Miracle-dz/UniFAR-FTUs huggingface dataset:
Implementation of an Object Oriented Model to Analyze Relative Progression of Source code Versions with Respect to Software Quality

Many object oriented metrics have been explored and successfully applied by researchers to measure distinct aspects of software quality. Metrics are believed to be early indicators of qualitative parameters to give an idea as to how far a software engineering process has been well-implemented. However, using these metrics in isolation may not serve the purpose entirely. It is more productive to combine these metrics and map them into higher level quality attributes to gain insight into software design properties. This paper aims at analyzing the relative progression of selected versions of java open source software with respect to certain quality parameters which have been quantified and characterized by the QMOOD quality model. The versions can then be compared among themselves against these attributes to determine which design aspects have been improved relative to their predecessors and which still need to be taken care of.
CXCR4 in Cancer and Its Regulation by PPARγ

Chemokines are peptide mediators involved in normal development, hematopoietic and immune regulation, wound healing, and inflammation. Among the chemokines is CXCL12, which binds principally to its receptor CXCR4 and regulates leukocyte precursor homing to bone marrow and other sites. This role of CXCL12/CXCR4 is “commandeered” by cancer cells to facilitate the spread of CXCR4-bearing tumor cells to tissues with high CXCL12 concentrations. High CXCR4 expression by cancer cells predisposes to aggressive spread and metastasis and ultimately to poor patient outcomes. As well as being useful as a marker for disease progression, CXCR4 is a potential target for anticancer therapies. It is possible to interfere directly with the CXCL12:CXCR4 axis using peptide or small-molecular-weight antagonists. A further opportunity is offered by promoting strategies that downregulate CXCR4 pathways: CXCR4 expression in the tumor microenvironment is modulated by factors such as hypoxia, nucleosides, and eicosanoids. Another promising approach is through targeting PPAR to suppress CXCR4 expression. Endogenous PPARγ such as 15-deoxy-Δ12,14-PGJ2 and synthetic agonists such as the thiazolidinediones both cause downregulation of CXCR4 mRNA and receptor. Adjuvant therapy using PPARγ agonists may, by stimulating PPARγ-dependent downregulation of CXCR4 on cancer cells, slow the rate of metastasis and impact beneficially on disease progression.
Variations and Trends in Health Burden of Visual Impairment Due to Cataract: A Global Analysis.

Purpose To evaluate the global trends in health burden of people visually impaired from cataract in terms of disability-adjusted life years (DALY) and its correlations with national levels of socioeconomic development. Methods Global, regional, and national DALY numbers, crude rate, and age-standardized rate of cataract vision loss by age and sex were obtained from the database of the Global Burden of Disease Study 2015. The human development index, per capita gross domestic product, and other country-level data were derived from international open databases. Regression analysis was used to assess the correlations between age-standardized DALY rate and socioeconomic variables. Results The global DALY numbers of cataract vision loss increased by 89.42%, from 2048.18 (95%CI [confidence interval]: 1457.60-2761.80) thousands in 1990 to 3879.74 (95% CI: 2766.07-5232.43) thousands in 2015 (P < 0.001). Females had higher DALY number 315.83 (95%CI: 237.17-394.4) and crude rate 38.29 (95%CI: 35.35-41.23) after adjusting for age and country (all P < 0.001). The age-standardized DALY rate was higher in countries with low human development index (HDI), with 91.03 (95%CI: 73.04-108.75) for low HDI, 81.67 (95%CI: 53.24-108.82) for medium HDI, 55.89 (95%CI: 36.87-69.63) for high HDI, and 17.10 (95%CI: 13.91-26.84) for very high HDI countries (P < 0.01), respectively. The national age-standardized DALY rates in 2015 were negatively associated with both HDI (R2 = 0.489, P < 0.001) and per capita gross domestic product (R2 = 0.331, P < 0.001). Stepwise multiple regression showed that HDI was significantly correlated with national age-standardized DALY rates in 2015 after adjusting for other confounding factors (P < 0.001). Conclusions The global health burden of vision loss due to cataract increased between 1990 and 2015 despite considerable efforts from the World Health Organization and VISION 2020 initiatives.
Role of subtotal tonsillectomy (‘tonsillotomy’) in children with sleep disordered breathing

