Miracle-dz/UniFAR-FTUs huggingface dataset:
A Comparison of Evaluation Networks and Collaboration Networks in Open Source Software Communities

The open source software (OSS) development communities have experienced rapid growth in recent years. Previous social network studies on OSS communities focused on collaboration relationships. However, information about how OSS community members perceive each other is largely ignored. In this study, we report an empirical investigation of the evaluation network in an online OSS community which includes over 11,800 OSS projects and more than 94,330 developers. A collaboration network is modeled from this data set and analyzed for comparison purposes. We find the evaluation network is significantly different from collaboration network in average degree, average path length and fragmentation rate. Furthermore, we argue that the evaluation networks can be used to locate expertise skillful developers in OSS communities and capture important social relationships among the developers missed in the collaboration network. These characteristics of the evaluation network may benefit the research of OSS development communities and expert recommendation systems.
Lack of association of conjunctival MALT lymphoma with Chlamydiae or Helicobacter pylori in a cohort of Chinese patients

Summary Background This study was conducted to detect microbial pathogens in conjunctival mucosa-associated lymphoid tissue (MALT) lymphoma specimens in an attempt to determine possible associations between conjunctival MALT lymphoma and microbial infections. Material/Methods Using PCR technique, freshly obtained tumor specimens from 16 cases of conjunctival MALT lymphoma, as confirmed by postoperative pathology, were analyzed for DNA of Chlamydia psittaci (C. psittaci), Chlamydia trachomatis (C. trachomatis), Chlamydia pneumoniae (C. pneumoniae) and Helicobacter pylori (H. pylori). Synthetic C. psittaci, C. trachomatis, C. pneumoniae and H. pylori DNA were used as positive control, and blank plasmid DNA as negative control. Results Electrophoresis showed that no bands corresponding to the positive control were observed in the specimens, indicating that no DNA of the 4 microorganisms was detected in the specimens of the 16 cases of conjunctival MALT lymphoma. Conclusions The PCR technique was able to detect the positive control quickly and accurately, but the results of PCR in analyzing the 16 specimens were negative, indicating that there is no association between conjunctival MALT lymphoma and the 4 microorganisms in Chinese patients.
A calculus for multi-level emergent behaviours in component-based systems and simulations

A major issue in Complexity Science is the formal description of emergent properties and behaviours in terms of lower level properties and behaviours. As a consequence, there are few techniques for empirically investigating specific emergent properties. In this paper, we introduce a general compositional approach to specifying such properties, using constraints to define representative sets of compositions. More specifically, we propose a calculus of complex events, which are compositions of events generated from component-level rule executions. Complex event types can be assembled hierarchically, giving a formal means of relating behaviours at different levels of abstraction. In being able to specify and then identify complex events of different types in systems and simulations, we have a method for empirically discovering relationships between behaviours defined at different levels. The formalism offers two important practical advantages. Firstly, higher level properties can be defined with different degrees of specificity so they can be defined with limited knowledge; we can then further sub-classify properties after they have been detected to discover differences in their constituent properties. Secondly, the formalism is related directly to the rules driving component behaviour so that all higher level behaviours can ultimately be decomposed into rule executions; this is particularly important for desirable and dysfunctional properties, and in circumstances where intervention at the component rule level is possible.
Impact of CYP24A1 overexpression on growth of colorectal tumour xenografts in mice fed with vitamin D and soy

Our previous studies showed that the 1,25‐dihydroxyvitamin D (1,25‐D3) catabolizing enzyme, 1,25‐dihydoxyvitamin D 24 hydroxylase (CYP24A1) was overexpressed in colorectal tumours and its level correlated with increased proliferation. We hypothesised that cells overexpressing CYP24A1 have growth advantage and a diet rich in vitamin D and soy would restore sensitivity to the anti‐tumourigenic effects of vitamin D. Soy contains genistein, a natural CYP24A1 inhibitor. To determine causality between CYP24A1 and tumour growth, we established xenografts in male SCID mice with HT29 cells stably overexpressing either GFP‐tagged CYP24A1 or GFP. Mice were fed with either high (2500 IU D3/kg) or low vitamin D (100 IU D3/kg) diet in the presence or absence of soy (20% diet). In vitro, cells overexpressing CYP24A1 grew faster than controls. 1,25‐D3, the active vitamin D metabolite, reduced cell number only in the presence of the CYP24A1 inhibitor VID400. Regardless of the amount of vitamin D in the diet, xenografts overexpressing CYP24A1 grew faster, were heavier and more aggressive. Soy reduced tumour volume only in the control xenografts, while the tumours overexpressing CYP24A1 were larger in the presence of dietary soy. In conclusion, we demonstrate that CYP24A1 overexpression results in increased aggressiveness and proliferative potential of colorectal tumours. Irrespective of the dietary vitamin D3, dietary soy is able to increase tumour volume when tumours overexpress CYP24A1, suggesting that combination of vitamin D3 and soy could have an anti‐tumourigenic effect only if CYP24A1 levels are normal.
Something from “ Nothing ”-Eight Weak Estrogenic Chemicals Combined at Concentrations below NOECs Produce Significant Mixture Effects

