Miracle-dz/UniFAR-FTUs huggingface dataset:
Alport syndrome

People with Alport syndrome experience progressive loss of kidney function. Almost all affected individuals have blood in their urine (hematuria), which indicates abnormal functioning of the kidneys. Many people with Alport syndrome also develop high levels of protein in their urine (proteinuria). The kidneys become less able to function as this condition progresses, resulting in end-stage renal disease (ESRD).
Characterizing Arithmetic Read-Once Formulae

An arithmetic Read-Once Formula (ROF for short) is a formula (i.e., a tree of computation) in which the operations are { +, ×} and such that every input variable labels at most one leaf. We give a simple characterization of such formulae. Other than being interesting in its own right, our characterization gives rise to a property-testing algorithm for functions computable by such formulae. To the best of our knowledge, prior to our work, no characterization and/or property-testing algorithm was known for this kind of formulae.
Effect of Mindfulness Based Stress Reduction on Quality of Life (SF-36) and Spirometry Parameters, in Chemically Pulmonary Injured Veterans

Abstract Background Studies have shown that Mindfulness Based Stress Reduction (MBSR) has positive effect on physical and psychological dimensions of chronic illnesses. In this study for the first time we examine the effect of this new technique on quality of life and pulmonary function in chemically pulmonary injured veterans who have chronic pulmonary problem, psychological problems and low quality of life. Methods Forty male pulmonary injured veterans were randomly replaced in two groups with 20 participants (MBSR and control Wait List (WL)). Then MBSR group received 8-weekly sessions intervention. We evaluate quality of life (used SF-36 questionnaire) and Spirometry parameters two times; before and after intervention in two group. We used “mixed factorial analyses of variance” test for analyzing data in each dependent variables. Then if we have significant interactional effect, we used –paired- sample t-test” for comparing before and after intervention data of each group, and “Independent-Sample t-test” for comparing after intervention data of two groups. Results The MBSR compare to WL group improved SF-36 total score, (F (1, 38) =12.09, P=0.001), “Role limitations due to physical problems”(F(1,38)= 6.92, P=0.01), “Role limitations due to emotional problems”(F(1,38)= 7.75, P=0.008), “Social functioning”(F(1,38)= 9.89, P=0.003), “Mental health”(F(1,38)= 15.93, P=0), “Vitality”(F(1,38)= 40.03, P≤0.001), and “Pain”(F(1,38)= 27.60, P≤0.001). MBSR had no significant effect on “FEV1” (F (1, 38) = 0.03, P=0.85),”FVC” (F (1, 38) = 0.16, P=0.69) and “FEV1/FVC” (F (1, 38) = 2.21, P=0.14). Conclusion MBSR can improve individual’s quality of life but not lung function in chemically pulmonary injured veterans.
Night-time lights: A global, long term look at links to socio-economic trends

We use a parallelized spatial analytics platform to process the twenty-one year totality of the longest-running time series of night-time lights data—the Defense Meteorological Satellite Program (DMSP) dataset—surpassing the narrower scope of prior studies to assess changes in area lit of countries globally. Doing so allows a retrospective look at the global, long-term relationships between night-time lights and a series of socio-economic indicators. We find the strongest correlations with electricity consumption, CO2 emissions, and GDP, followed by population, CH4 emissions, N2O emissions, poverty (inverse) and F-gas emissions. Relating area lit to electricity consumption shows that while a basic linear model provides a good statistical fit, regional and temporal trends are found to have a significant impact.
Effects of copper nanoparticles on rat cerebral microvessel endothelial cells.

AIM The purpose of the current study was to determine whether copper nanoparticles (Cu-NPs) can induce the release of proinflammatory mediators that influence the restrictive characteristics of the blood-brain barrier. MATERIAL & METHODS Confluent rat brain microvessel endothelial cells (rBMECs) were treated with well-characterized Cu-NPs (40 or 60 nm). Cytotoxicity of the Cu-NPs was evaluated by cell proliferation assay (1.5-50 µg/ml). The extracellular concentrations of proinflammatory mediators (IL-1β, IL-2, TNF-α and prostaglandin E(2)) were evaluated by ELISA. RESULTS The exposure of Cu-NPs at low concentrations increases cellular proliferation of rBMECs, by contrast, high concentrations induce toxicity. Prostaglandin E(2) release was significantly increased (threefold; 8 h) for Cu-NPs (40 and 60 nm). The extracellular levels of both TNF-α and IL-1β were significantly elevated following exposure to Cu-NPs. The P-apparent ratio, as an indicator of increased permeability of rBMEC was approximately twofold for Cu-NPs (40 and 60 nm). CONCLUSION These data suggest that Cu-NPs can induce rBMEC, proliferation at low concentrations and/or induce blood-brain barrier toxicity and potential neurotoxicity at high concentrations.
Contextual Effects in Conditioning , Latent Inhibition , and Habituation : Associative and Retrieval Functions of Contextual Cues

