Miracle-dz/UniFAR-FTUs huggingface dataset:
CoxR: open source development history search system

In typical open source software development, developers use revision control systems for product management, mailing list systems for human communications, and bug tracking systems for process management. All of these systems store development histories of the products that show significant information of problems during the development. However, it would be a hard job to retrieve useful information related to a current problem faced by developers. In this paper, we describe a software development supporting system CoxR that is capable of crawling the development histories. CoxR creates software development information Web which consists of developers, emails, and program deltas, and provides an interface to search, navigate, browse, and retrieve past development results. Through a case study, we confirmed that CoxR helps developers to solve their problems by making it easier to search development history.
A Multiplayer Case Based Story Engine

This paper describes the development of an expert casebased character director system which dynamically generates and controls a story, which is played out in a multiplayer networked game world. The system handles multiple users in a game world and directs the non player characters therein to perform for the users parallel storylines, interweaving character roles in each story. The story is told through a ‘narrative of actions’ and automatically generated dialogue. Much of the storytelling approach is based on the seminal work of Vladimir Propp, to which is applied the AI case based planning paradigm. Initial analysis of the system is based on a review of the system and its output, but future work will involve developing a more objective format for analysis.
Separating Gender Composition Effect from Peer Effects in Education

This paper aims to highlight the importance of considering endogenous peer effects, as defined by Manski (1993), in order to identify gender composition effect on education outcome appropriately. Using Manski (1993) linear-in-means model, this paper illustrates that the gender composition effect that is currently estimated in education function is the function of three parameters: social multiplier, gender differences in outcome and gender composition effect (known as a gender peer effect). The appropriate gender peer effect is identified after using Graham's variance restriction method to identify and rule out a social multiplier effect. The findings suggest that a social multiplier plays a crucial role in learning process for Italian secondary and US primary students, although a gender peer effect is not as important as highlighted in previous literatures (Hoxby, 2000; Whitmore, 2005; Lavy and Schlosser, 2011).
Identification of a Single Amino Acid Change in the Human Respiratory Syncytial Virus L Protein That Affects Transcriptional Termination

ABSTRACT Infectious Human respiratory syncytial virus (HRSV) with an aberrant RNA synthesis pattern was recovered from a cDNA clone. The virus displayed increased levels of polycistronic readthrough mRNAs resulting from failure of the polymerase to terminate transcription efficiently at the gene ends. An asparagine (N) to aspartic acid (D) change at amino acid 1049 in the large (L) polymerase protein was found to be responsible for the readthrough phenotype. Virus encoding N at position 1049 displayed an RNA synthesis pattern indistinguishable from the A2 strain of HRSV. We compared the transcriptional activities of polymerases that encoded an N or D at position 1049 (L1049N or L1049D) by using dicistronic subgenomic replicons and found that the alteration of amino acid 1049 specifically affected transcriptional termination but had no effect on genome replication. L1049N recognized and terminated transcription at each of the naturally occurring gene junctions with differing efficiencies but at significantly higher efficiency than L1049D. The abilities of the polymerases to recognize the cis-acting gene end signals required for termination were compared by examining the effect of single nucleotide changes at positions 1 to 8 of the M gene end and were found to be similar. This work identifies a single amino acid position in the polymerase that specifically affects the ability of the polymerase to terminate transcription, but which does not affect genome replication or interaction with the M2-1 protein. This work shows the critical importance of the previously defined cis-acting signals for termination, confirms differential termination at the varied gene junctions, and shows that the polymerase responds to the cis-acting sequences similarly, whether it has N or D at position 1049.
Patterns of family visiting with institutionalized elders: the case of dementia.

OBJECTIVES The purpose of this study was to examine long-term trajectories of visits to nursing homes by family caregivers to persons suffering from dementia. METHODS The data were obtained from a 5-year longitudinal study of family caregiving. This analysis used a subsample of caregivers who moved their relatives from home to a nursing home (n = 210). The frequency (times per week) and length (hours per week) of visits for up to 5 years after placement were examined in relation to select caregiver and care-recipient characteristics. A semiparametric, group-based method using a latent class mixture model was used to identify distinctive trajectories over time. RESULTS The majority of caregivers maintained the frequency and length of their visits for extended periods of time. Five distinct patterns for frequency and three patterns for length were identified. Being a spouse, lower education, a close past relationship, a strong sentiment against placement, and living close to the facility predicted membership in groups visiting frequently and for longer times. Caregiver characteristics were more strongly associated with frequency, whereas care-recipient characteristics were related to length. DISCUSSION To a large extent, family visits to nursing home residents with dementia become established in the period immediately after relocation, which means that efforts to enhance continued family involvement should commence at the time of admission.
Four-Strand Hamstring Tendon Autograft Compared with Patellar Tendon-Bone Autograft for Anterior Cruciate Ligament Reconstruction