Abstract Introduction: Sleep disordered breathing in children causes disturbance in behaviour and also in cardiorespiratory and neurocognitive function. Subtotal tonsillectomy (‘tonsillotomy’) has been performed to treat sleep disordered breathing, with outcomes comparable to established therapies such as total tonsillectomy or adenoidectomy. This review critically assesses the role of subtotal tonsillectomy in a paediatric setting. Method: The Medline database (1966 to October 2012) was electronically searched using key terms including subtotal or intracapsular tonsillectomy, tonsillotomy, tonsillectomy, paediatrics, and sleep disordered breathing. Results: Eighteen papers were identified and reviewed. Subtotal tonsillectomy would appear to have an efficacy equal to that of total tonsillectomy for the treatment of sleep disordered breathing, and has significant benefits in reducing post-operative pain and analgesia use. Subtotal tonsillectomy patients appear to have less frequent post-operative haemorrhage compared with total tonsillectomy patients. Conclusion: In children, subtotal tonsillectomy is associated with fewer post-operative complications whilst having a comparable effect in improving sleep disordered breathing, compared with total tonsillectomy.
Optical coherence tomography: from research to practice

Optical coherence tomography (OCT) is a high-resolution imaging technique with great versatility of applications. In cardiology, OCT has remained hitherto as a research tool for characterization of vulnerable plaques and evaluation of neointimal healing after stenting. However, OCT is now successfully applied in different clinical scenarios, and the introduction of frequency domain analysis simplified its application to the point it can be considered a potential alternative to intravascular ultrasound for clinical decision-making in some cases. This article reviews the use of OCT for assessment of lesion severity, characterization of acute coronary syndromes, guidance of intracoronary stenting, and evaluation of long-term results.
The Relationship Between Safety Culture and Voluntary Event Reporting in a Large Regional Ambulatory Care Group

Objectives The safety culture in the workplace may affect event reporting. We evaluated the relationship of safety culture and voluntary event reporting within a large network of ambulatory practices, most of which provided primary care. Methods This study was an observational, retrospective cohort study. Patient safety event reporting rates for 35 ambulatory practices were collected using a standard tool (UHC Patient Safety Net [PSN]) and normalized based on the number of patient visits in each practice. The overall and domain-specific safety culture of each practice was measured with a validated instrument (Safety Attitudes Questionnaire [SAQ]), distributed to 828 employees in 2013. We compared safety culture scores and the average event reporting rates during a 4-month window before and after the survey distribution. Poisson regression analyses were performed to determine the relationship between PSN reporting rates and SAQ results. Results The SAQ response rate was 87%. Practices varied widely in rates of reporting events, from 0.00 to 6.99 reports per 1000 total patient visits per month. Regression analyses indicated a positive association between PSN reporting rates and SAQ scores for the domains of overall culture (incidence rate ratio [IRR], 1.019; P = 0.004) and 4 safety culture domains: teamwork climate (IRR, 1.016; P = 0.019), safety climate (IRR, 1.018; P = 0.004), working conditions (IRR, 1.017; P = 0.006), and perceptions of local management (IRR, 1.016; P = 0.040). Conclusions Our work provides new evidence to show that in the ambulatory setting more events and near misses are reported when there is a strong culture of safety.
DNA content, kinetic complexity, and the ploidy question in Candida albicans