Rats were used as subjects in four experiments to investigate the transfer of learning from one context to another. Subjects received two sessions of training each day, one in each of two different contexts. Experiment 1 showed that the habituation of the unconditioned response to a stimulus presented in one context was left intact when the stimulus was presented in another context, but that latent inhibition was attenuated when preexposure and conditioning phases occurred in different contexts. Experiments 2 and 3 demonstrated that a conditioned response made on the basis of an appetitive reinforcer was diminished when conditioning and testing occurred in different contexts, but that aversive conditioning was not influenced by the context in which testing occurred. In Experiment 4, the presence of an aversive reinforcer during training did not preclude the occurrence of context-specific conditioning on the basis of an appetitive reinforcer. Associative and retrieval-based interpretations of the results are explored.
Detection of extended spectrum beta lactamases, ampc beta lactamases and metallobetalactamases in clinical isolates of ceftazidime resistant Pseudomonas Aeruginosa

We studied the prevalence of ceftazidime resistance in Pseudomonas aeruginosa and the rates of extended-spectrum β-lactamase (ESBL), AmpC β-lactamase (AmpC) and metallo-β-lactamase (MBL) production among the ceftazidime resistant Pseudomonas aeruginosa. A very high rate of MBL production was observed, which suggested it to be an important contributing factor for ceftazidime resistance among Pseudomonas aeruginosa.
Using prior utilization to determine payments for Medicare enrollees in health maintenance organizations

The Tax Equity And Fiscal Responsibility Act of 1982 is expected to make it more attractive for health maintenance organizations (HMO's) to participate in the Medicare program on an at-risk basis. Currently, payments to at-risk HMO's are based on a formula known as the adjusted average per capita cost (AAPCC). This article describes the current formula and discusses a modification, based on prior use of Medicare services, that endeavors to more accurately predict risk. Using statistical simulations, formulas incorporating prior use performed better for some types of biased groups than a formula similar to the one currently employed. Major concerns involve the ability to “game the system. ” The prior-use model is now being tested in an HMO demonstration. This article also outlines the limitations of a prior-use model and areas for future research.
Inhibin-A Immunoreactivity in Nervous System Lesions

To evaluate inhibin-A immunoreactivity and its utility in the differential diagnosis of nervous system neoplasms and non-neoplastic lesions. An immunohistochemical study of 252 central and peripheral nervous system tumors and 40 non-neoplastic lesions was undertaken. Brain lesions included the basic spectrum of astrocytic, oligodendroglial, and ependymal neoplasms, as well as glioneuronal, pineal parenchymal, choroid plexus, and embryonal. Meningeal neoplasms, basic peripheral nerve tumors, and uncommon sellar lesions were also assessed. Non-neoplastic lesions included demyelinating disease, progressive multifocal leukoencephalopathy, organizing infarct, and reactive gliosis. Diffuse cytoplasmic, membranous, and perinuclear cytoplasmic staining patterns were observed. Significant immunoreactivity was noted in glioblastoma (12 of 20), pleomorphic xanthoastrocytoma (6 of 10), ganglioglioma (8 of 10), meningioma (14 of 20), and hemangioblastoma (10 of 10). Peripheral nerve and sellar tumors as well as non-neoplastic lesions were entirely immunonegative. In our study that investigated the inhibin-A immunoreactivity in a broad spectrum of nervous system lesions, inhibin-A positivity was established in various low-grade and high-grade central nervous system tumors. Thus, inhibin-A is not a specific marker of hemangioblastoma and may be of limited utility in the differential diagnosis of astrocytic and meningothelial neoplasms. Its pathophysiologic role in these various tumors remains to be determined. Further evaluation of the possible significance of staining patterns and degrees of reactivity relative to pathobiology and/or prognosis significance is required.
Branch Atheromatous Plaque: A Major Cause of Lacunar Infarction (High-Resolution MRI Study)

