network.
Effects of cognitive demand on situational interest and running task performances

Abstract This study examined the effect of cognitive demand on situational interest and performance using running tasks in physical education. Adolescents (N = 179) participated in a field study involving three different levels of cognitive demand. Running performances and situational interest were measured four times with a testing interval of seven days. Results from multivariate analyses of covariance suggested that cognitive demand had a significant effect on situational interest and running performances. Higher cognitive demand led to higher levels of situational interest. Situational interest was weakly or moderately correlated with running performances (|r| = .17−.40), yet students reported significantly lower performance when the perceived interest was the highest. These findings suggest the importance of designing instructional tasks with moderate cognitive demand to optimally preserve situational interest and performance in physical education. The findings also help further conceptualise the relations among cognitive demand, situational interest and performance.
MicroRNA miR-125a-3p modulates molecular pathway of motility and migration in prostate cancer cells

Fyn kinase is implicated in prostate cancer. We illustrate the role of miR-125a-3p in cellular pathways accounted for motility and migration of prostate cancer cells, probably through its regulation on Fyn expression and Fyn-downstream proteins. Prostate cancer PC3 cells were transiently transfected with empty miR-Vec (control) or with miR-125a-3p. Overexpression of miR-125a-3p reduced migration of PC3 cells and increased apoptosis. Live cell confocal imaging indicated that overexpression of miR-125a-3p reduced the cells' track speed and length and impaired phenotype. Fyn, FAK and paxillin, displayed reduced activity following miR-125a-3p overexpression. Accordingly, actin rearrangement and cells' protrusion formation were impaired. An inverse correlation between miR-125a-3p and Gleason score was observed in human prostate cancer tissues. Our study demonstrated that miR-125a-3p may regulate migration of prostate cancer cells.
Hadron Scattering in an Asymmetric Box 1 China Lattice QCD Collaboration ( CLQCD )

We propose to study hadron-hadron scattering using lattice QCD in an asymmetric box which allows one to access more non-degenerate low-momentum modes for a given volume. The conventional Lüscher’s formula applicable in a symmetric box is modified accordingly. To illustrate the feasibility of this approach, pion-pion elastic scattering phase shifts in the I = 2, J = 0 channel are calculated within quenched approximation using improved gauge and Wilson fermion actions on anisotropic lattices in an asymmetric box. After the chiral and continuum extrapolation, we find that our quenched results for the scattering phase shifts in this channel are consistent with the experimental data when the three-momentum of the pion is below 300MeV. Agreement is also found when compared with previous theoretical results from lattice and other means. Moreover, with the usage of asymmetric volume, we are able to compute the scattering phases in the low-momentum range (pion Preprint submitted to Elsevier 1 February 2008 three momentum less than about 350MeV in the center of mass frame) for over a dozen values of the pion three-momenta, much more than using the conventional symmetric box with comparable volume.
Relational Linear Programs

We propose relational linear programming, a simple framework for combing linear programs (LPs) and logic programs. A relational linear program (RLP) is a declarative LP template defining the objective and the constraints through the logical concepts of objects, relations, and quantified variables. This allows one to express the LP objective and constraints relationally for a varying number of individuals and relations among them without enumerating them. Together with a logical knowledge base, effectively a logical program consisting of logical facts and rules, it induces a ground LP. This ground LP is solved using lifted linear programming. That is, symmetries within the ground LP are employed to reduce its dimensionality, if possible, and the reduced program is solved using any off-the-shelf LP solver. In contrast to mainstream LP template languages like AMPL, which features a mixture of declarative and imperative programming styles, RLP's relational nature allows a more intuitive representation of optimization problems over relational domains. We illustrate this empirically by experiments on approximate inference in Markov logic networks using LP relaxations, on solving Markov decision processes, and on collective inference using LP support vector machines.
Acute bacterial meningitis in children admitted to the Queen Elizabeth Central Hospital, Blantyre, Malawi in 1996–97