Candida albicans is a dimorphic fungus that is pathogenic for humans. No sexual cycle has been reported for this fungus, and earlier reports have differed on whether typical strains of C. albicans are haploid or diploid. Previous estimates of the DNA content of C. albicans varied by one order of magnitude. We used three independent methods to measure the kinetic complexity of the single-copy DNA from a typical strain of C. albicans (strain H317) to determine the DNA content per haploid genote; we obtained values of 15 and 20 fg per cell by using S1 nuclease and hydroxyapatite assays, respectively. Optical assays for DNA reassociation kinetics, although not definitive in themselves, yielded values in this range. Chemical measurements of the DNA content of several typical strains, including strain H317, yielded values clustered about a mean of 37 fg per cell. We concluded that these strains are diploid.
Nitrate levels and stages of growth in hypernodulating mutants of Lupinus albus. I. N2 fixation potential

This work aimed to evaluate physiological parameters, nodulation response and N2 fixation rate in mutants of Lupinus albus in comparison with the standard Multolupa cultivar. Two nitrate levels (0 and 5mM) and two evaluation periods (7 and 10 weeks) were used. Significant differences were observed among genotypes, in relation to fresh nodule weight, nitrate levels and growth stages. The overall average for nitrate level differed between them where 5mM severely inhibited the number of nodules, reaching a 49.5% reduction in relation to treatment without nitrate. There were no behaviour differences among genotypes, nor among evaluation periods. Although the level of nitrate did not influence the production of shoot dry matter in relation to the average among levels applied, the L-135 genotype, being an inefficient mutant, reached very low values. There were no significant differences in electron allocation coefficient (EAC) among nitrate levels, nor among genotypes studied. However, the evaluation periods revealed differences, where the EAC for the seventh week had a higher value than that for the tenth week, when a 5mM aplication was evaluated. The N2 fixation rate (N2 FIX) showed the existence of the nitrate interference in fixation, given that the application of 5mM severely reduced. However, there were no differences among the genotypes and it was noted that the fixation rate was much higher in those that received nitrate. The L-88 and L-62 genotypes were the ones that have shown best adaptability in this experiment, thus being able to be recommended for new studies with higher nitrate levels and different evaluation periods. The nitrate (5mM) interferes in the nitrogen fixation rate, given that all the genotypes were affected by the level applied.
Severity of Hypertension Affects Improved Resistance Artery Endothelial Function by Angiotensin-Converting Enzyme Inhibition

The purpose of this study was to determine whether there are differences in the restoration of endothelial function by angiotensin-converting enzyme inhibition based on the severity of hypertension. Forearm blood flow (FBF) was measured in 69 patients with essential hypertension (mild, n = 23; moderate, n = 29; and severe, n = 17 randomly assigned to treatment with either imidapril or amlodipine for 24 weeks in a double-blind fashion during reactive hyperemia and after sublingual administration of nitroglycerin. Imidapril augmented the FBF response to reactive hyperemia after 24 weeks of treatment in the mild and moderate hypertensive groups, but not in the severe hypertensive group. The augmentation of the FBF response to reactive hyperemia induced by imidapril was significantly greater in the moderate hypertensive group than in the mild hypertensive group. Amlodipine did not alter the FBF response to reactive hyperemia. The increase in FBF after the sublingually administered nitroglycerin was similar in all groups. The infusion of NG-monomethyl-l-arginine, a nitric oxide synthase inhibitor, abolished the enhancement of reactive hyperemia in the mild and moderate hypertensive groups treated with imidapril. These findings suggest that the effects of imidapril on endothelial function are affected by the severity of hypertension and that angiotensin-converting enzyme inhibitor–induced augmentation of reactive hyperemia may be due to increased nitric oxide production.
Author ' s personal copy A modeling and spatio-temporal analysis framework for monitoring environmental change using NPP as an ecosystem indicator