Background: Lacunar infarctions account for up to 25% of all ischemic strokes and, thus, constitute a numerically important subgroup. It is important that the two pathogeneses of lacunar infarction, that is, small-vessel occlusion and branch atheromatous disease, be differentiated because prognoses and treatment strategies differ. The authors evaluated the presence of branch atheromatous plaque in parent arteries that supply lacunar infarcts by high-resolution magnetic resonance imaging (HR-MRI). Methods: HR-MRI was performed in 15 patients with (1) a clinical presentation consistent with classical lacunar syndromes; (2) an acute lacunar infarction by diffusion-weighted imaging, measuring ≤20 mm in maximal diameter; (3) a magnetic resonance angiography showing a normal middle cerebral artery or basilar artery supplying the ischemic lesion, and (4) no other obvious etiology for small-vessel distribution ischemic stroke. Results: The median time of vessel wall imaging after index events was 4 days (range, 2–15 days). Six of the 15 patients had a lacunar infarction in the middle cerebral artery territory, and 9 had a lesion in the basilar artery territory. HR-MRI detected underlying atheromatous plaques in 9 patients (60%) with a lacunar infarction. In these 9 patients, asymptomatic intracranial atherosclerotic stenosis was more frequent compared to patients without branch atheromatous plaque (55.6 vs. 16.7%). In pontine infarctions, ischemic lesions that extended to the pial base of the pons were more frequent in patients with branch atheromatous plaques (83.3 vs. 33.3%), and all the ischemic lesions and atheromatous plaques were on the same side (right, n = 2; left, n = 4). All plaques responsible for acute symptomatic lacunar infarction were enhanced in contrast-enhanced T1-weighted HR-MR images. Conclusions: HR-MRI results enabled underlying symptomatic branch atheromatous disease to be detected in lacunar infarction patients. The experience gained during this study indicates that HR-MRI better delineates intracranial arterial lesions, suggesting that its use will lead to a further understanding of the mechanisms involved in stroke.
Efficient Transfer Entropy Analysis of Non-Stationary Neural Time Series

Information theory allows us to investigate information processing in neural systems in terms of information transfer, storage and modification. Especially the measure of information transfer, transfer entropy, has seen a dramatic surge of interest in neuroscience. Estimating transfer entropy from two processes requires the observation of multiple realizations of these processes to estimate associated probability density functions. To obtain these necessary observations, available estimators typically assume stationarity of processes to allow pooling of observations over time. This assumption however, is a major obstacle to the application of these estimators in neuroscience as observed processes are often non-stationary. As a solution, Gomez-Herrero and colleagues theoretically showed that the stationarity assumption may be avoided by estimating transfer entropy from an ensemble of realizations. Such an ensemble of realizations is often readily available in neuroscience experiments in the form of experimental trials. Thus, in this work we combine the ensemble method with a recently proposed transfer entropy estimator to make transfer entropy estimation applicable to non-stationary time series. We present an efficient implementation of the approach that is suitable for the increased computational demand of the ensemble method's practical application. In particular, we use a massively parallel implementation for a graphics processing unit to handle the computationally most heavy aspects of the ensemble method for transfer entropy estimation. We test the performance and robustness of our implementation on data from numerical simulations of stochastic processes. We also demonstrate the applicability of the ensemble method to magnetoencephalographic data. While we mainly evaluate the proposed method for neuroscience data, we expect it to be applicable in a variety of fields that are concerned with the analysis of information transfer in complex biological, social, and artificial systems.
Use of CHROMagar Candida medium for isolation of yeasts from dental samples

A new differential medium, CHROMagar Candida, for the isolation of clinically important yeasts was investigated to determine its usefulness in facilitating the study of oral yeasts. The recovery of yeasts on the medium was not significantly different from the recovery on Sabouraud dextrose agar. The identities of 450 green colonies on CHROMagar Candida, presumptively identified as Candida albicans on the basis of the manufacturer's instructions, were confirmed by testing for beta-N-acetylgalactosaminidase. Candida tropicalis also formed distinctive colonies, and other yeasts including Candida (Torulopsis) glabrata, Candida Parapsilosis, Candida Magnoliae, Candida lusitaniae, Candida Famata, Candida kefir, and Saccharomyces cerevisiae were readily distinguished from C. albicans and C. tropicalis isolates. CHROMagar Candida is a very useful medium, and its use will facilitate the study of yeasts associated with dental diseases.
Cochlea-scaled entropy, not consonants, vowels, or time, best predicts speech intelligibility

Speech sounds are traditionally divided into consonants and vowels. When only vowels or only consonants are replaced by noise, listeners are more accurate understanding sentences in which consonants are replaced but vowels remain. From such data, vowels have been suggested to be more important for understanding sentences; however, such conclusions are mitigated by the fact that replaced consonant segments were roughly one-third shorter than vowels. We report two experiments that demonstrate listener performance to be better predicted by simple psychoacoustic measures of cochlea-scaled spectral change across time. First, listeners identified sentences in which portions of consonants (C), vowels (V), CV transitions, or VC transitions were replaced by noise. Relative intelligibility was not well accounted for on the basis of Cs, Vs, or their transitions. In a second experiment, distinctions between Cs and Vs were abandoned. Instead, portions of sentences were replaced on the basis of cochlea-scaled spectral entropy (CSE). Sentence segments having relatively high, medium, or low entropy were replaced with noise. Intelligibility decreased linearly as the amount of replaced CSE increased. Duration of signal replaced and proportion of consonants/vowels replaced fail to account for listener data. CSE corresponds closely with the linguistic construct of sonority (or vowel-likeness) that is useful for describing phonological systematicity, especially syllable composition. Results challenge traditional distinctions between consonants and vowels. Speech intelligibility is better predicted by nonlinguistic sensory measures of uncertainty (potential information) than by orthodox physical acoustic measures or linguistic constructs.
Characterization of the Rice PHO1 Gene Family Reveals a Key Role for OsPHO1;2 in Phosphate Homeostasis and the Evolution of a Distinct Clade in Dicotyledons1[C][W][OA]