We tested whether multicomponent mixtures of xenoestrogens would produce significant effects when each component was combined at concentrations below its individual NOEC or EC01 level. The estrogenic effects of eight chemicals of environmental relevance, including hydroxylated PCBs, benzophenones, parabenes, bisphenol A, and genistein, were recorded using a recombinant yeast estrogen screen (YES). To ensure that no chemical contributed disproportionately to the overall combination effect, a mixture was prepared at a mixture ratio proportional to the potency of each individual component. The performance of four approaches for the calculation of additive combination effects (concentration addition, toxicity equivalency factors, effect summation, and independent action) was compared. Experimental testing of the predictions revealed that concentration addition and its application, the toxicity equivalency factor approach, were valid methods for the calculation of additive mixture effects. There was excellent agreement between prediction and observation. In contrast, independent action and effect summation led to clear underestimations of the experimentally observed responses. Crucially, there were substantial mixture effects even though each chemical was present at levels well below its NOEC and EC01. We conclude that estrogenic agents are able to act together to produce significant effects when combined at concentrations below their NOECs. Our results highlight the limitations of the traditional focus on the effects of single agents. Hazard assessments that ignore the possibility of joint action of estrogenic chemicals will almost certainly lead to significant underestimations of risk.
Evaluating the Effects of Supplemental Reading Intervention Within an MTSS or RTI Reading Reform Initiative Using a Regression Discontinuity Design

A large body of research supports the efficacy of small group reading interventions for students in Grades K through 3. However, there are few studies evaluating the effects of supplemental Tier-2 intervention implemented within a response to intervention (RTI) or multitiered systems of support (MTSS) framework. The purpose of this study was to evaluate the effects of providing Tier-2 supplemental intervention to students in Grades 1 through 3 identified as experiencing reading difficulties (n = 318) in four elementary schools across four different school districts that were selected to participate in a state MTSS initiative. The supplemental intervention was evaluated using a regression discontinuity design, and results indicated statistically significant overall effects on measures of phonemic awareness and word decoding and no discernable effects on reading fluency and comprehension. Results suggest that supplemental reading intervention implemented within MTSS frameworks can impact key reading outcomes when intervention significantly increases instructional intensity.
Development and Evaluation of Real Time RT-PCR Assays for Detection and Typing of Bluetongue Virus

Bluetongue virus is the type species of the genus Orbivirus, family Reoviridae. Bluetongue viruses (BTV) are transmitted between their vertebrate hosts primarily by biting midges (Culicoides spp.) in which they also replicate. Consequently BTV distribution is dependent on the activity, geographic distribution, and seasonal abundance of Culicoides spp. The virus can also be transmitted vertically in vertebrate hosts, and some strains/serotypes can be transmitted horizontally in the absence of insect vectors. The BTV genome is composed of ten linear segments of double-stranded (ds) RNA, numbered in order of decreasing size (Seg-1 to Seg-10). Genome segment 2 (Seg-2) encodes outer-capsid protein VP2, the most variable BTV protein and the primary target for neutralising antibodies. Consequently VP2 (and Seg-2) determine the identity of the twenty seven serotypes and two additional putative BTV serotypes that have been recognised so far. Current BTV vaccines are serotype specific and typing of outbreak strains is required in order to deploy appropriate vaccines. We report development and evaluation of multiple ‘TaqMan’ fluorescence-probe based quantitative real-time type-specific RT-PCR assays targeting Seg-2 of the 27+1 BTV types. The assays were evaluated using orbivirus isolates from the ‘Orbivirus Reference Collection’ (ORC) held at The Pirbright Institute. The assays are BTV-type specific and can be used for rapid, sensitive and reliable detection / identification (typing) of BTV RNA from samples of infected blood, tissues, homogenised Culicoides, or tissue culture supernatants. None of the assays amplified cDNAs from closely related but heterologous orbiviruses, or from uninfected host animals or cell cultures.
Exploration of Genetic Parameters and Operators through Travelling Salesman Problem