Seventy-two patients with subacute or chronic rupture of the anterior cruciate ligament were randomly assigned to autograft reconstruction with four-strand gracilis and semitendinosus tendon (N = 37) or with patellar tendon-bone (N = 35) from the ipsilateral side. The groups were similar in terms of age, sex, level of activity, degree of laxity, meniscal lesions found surgically, and rehabilitation program. The follow-up was performed at another hospital by independent observers after 6, 12, and 24 months. Sixty-one patients (32 with hamstring tendon grafts and 29 with patellar tendon grafts) complied with the follow-up routine for the full 24 months. No differences were found between the groups with respect to Cincinnati functional score, KT-1000 arthrometer measurements, or stairs hopple test results. The subjective result and the single-legged hop test result were better for the hamstring tendon group after 6 and 12 months, but no differences were found after 24 months. The hamstring tendon group showed better isokinetic knee extension strength than did the patellar tendon group after 6 months, but not after 12 and 24 months. There was a significant weakness in isokinetic knee flexion strength among the hamstring tendon group. Anterior knee pain was not significantly different between the groups, but kneeling pain was significantly less common in the hamstring tendon group after 24 months.
Detecting Phishing Web Pages with Visual Similarity Assessment Based on Earth Mover's Distance (EMD)

An effective approach to phishing Web page detection is proposed, which uses Earth mover's distance (EMD) to measure Web page visual similarity. We first convert the involved Web pages into low resolution images and then use color and coordinate features to represent the image signatures. We use EMD to calculate the signature distances of the images of the Web pages. We train an EMD threshold vector for classifying a Web page as a phishing or a normal one. Large-scale experiments with 10,281 suspected Web pages are carried out to show high classification precision, phishing recall, and applicable time performance for online enterprise solution. We also compare our method with two others to manifest its advantage. We also built up a real system which is already used online and it has caught many real phishing cases
Fasting insulin modifies the relation between age and renal function.

BACKGROUND The worldwide increase in end-stage renal disease has been alleged to be associated with insulin resistance-related conditions. Insulin resistance and the concomitant compensatory hyperinsulinaemia may accelerate age-related decline in renal function through inducing glomerular hyperfiltration, even in non-diabetic subjects. This population-based study is the first to investigate whether fasting insulin concentrations modify the relationship between age and renal function in a general non-diabetic population. METHODS Fasting insulin was measured in 3432 subjects, representing the general population. Cross-sectional analyses of the association between age, renal function and its modification by insulin were performed by means of linear regression. Renal function was assessed as 24-h creatinine clearance (CrCl) and 24-h urinary albumine excretion (UAE). RESULTS Age was 48 +/- 12 (range: 28-75) years, 44% were male, CrCl was 100 +/- 26 ml/min and UAE was 7.0 (5.4-10.7)] mg/24 h. The results confirmed a parabolic relation between age and renal function. Fasting insulin modified these parabolic relationships of age with CrCl and UAE (P < 0.001 for both interaction terms), in such a way that hyperinsulinaemia is associated with a stronger inverse parabolic relation between age and CrCl, and stronger positive parabolic relation between age and UAE at an older age than lower insulin concentrations. CONCLUSIONS Our results are consistent with the hypothesis that insulin accelerates the age-related decline of renal function in the general non-diabetic population. This indicates that insulin resistance, and the concomitant compensatory hyperinsulinaemia could contribute to the increased incidence in end-stage renal disease.
A Corpus of Deep Argumentative Structures as an Explanation to Argumentative Relations

In this paper, we compose a new task for deep argumentative structure analysis that goes beyond shallow discourse structure analysis. The idea is that argumentative relations can reasonably be represented with a small set of predefined patterns. For example, using value judgment and bipolar causality, we can explain a support relation between two argumentative segments as follows: Segment 1 states that something is good, and Segment 2 states that it is good because it promotes something good when it happens. We are motivated by the following questions: (i) how do we formulate the task? , (ii) can a reasonable pattern set be created? , and (iii) do the patterns work? To examine the task feasibility, we conduct a three-stage, detailed annotation study using 357 argumentative relations from the argumentative microtext corpus, a small, but highly reliable corpus. We report the coverage of explanations captured by our patterns on a test set composed of 270 relations. Our coverage result of 74.6% indicates that argumentative relations can reasonably be explained by our small pattern set. Our agreement result of 85.9% shows that a reasonable inter-annotator agreement can be achieved. To assist with future work in computational argumentation, the annotated corpus is made publicly available.
Minimizing reproduction of software failures