To design appropriate interventions, we collected clinical and demographic data prospectively on all children aged one day to 14 years admitted with a diagnosis of bacterial meningitis (BM) from April 1st 1996 to March 31st 1997 to the Queen Elizabeth Central Hospital (QECH), Blantyre, Malawi. During the study period 267 children (2.7% of all paediatric admissions) were found to have BM; 83% were under 5 years of age, 61% under one year and 23% under one month. The most common causative organisms in the post neonatal period (n= 206) were Streptococcus pneumoniae (27%), Haemophilus influenzae type b (Hib) 21%, and Salmonella typhimurium (6%). In the neonatal group (< 1 month, n= 61) the most common causes were Streptococcus agalactiae (23%), S. typhimurium (15%), S. pneumoniae (11.5%) and other Gram negative rods (11.5%). Nineteen of 21 salmonella infections were in children under one year of age and all S. agalactiae were in infants under three months. There was delay on presentation: the average length of fever was 4.6 days, 39.5% had convulsed prior to arrival and 57% had an altered level of consciousness. An initial diagnosis of malaria had probably contributed to the delay in 22.5% (42 of 186 tested). 48% were < 80% weight for age, with 18% < 60% weight for age. The overall mortality was 40%. The outcome was worst in salmonella infections, particularly neonatal salmonella BM with a case fatality rate (CFR) of 89% (8 of 9 cases). Coma on presentation worsened prognosis (mortality 64% if Blantyre Coma Score < 3, 26% if > 3). 15% of survivors had sequelae on discharge. 20% of Hib isolates were resistant to chloramphenicol, but all salmonellae were sensitive. 5% of S. pneumoniae were resistant to penicillin and 8% to chloramphenicol. Earlier access to adequate health care and awareness of BM in a malaria‐endemic area would reduce mortality and morbidity. Vaccination against Hib infection would have reduced death by 18 (17%) and prevented sequelae in 7 cases.
Does modifying competition affect the frequency of technical skills in junior rugby league?

The technical demands of games can be affected by changing the number of players, pitch size and rules. This controlled trial compared the frequency of technical skills between a ‘traditional’ and newly introduced systematically ‘modified’ game of primary rugby league. A total of 475 primary rugby league players (Under 7s to 9s) were filmed playing traditional (n = 49) and modified (n = 249) formats. Notational analysis examined the frequency of technical skills (e.g. number of passes) within ‘traditional’ and ‘modified’ games. At each age category, multivariate analysis of variance indicated the clear superiority of the ‘modified’ game for the frequency of technical skills (e.g. Under 7s total skill opportunities – ‘traditional’ = 342.9 ± 47.0; ‘modified’ = 449.4 ± 93.3, d = 1.44, p < 0.001). Systematically modifying the competitive game is an effective way to increase skill opportunities for children within rugby league. Future research should examine the outcomes of modifying games in optimizing skill development in youth sport.
Approximate input physics for stellar modelling

We present a simple and efficient, yet reasonably accurate, equation of state, which at the moderately low temperatures and high densities found in the interiors of stars less massive than the Sun is substantially more accurate than its predecessor by Eggleton, Faulkner & Flannery. Along with the most recently available values in tabular form of opacities, neutrino loss rates, and nuclear reaction rates for a selection of the most important reactions, this provides a convenient package of input physics for stellar modelling. We briefly discuss a few results obtained with the updated stellar evolution code.
Interferon Regulatory Factor 7 Mediates Activation of Tap-2 by Epstein-Barr Virus Latent Membrane Protein 1