In this paper, we describe the use of advanced statistical design in the screening experiment to configure parameters and operators of genetic algorithm (GA), which applied to find a shortest distance in a classical travelling salesman problem (TSP). Due to the number of GA parameters, operators and its levels considered in the experiment, the total numbers of program executions required by the proposed design (in which an one-ninth fractional factorial experimental design is embedded within a full Latin Square) were dramatically decreased from 6,561 (using full factorial design) to 81 runs for each replication. The analysis of simulation results based on 36 cities TSP in Thailand indicated that all GA parameters and operators except the probability of mutation were statistically significant. Although the mutation operator was significant, the results were however not particularly sensitive to the degree of mutation with 95% confident level. The appropriate settings of these parameters and operators found in the screening experiment were then applied to solve 76 cities travelling problem in the sequential experiment, which aimed to compare the results obtained from the GA using the best setting found in this work and those results with settings suggested in previous research. It was found that the distance obtained from GA using our finding on the parameters' setting outperformed the settings suggested by other research.
Catch and hold: instructional interventions and their differential impact on student interest, attention, and autonomous motivation

ABSTRACT In this study, we investigated how various teaching behaviors influence student interest as a situational variable. Specifically, we studied how behaviors related to catch interest (i.e., ephemeral aspects of the learning environment such as instructor humor, nonverbal immediacy, intellectual stimulation) and hold interest (i.e., features of the environment that empower students to reach their personal goals including content relevance and meaningfulness) predicted students’ sustained attention and autonomous motivation. As anticipated, results of a structural regression model indicated that catch interest was linked to students’ sustained attention in class. Conversely, hold interest was related to students’ autonomous motivation. Our results suggest that if teachers want to ensure they maximize student motivation inside the classroom and beyond, they might consider diversifying their teaching behaviors to target both the catch and hold aspects of students’ situational interest.
Technique for Minimizing Donor-site Morbidity after Pedicled TRAM-Flap Breast Reconstruction: Outcomes by a Single Surgeon’s Experience

Background: Breast reconstruction with pedicled transverse rectus abdominis myocutaneous (TRAM) flap can result in significant abdominal wall donor-site morbidity. We present our technique of transversely dividing the anterior fascia and rectus abdominis combined with reinforcement above the arcuate line for closure of the anterior abdominal wall defect to prevent contour deformities performed by a single senior surgeon and compare these results with those of our prior series. Methods: We described our new technique of closure of the abdominal wall defect and retrospectively performed the comparison between the results of pedicled TRAM flaps using the new closure technique and those of 420 pedicled TRAM flaps from our 2003 publication in terms of abdominal bulging and hernia. Results: Sixty-seven pedicled TRAM flaps in 65 patients were compared with 420 pedicled TRAM flaps of the 2003 series. The new technique was associated with 5 partial TRAM flap necroses (8%). There was no total flap loss with the new technique. The median follow-up period was 13 months (range, 4–36 months). There were no instances of abdominal hernia and bulge during follow-up in the new series. Compared with the previous 2003 series, the new technique was superior in terms of occurrence of abdominal wall hernia or bulging. Conclusions: We are still performing pedicled TRAM flap for autologous breast reconstruction. Using the technique of transversely dividing the anterior fascia and rectus abdominis combined with reinforcement above the arcuate line can reduce the occurrence of abdominal bulging and hernia.
Critical Care Medicine

Interpretation Nutritional risk predicts outcome after colorectal surgery; however, risk outcome may differ based on the test used to classify nutritional risk. Further studies may determine whether nutrition is a causative factor in the development of certain postoperative complications (e.g., wound infection or dehiscence). It is also not known whether improvement in nutritional status with supplements will reduce complications.
The effect of context on the performance of children with ADHD on a series of computerised tasks and games

This thesis examines context effects in relation to the performance of children with ADHD in test and 'real world' situations. There is a wealth of empirical research that illustrates poor performance of these children on a range of cognitive measures, particularly tasks that claim to measure executive function and inhibitory control. However, anecdotal reports have suggested that while playing computer games these children display abilities that contrast sharply with empirical findings. This contrast was the basis for a series of studies using computer games and computerised tasks to investigate the performance of children with ADHD across contexts. The first investigation (Study 1), a questionnaire study, lent support to the anecdotal reports. Parents of children with ADHD confirmed that their children were able to sit still, concentrate, pay attention and achieve higher levels of success when playing computer games. In Study 2 parents of children with ADHD were asked to discuss the features of computer games they felt were most influential in contributing to their child's interest and performance. Observations made in the Study 3 provided further confirmation that performance improves when children with ADHD play computer games; performance in terms of error making and and on-task activity on a standardised test of inhibition and attention, the Conners' Continuous Performance Test II (CPT II), was significantly poorer than performance on a more 'game' like Pokemon version of the task and significantly different to the performance of typically developing children. Features of computer games that may have contributed to the observed improvements for children with ADHD were examined in four subsequent studies. These features included the addition of narrative, the addition of a points scoring system, the addition of character, auditory reinforcement and differing levels of response cost. Inhibitory performance on two commercially available games was also investigated (Study 8), and the performance of participants with ADHD was not significantly different to that of typically developing participants. The results raise questions about current understanding of the disorder and models of ADHD, stress the need for examining contextual sensitivity of children with apparently constitutional disorders such as ADHD, and have implications for methodological design and the contexts in which cognitive abilities are investigated.
Acceptable access to health services for adults on the autism spectrum