A program fails. What now? Taking a single failing run, we record and minimize the interaction between objects to the set of calls relevant for the failure. The result is a minimal unit test that faithfully reproduces the failure at will: "Out of these 14,628 calls, only 2 are required". In a study of 17 real-life bugs, our JINSI prototype reduced the search space to 13.7% of the dynamic slice or 0.22% of the source code, with only 1--12 calls left to examine.
Cross-domain classification: Trade-off between complexity and accuracy

Text classification is one of the core applications in data mining due to the huge amount of not categorized digital data available. Training a text classifier generates a model that reflects the characteristics of the domain. However, if no training data is available, labeled data from a related but different domain might be exploited to perform cross-domain classification. In our work, we aim to accurately classify unlabeled blogs into commonly agreed newspaper categories using labeled data from the news domain. The labeled news and the unlabeled blog corpus are highly dynamic and hourly growing with a topic drift, so a trade-off between accuracy and performance is required. Our approach is to apply a fast novel centroid-based algorithm, the Class-Feature-Centroid Classifier (CFC), to perform efficient cross-domain classification. Experiments showed that this algorithm achieves a comparable accuracy than k-NN and is slightly better than Support Vector Machines (SVM), yet at linear time cost for training and classification. The benefit of this approach is that the linear time complexity enables us to efficiently generate an accurate classifier, reflecting the topic drift, several times per day on a huge dataset.
Efficient Implementations of Remote Method Invocation Considering Object Consistency

Java-based distributed applications generally use RMI (remote method invocation) for accessing remote objects. When used in wide-area environment, the performance of such applications can be poor because of the high latency of RMI. This latency can be reduced by caching objects at the client node. However, the use of caching introduces other issues, including the expense of caching the objects as well as the expense of managing the consistency of the object. This paper presents two techniques for managing the consistency of the object caching in Java RMI-based distributed applications. The first technique compares the cached time of the object in the client with the modified time of the object in the server. In the second technique the server broadcasts invalid message to the clients. Using these techniques, the system designer can select the caching and consistency strategy, the most appropriate for the application. The paper illustrates the benefits of using these techniques to improve the performance of RMI applications
Suppressive Lateral Interactions at Parafoveal Representations in Primary Visual Cortex

The perceptual salience and visibility of image elements is influenced by other elements in their vicinity. The perceptual effect of image elements on an adjacent target element depends on their relative orientation. Collinear flanking elements usually improve sensitivity for the target element, whereas orthogonal elements have a weaker effect. It is believed that the collinear flankers exert these effects through lateral interactions between neurons in the primary visual cortex (area V1), but the precise mechanisms underlying these contextual interactions remain unknown. Here, we directly examined this question by recording the effects of flankers on the responses of V1 neurons at parafoveal representations while monkeys performed a fixation task or a contrast detection task. We found, unexpectedly, that collinear flankers reduce the monkeys' perceptual sensitivity for a central target element. This behavioral effect was explained by a flanker-induced increase in the activity of V1 neurons in the absence of the central target stimulus, which reduced the amplitude of the target response. Our results indicate that the dominant effect of collinear flankers in parafoveal vision is suppression and suggest that these suppressive effects are caused by a decrease in the dynamic range of neurons coding the central target.
A Toxin-Antitoxin Module in Bacillus subtilis Can Both Mitigate and Amplify Effects of Lethal Stress

Background Bacterial type-2 (protein-protein) toxin-antitoxin (TA) modules are two-gene operons that are thought to participate in the response to stress. Previous work with Escherichia coli has led to a debate in which some investigators conclude that the modules protect from stress, while others argue that they amplify lethal stress and lead to programmed cell death. To avoid ambiguity arising from the presence of multiple TA modules in E. coli, the effect of the sole type-2 toxin-antitoxin module of Bacillus subtilis was examined for several types of lethal stress. Methodology/Principal Findings Genetic knockout of the toxin gene, ndoA (ydcE), conferred protection to lethal stressors that included kanamycin, moxifloxacin, hydrogen peroxide, and UV irradiation. However, at low doses of UV irradiation the ndoA deficiency increased lethality. Indeed, gradually increasing UV dose with the ndoA mutant revealed a crossover response – from the mutant being more sensitive than wild-type cells to being less sensitive. For high temperature and nutrient starvation, the toxin deficiency rendered cells hypersensitive. The ndoA deficiency also reduced sporulation frequency, indicating a role for toxin-antitoxin modules in this developmental process. In the case of lethal antimicrobial treatment, deletion of the toxin eliminated a surge in hydrogen peroxide accumulation observed in wild-type cells. Conclusions A single toxin-antitoxin module can mediate two opposing effects of stress, one that lowers lethality and another that raises it. Protective effects are thought to arise from toxin-mediated inhibition of translation based on published work. The enhanced, stress-mediated killing probably involves toxin-dependent accumulation of reactive oxygen species, since a deficiency in the NdoA toxin suppressed peroxide accumulation following antimicrobial treatment. The type and perhaps the level of stress appear to be important for determining whether this toxin will have a protective or detrimental effect.
Parity declustering for fault-tolerant storage systems via t-designs