In most cases authors are permitted to post their version of the article (e.g. in Word or Tex form) to their personal website or institutional repository. Authors requiring further information regarding Elsevier's archiving and manuscript policies are encouraged to visit: a b s t r a c t a r t i c l e i n f o Keywords: Ecosystem indicators Spatio-temporal analysis NPP MODIS NASA–CASA Vegetation moisture stress We present and describe a modeling and analysis framework for monitoring protected area (PA) ecosystems with net primary productivity (NPP) as an indicator of health. It brings together satellite data, an ecosystem simulation model (NASA–CASA), spatial linear models with autoregression, and a GIS to provide practitioners a low-cost, accessible ecosystem monitoring and analysis system (EMAS) at landscape resolutions. The EMAS is evaluated and assessed with an application example in Yellowstone National Park aimed at identifying the causes and consequences of drought. Utilizing five predictor covariates (solar radiation, burn severity, soil productivity, temperature, and precipitation), spatio-temporal analysis revealed how landscape controls and climate (summer vegetation moisture stress) affected patterns of NPP according to vegetation functional type, species cover type, and successional stage. These results supported regional and national trends of NPP in relation to carbon fluxes and lag effects of climate. Overall, the EMAS provides valuable decision support for PAs regarding informed land use planning, conservation programs, vital sign monitoring, control programs (fire fuels, invasives, etc.), and restoration efforts. Changes in climate, atmospheric CO 2 concentrations, land use/land cover, forest pathogens, and fire regimes over the past few decades have raised serious monitoring and management concerns in national parks and protected areas. In response, scientists, conservationists, and land managers have developed programs to monitor ecosystem indicators or " vital signs " that respond to environmental change (Jean et al., 2004), including remote sensing applications (Gross et al., 2006). Spatial and temporal changes in indicators presumably provide decision support, but seldom provide insight into causes (which agents) and consequences (predictions, including forecasting). Nonetheless, properly designed monitoring programs do inherently provide the experimental setting to provide such insight if natural treatments and policy experiments occur, and are measured and then analyzed. Such monitoring programs are expensive primarily due to the size and logistical constraints of national park, designated wilderness, wildlife refuge, and other protected area (collectively hereafter, abbreviated as PA) ecosystems. However, recent deployment of space-borne sensors (e.g., Moderate Resolution Imaging Spectro-radiometer, MODIS) …
Valutazione dello stato ecologico del torrente Castellano (bacino del Tronto, Marche) nel tratto urbano di Ascoli Piceno mediante analisi della componente vegetale.

È stata effettuata l’analisi ecologica comparativa della componente vegetale, spondale ed algale, del torrente Castellano nel tratto urbano di Ascoli Piceno (regione Marche, Italia centrale). Lo scopo è stato quello di verificare il rapporto tra le caratteristiche della suddetta componente ed il livello di antropizzazione del corso d’acqua e delle sue sponde. Il gradiente di pressione antropica crescente lungo il tratto studiato, che va dalla periferia della città alla confluenza del Castellano nel fiume Tronto, ha causato evidenti cambiamenti qualitativi nella flora delle sponde, che corre il pericolo di una eccessiva cosmopolitizzazione. Tale pressione è invece molto meno accentuata a livello del corso d’acqua (alveo e immediate vicinanze) dove la componente algale e la flora idrofitica ed elofitica manifestano un comportamento simile, segnalando un ambiente di ottima/buona qualità. Pertanto, al fine di giungere ad una soddisfacente riqualificazione dell’ecosistema fluviale in questo tratto, viene sottolineata la necessità di migliorare la componente vegetale spondale, incentivando gli scambi dinamici tra i frammenti della vegetazione naturale ancora esistenti.
The role of individual and neighborhood social factors on periodontitis: the third National Health and Nutrition Examination Survey.