Background: People with autism may experience higher rates of mental health difficulty, yet access to appropriate mental health support and services has been recognised as challenging. Aims: This study aimed to explore whether components of the Theory of Planned Behaviour (TPB) could explain variance in IAPT clinicians’ intention to carry out interventions for mental health difficulties in people with High functioning autism (HFA) or Asperger’s syndrome (AS). It also explored the effect on intention of past experience of carrying out these interventions. Method: There were two stages to the study. The first stage involved a qualitative elicitation study, which investigated attitudes, subjective norms and perceived behavioural control factors in carrying out the interventions. The second stage was a questionnaire-based study. The questionnaire was created following content analysis of the qualitative data, and was completed by clinicians currently working in Improving Access to Psychological Therapy (IAPT) services (n=88). The data were then analysed using multiple regression. Results: The theory of planned behavioural model predicted 56.5% of the variance in intention to carry out interventions for mental health difficulties for people with (Autism Spectrum Conditions (ASCs). The most significant components in predicting intention were indirect attitude measures, direct measures of perceived behavioural control, and indirect subjective normative referents. Past experience of carrying out these interventions was significantly associated with intention when the individual had no experience of working with people with ASCs previously. Conclusion: Further explorations of unaccounted variables impacting on intention to carry out interventions for mental health difficulties with people with ASCs could be valuable. Clinical implications include additional training for therapists in ASCs and development of adapted materials if part of the intervention. Future research could focus on therapy efficacy other than for cognitive behavioural therapy and in-depth accounts from therapists and service users with ASCs as to their therapeutic experiences.
Population Dynamics Constrain the Cooperative Evolution of Cross-Feeding

Cross-feeding is the exchange of nutrients among species of microbes. It has two potential evolutionary origins, one as an exchange of metabolic wastes or byproducts among species, the other as a form of cooperation known as reciprocal altruism. This paper explores the conditions favoring the origin of cooperative cross-feeding between two species. There is an extensive literature on the evolution of cooperation, and some of the requirements for the evolution of cooperative cross-feeding follow from this prior work–specifically the requirement that interactions be limited to small groups of individuals, such as colonies in a spatially structured environment. Evolution of cooperative cross-feeding by a species also requires that cross-feeding from the partner species already exists, so that the cooperating mutant will automatically be reciprocated for its actions. Beyond these considerations, some unintuitive dynamical constraints apply. In particular, the benefit of cooperative cross-feeding applies only in the range of intermediate cell densities. At low density, resource concentrations are too low to offset the cost of cooperation. At high density, resources shared by both species become limiting, and the two species become competitors. These considerations suggest that the evolution of cooperative cross-feeding in nature may be more challenging than for other types of cooperation. However, the principles identified here may enable the experimental evolution of cross-feeding, as born out by a recent study.
Connexin 43 Enhances the Adhesivity and Mediates the Invasion of Malignant Glioma Cells

A hallmark of astrocytic tumors is their infiltrative nature. Although their aggressive and typically widespread dispersal in the adult brain differs fundamentally from that of other brain tumors, little is known about their cellular basis. Astrocytic tumors express the gap junction protein connexin 43 (Cx43), and we show here that Cx43 expression induced the morphological transformation of glioma cells into an epithelial phenotype. In a short-term aggregation assay, Cx43 expression was associated with a several-fold increase in the competence of glioma cells to aggregate. Antibodies directed against the extracellular domain of Cx43 restored the connexin-deficient phenotype, as manifested by a dose-dependent reduction in aggregation. Apart from their role in gap junction formation, connexins may therefore be considered a distinct class of membrane proteins with adhesive properties. Moreover, implanted Cx43-expressing glioma cells established functional gap junction channels with host astrocytes and dispersed through a substantially greater volume of brain parenchyma than mock- and mutant Cx43-transfected sister cells. Cx43 expression therefore may modulate not only the adhesion of astrocytes to one another, but the spread of glial tumor cells throughout astrocytic syncytia. These observations widen our concept of the potential interactions between tumor cells and their surroundings and suggest that both connexin proteins and their derived gap junctions are critical determinants of the invasiveness of central gliomas.