ABSTRACT Transporter associated with antigen processing 2 (Tap-2) is responsible for ATP-dependent transport of peptides from the cytosol to the endoplasmic reticulum, where peptides bind to newly synthesized human leukocyte antigen (HLA) class I molecules, which are essential for cellular immune responses. Epstein-Barr virus (EBV) latent membrane protein 1 (LMP-1) has been shown to induce the expression of Tap-2. In this study, the induction of endogenous Tap-2 by LMP-1 is shown to be associated with and requires the expression of interferon regulatory factor 7 (IRF-7). In DG75 Burkitt's lymphoma (BL) cells, in which LMP-1 induces the expression of IRF-7, LMP-1 induced endogenous Tap-2, and ectopic expression of IRF-7 could enhance the induction. In Akata BL cells, in which LMP-1 could not induce IRF-7, LMP-1 could not induce Tap-2. Addition of IRF-7, which complements the defect in Akata cells, could stimulate the expression of Tap-2. Furthermore, LMP-1 and IRF-7A but not other IRF-7 splicing variants could activate endogenous Tap-2. A Tap-2 promoter reporter construct could be activated by the overexpression of IRF-7A. The activation could be specifically enhanced by LMP-1 and was dependent on an intact interferon-stimulated response element (ISRE) present in the Tap-2 promoter. Also, IRF-7 can bind to the Tap-2 promoter under physiological conditions in vivo, as shown by formaldehyde cross-linking, as well as to the Tap-2 ISRE in vitro, as shown by gel mobility shift assays. Furthermore, LMP-1 facilitates the phosphorylation and nuclear translocation of IRF-7. These data point to the role of IRF-7 as a secondary mediator of LMP-1-activated signal transduction for Tap-2 as follows: LMP-1 stimulates the expression of IRF-7 and facilitates its phosphorylation and nuclear translocation, and then the activated IRF-7 mediates the activation of the cellular Tap-2 gene. The induction of Tap-2 by IRF-7 and LMP-1 may have an important implication for the immune response to EBV and its persistence in vivo.
Social responsibility and ethics in the banking business: Myth or reality? A case study from the Slovak Republic

The aim of this article is to examine the social context of the banking business and to define the basic attributes of corporate social responsibility and ethics in commercial banking. One part of the presents the results of the author’s empiric research into the moral attitudes of bank employees in the Slovak Republic. The importance of ethical standards for financial markets is based on the purpose of commercial banks and other financial institutions, which operate with the money of others. The financial crisis has revealed other significant economic implications, and the considerable lack of moral values in commercial banking has been reflected in bankers’ unscrupulous approach to their clients. The crisis has also caused a fundamental turnaround in public opinion towards commercial banking and has increased the pressure to apply moral principles, which represent an appropriate complement to banking regulation. The results of our research show a low level of employee loyalty in the banking sector of the Slovak Republic. This paper can serve as an inspiration for future economic and sociological research by emphasizing the fact that pursuit of profit can be compatible with added social value.
A liability of embeddedness? Ethnic social capital, job search, and earnings penalty among female immigrants

Evidence concerning the relationship between ethnic social networks and labor market outcomes is mixed. Some studies indicate that immigrants with more social capital benefit in terms of formal-sector employment, higher occupational status, and greater earnings. Others argue that embeddedness in and reliance on ethnic networks can hamper economic incorporation in the host society. Using multilevel analysis of population-level data, this study examines the association between using a personal contact in the job search and monthly earnings among immigrant women (foreign-born spouses) in Korea. Findings show that, at the individual level, the use of personal contact, both weak and strong ties, is related to lower income. At the contextual level, residing in a community characterized by denser informal interaction among immigrant members is also associated with lower income. Finally, the negative relationship between informal job search and earnings is stronger in a community with more aggregate ethnic social capital.
Planet formation in highly inclined binaries

Aims. We explore planet formation in binary systems around the central star where the protoplanetary disk plane is highly incl ined with respect to the companion star orbit. This might be the most frequent scenario for binary separations larger than 40 AU, according to Hale (1994). We focus on planetesimal accretion and compute average impact velocities in the habitable region and up to 6 AU from the primary. Methods. Planetesimal trajectories are computed within the frame of the restricted 3‐body problem determined by the central star, the companion star and massless planetesimals. Relative velocities are computed and interpreted in terms of accreting or eroding impacts. Results. We first show that, for binary inclinations higher than 10 deg rees, planetesimals evolve, at a first approximation, in a ga s-free environment. Planetesimal accretion is confined around the central star to a region determined by two main parameters, fi rstly by the mutual inclination between the binary plane and the disk, and, secondly, by the binary eccentricity. Conclusions. The onset of large mutual inclinations between planetesimals due to the nodal randomization causes an increase in the relative velocity. The chances for a successful planet a ccumulation process depend on the balance between the timescale for node randomization and that of planetesimal accretion. When the binary semimajor axis is larger than 70 AU, planet formation appears possible even for eccentric binaries (up to 0.4). Fo r lower binary separations the region where planetesimals accumulate into protoplanets shrinks consistently. When the mutual inclination between the binary plane and that of the planetesimal disk is larger than 40 ◦ the Kozai mechanism strongly inhibits planetesimal accumulation.
Gender Differences in Academic Performance: The Role of Negative Marking in Multiple-Choice Exams