BACKGROUND This study investigates whether race/ethnicity, individual income, education, and neighborhood socioeconomic characteristics are independently associated with periodontitis in adults>or=18 years of age who participated in the third National Health and Nutrition Examination Survey (NHANES III). METHODS Analyses were limited to participants in NHANES III who self-identified as non-Hispanic black, non-Hispanic white, or Mexican American, received a periodontal examination, and whose records were linked to the 1990 U.S. Census data (N=13,090). Periodontitis was investigated using a combination of clinical attachment loss and probing depth. Marginal logistic regression models were used to assess the association of race/ethnicity, individual income, education, and neighborhood socioeconomic characteristics with periodontitis before and after adjusting for selected covariates. A survey program was used to account for the survey sampling design and for the intraneighborhood correlation of outcomes of participants selected from the same neighborhood. RESULTS Race/ethnicity, education, and neighborhood socioeconomic conditions were associated with periodontitis before and after controlling for selected covariates. After adjustment, blacks were twice (1.58 to 2.53) as likely to have periodontitis as whites. Compared to those with more than a high school education, those with less than a high school diploma were twice (1.48 to 2.89) as likely to have periodontitis. Individuals living in a neighborhood in the lowest tertile of the socioeconomic score were 1.81 times (1.36 to 2.41) more likely to have periodontitis than those living in a neighborhood in the highest tertile of the socioeconomic score. CONCLUSION This study indicates that race/ethnicity, individual education, and neighborhood socioeconomic circumstances are important for periodontal health.
Spatial Structure of Cone Inputs to Color Cells in Alert Macaque Primary Visual Cortex (V-1)

The spatial structure of color cell receptive fields is controversial. Here, spots of light that selectively modulate one class of cones (L, M, or S, or loosely red, green, or blue) were flashed in and around the receptive fields of V-1 color cells to map the spatial structure of the cone inputs. The maps generated using these cone-isolating stimuli and an eye-position-corrected reverse correlation technique produced four findings. First, the receptive fields were Double-Opponent, an organization of spatial and chromatic opponency critical for color constancy and color contrast. Optimally stimulating both center and surround subregions with adjacent red and green spots excited the cells more than stimulating a single subregion. Second, red–green cells responded in a luminance-invariant way. For example, red-on-center cells were excited equally by a stimulus that increased L-cone activity (appearing bright red) and by a stimulus that decreased M-cone activity (appearing dark red). This implies that the opponency between L and M is balanced and argues that these cells are encoding a single chromatic axis. Third, most color cells responded to stimuli of all orientations and had circularly symmetric receptive fields. Some cells, however, showed a coarse orientation preference. This was reflected in the receptive fields as oriented Double-Opponent subregions. Fourth, red–green cells often responded to S-cone stimuli. Responses to M- and S-cone stimuli usually aligned, suggesting that these cells might be red–cyan. In summary, red–green (or red–cyan) cells, along with blue–yellow and black–white cells, establish three chromatic axes that are sufficient to describe all of color space.
Augmented Factor Models with Applications to Validating Market Risk Factors and Forecasting Bond Risk Premia

We study factor models augmented by observed covariates that have explanatory powers on the unknown factors. In financial factor models, the unknown factors can be reasonably well explained by a few observable proxies, such as the Fama-French factors. In diffusion index forecasts, identified factors are strongly related to several directly measurable economic variables such as consumption-wealth variable, financial ratios, and term spread. With those covariates, both the factors and loadings are identifiable up to a rotation matrix even only with a finite dimension. To incorporate the explanatory power of these covariates, we propose a smoothed principal component analysis (PCA): (i) regress the data onto the observed covariates, and (ii) take the principal components of the fitted data to estimate the loadings and factors. This allows us to accurately estimate the percentage of both explained and unexplained components in factors and thus to assess the explanatory power of covariates. We show that both the estimated factors and loadings can be estimated with improved rates of convergence compared to the benchmark method. The degree of improvement depends on the strength of the signals, representing the explanatory power of the covariates on the factors. The proposed estimator is robust to possibly heavy-tailed distributions. We apply the model to forecast US bond risk premia, and find that the observed macroeconomic characteristics contain strong explanatory powers of the factors. The gain of forecast is more substantial when the characteristics are incorporated to estimate the common factors than directly used for forecasts.