Parity declustering allows faster reconstruction of a disk array when some disk fails. Moreover, it guarantees uniform reconstruction workload on all surviving disks. It has been shown that parity declustering for one-failure tolerant array codes can be obtained via Balanced Incomplete Block Designs. We extend this technique for array codes that can tolerate an arbitrary number of disk failures via t-designs.
Sunitinib treatment in patients with advanced renal cell cancer: the Brazilian National Cancer Institute (INCA) experience

ABSTRACT Purpose: The aim of this study was to assess the impact of sunitinib treatment in a non-screened group of patients with metastatic renal cell cancer (mRCC) treated by the Brazilian Unified Health System (SUS) at a single reference institution. Material and Methods: Retrospective cohort study, which evaluated patients with mRCC who received sunitinib between May 2010 and December 2013. Results: Fifty-eight patients were eligible. Most patients were male 41 (71%), with a median age of 58 years. Nephrectomy was performed in 41 (71%) patients with a median interval of 16 months between the surgery and initiation of sunitinib. The most prevalent histological subtype was clear cell carcinoma, present in 52 (91.2%) patients. In 50 patients (86%), sunitinib was the first line of systemic treatment. The main adverse effects were fatigue (57%), hypothyroidism (43%), mucositis (33%) and diarrhea (29%). Grade 3 and 4 adverse effects were infrequent: fatigue (12%), hypertension (12%), thrombocytopenia (7%), neutropenia (5%) and hand-foot syndrome (5%). Forty percent of patients achieved a partial response and 35% stable disease, with a disease control rate of 75%. Median progression free survival was 7.6 months and median overall survival was 14.1 months. Conclusion: Sunitinib treatment was active in the majority of patients, especially those with low and intermediate risk by MSKCC score, with manageable toxicity. Survival rates were inferior in this non-screened population with mRCC treated in the SUS.
The Relation of Ambulatory Heart Rate with All-Cause Mortality among Middle-Aged Men: A Prospective Cohort Study

The aim of this study was to investigate the association between average 24-hour ambulatory heart rate and all-cause mortality, while adjusting for resting clinical heart rate, cardiorespiratory fitness, occupational and leisure time physical activity as well as classical risk factors. A group of 439 middle-aged male workers free of baseline coronary heart disease from the Belgian Physical Fitness Study was included in the analysis. Data were collected by questionnaires and clinical examinations from 1976 to 1978. All-cause mortality was collected from the national mortality registration with a mean follow-up period of 16.5 years, with a total of 48 events. After adjustment for all before mentioned confounders in a Cox proportional hazards regression analysis, a significant increased risk for all-cause mortality was found among the tertile of workers with highest average ambulatory heart rate compared to the tertile with lowest ambulatory heart rate (Hazard ratio = 3.21, 95% confidence interval: 1.22–8.44). No significant independent association was found between resting clinic heart rate and all-cause mortality. The study indicates that average 24-hour ambulatory heart rate is a strong predictor of all-cause mortality independent from resting clinic heart rate, cardiorespiratory fitness, occupational and leisure time physical activity and other classical risk factors among healthy middle-aged workers.
Context-based methods for text categorisation

We propose several context-based methods for text categorization. One method, a small modification to the PPM compression-based model which is known to significantly degrade compression performance, counter-intuitively has the opposite effect on categorization performance. Another method, called C-measure, simply counts the presence of higher order character contexts, and outperforms all other approaches investigated.
Inductive learning approach to intelligent patient image pre-fetching: extension and evaluation of CN2 algorithm

When performing primary reading on a newly taken radiographic examination, a radiologist often needs to reference relevant prior images of the same patient for confirmation of comparison purposes. To effectively support such prior image references, we proposed an intelligent patient image retrieval system, which includes a learning subsystem for including patient image extended knowledge, based on radiologists image reference behaviors. In this study, we extended CN2, a decision rule-based induction technique, to address challenging characteristics unique to our application, including missing/noisy data and multiple decision outcomes. Our experimental results showed that the overall learning performance of the proposed CN2-MD algorithm was satisfactory, exhibiting desirable noise tolerance, immunity to missing data, and robustness with limited training data.