We investigate whether penalizing wrong answers on multiple-choice tests ("negative marking") makes females relatively worse off compared to males (the comparison being no penalties for wrong answers). With a cohort of more than 500 undergraduate students at a major Spanish university, we conducted a field experiment in the Microeconomics course. We created a final exam, which was composed of two parts: one with penalties for wrong answers and one without. Students were randomly allocated to different exam permutations, which differed in the questions that carried penalties for wrong answers. We find that the penalties did not harm female students. Females performed better than males on both parts of the exam and did so to a greater extent on the part with penalties. Whereas risk aversion did not affect overall scores (despite affecting answering behavior), ability did. High-ability students performed relatively better with negative marking, and these were more likely to be women.
Design and analysis of receiver filters for multiple chip-rate DS-CDMA systems

As multimedia applications proliferate, there is a desire to provide wireless transport to information streams with inherently different data rates. Direct-sequence code division multiple access (DS-CDMA) is a natural multiple-access strategy for multiple data-rate systems. Previous work on multirate DS-CDMA receivers has focused on signal-processing techniques, which detect all users of all rates simultaneously. In the current work, multirate users have multiple bandwidths. Thus, it is proposed to exploit bandwidth differences to achieve frequency-based rate separation followed by single-rate detection schemes. Such a methodology enables a tradeoff between receiver complexity and performance. The performance of the proposed filters and receivers are derived for both a modified matched filter and modified decorrelator employing rate separation. The performance of a multirate CDMA overlay system is evaluated. In addition, chip pulse shaping for wide-band users is developed to improve performance for narrow-band users for the overlay system.
Platform for Multiagent Application Development Incorporating Accurate Communications Modeling

Multiagent systems are widely recognized as a method of choice for realization of distributed time-critical applications for the smart grid. However, no general solutions have been proposed for the difficult task of system development and validation, ready for deployment, which would fully account for the underlying communication network performance. We propose a novel platform designed for this purpose, which integrates a standard multiagent development framework [Java Agent Development (JADE)] and an industry standard communications network simulator (OPNET modeler). It was realized through generic extensions of the JADE framework to provide discrete event scheduling capabilities, while the OPNET modeler was extended to provide a generic method of associating the network nodes with agents running in JADE. The adopted method adheres to the high-level architecture standard. Importantly, applications developed using this platform may be deployed on the target system without manual modifications. A distributed protection application is presented and the performance is analyzed with respect to candidate agent behaviors and communication scenarios, demonstrating that the feasibility of the application critically depends on the choices made during its design and implementation.
A k-leader fuel-efficient traffic model

Optimizing travel time and energy consumption without compromising safety to attain efficient road traffic is a key goal in transport telematics. Microscopic traffic simulations are important tools to study the impact of new algorithms on road traffic. The aim of these simulations is to achieve a high degree of realism through the use of microscopic car-following models, which characterize real-time interaction among individual vehicles. These models play a vital role in Advanced Vehicle Control and Safety Systems (AVCSS) such as collision warning, adaptive cruise control, or lane guidance and in modelling simulation of safety studies and capacity analysis in transportation science. Although a range of models have been proposed to model the longitudinal interaction between adjacent vehicles due to its importance, surprisingly few comparative evaluations of the models exist. In this paper, we first identify limitations of the prominent car-following models. We then propose a k-leader fuel-efficient car-following model and show that our model is effective in terms of safety, trip times, flow and fuel efficiency. We also highlight new research challenges and important directions for further research.