Phosphate homeostasis was studied in a monocotyledonous model plant through the characterization of the PHO1 gene family in rice (Oryza sativa). Bioinformatics and phylogenetic analysis showed that the rice genome has three PHO1 homologs, which cluster with the Arabidopsis (Arabidopsis thaliana) AtPHO1 and AtPHO1;H1, the only two genes known to be involved in root-to-shoot transfer of phosphate. In contrast to the Arabidopsis PHO1 gene family, all three rice PHO1 genes have a cis-natural antisense transcript located at the 5 ′ end of the genes. Strand-specific quantitative reverse transcription-PCR analyses revealed distinct patterns of expression for sense and antisense transcripts for all three genes, both at the level of tissue expression and in response to nutrient stress. The most abundantly expressed gene was OsPHO1;2 in the roots, for both sense and antisense transcripts. However, while the OsPHO1;2 sense transcript was relatively stable under various nutrient deficiencies, the antisense transcript was highly induced by inorganic phosphate (Pi) deficiency. Characterization of Ospho1;1 and Ospho1;2 insertion mutants revealed that only Ospho1;2 mutants had defects in Pi homeostasis, namely strong reduction in Pi transfer from root to shoot, which was accompanied by low-shoot and high-root Pi. Our data identify OsPHO1;2 as playing a key role in the transfer of Pi from roots to shoots in rice, and indicate that this gene could be regulated by its cis-natural antisense transcripts. Furthermore, phylogenetic analysis of PHO1 homologs in monocotyledons and dicotyledons revealed the emergence of a distinct clade of PHO1 genes in dicotyledons, which include members having roles other than long-distance Pi transport.
Neighbourhood analyses of the allelopathic effects of the invasive tree Ailanthus altissima in temperate forests

1 Allelopathic interactions between invasive and native species have been suggested to be an important mechanism for the success of some of the most aggressive plant invaders. However, field experiments that test the effects of natural levels of allelopathic compounds on coexisting native species are exceptionally rare. 2 In this study, we analyzed the allelopathic effects of the invasive tree Ailanthus altissima on seedling emergence, survival and growth of three native tree species (Acer rubrum, A. saccharum and Quercus rubra) in temperate forests of the northeastern United States. We used activated carbon (AC) to reduce potential allelopathic interference, and developed neighbourhood models that explain the observed spatial variation in the effects of the AC treatments on seedling performance as a function of the size, abundance and distribution of Ailanthus trees in the neighbourhood. 3 Our results showed that the addition of AC to the soil did not affect seedling emergence or survival, but caused a significant increase in seedling growth of all three species. Moreover, the AC shifted the overall interaction between Ailanthus and maple seedlings from neutral or slightly positive to very positive for A. rubrum, and from negative to positive for A. saccharum, whereas the net interaction between Ailanthus and Q. rubra was always negative. As Ailanthus has the ability to increase soil fertility, these species‐specific responses are presumably influenced by among‐species differences in the net effects of both allelopathy and changes in resource availability caused by the presence of Ailanthus. 4 The cumulative allelopathic effects of Ailanthus were proportional to the density of Ailanthus in the neighbourhood, regardless of their size. In contrast, Ailanthus effects were strongly influenced by distance from a tree, generally dropping to zero within 5 m from the trunk. 5 Synthesis. Taken together, our results indicate that allelopathy is an important mechanism to take into account when trying to understand the causes and consequences of plant invasions. However, this study also strongly suggests that the real significance of the allelopathic effects of an invasive species cannot be assessed independently of its target community, or in isolation of other resource interactions involving the invader and the native community.
Hugl-1 induces apoptosis in esophageal carcinoma cells both in vitro and in vivo.

AIM To determine whether the human giant larvae homolog 1 gene (Hugl-1/Llg1/Lgl1) exerts tumor suppressor effects in esophageal cancer. METHODS We constructed a Hugl-1 expression plasmid, pEZ-M29-Hugl1, for gene transfection. We transfected the pEZ-M29-Hugl1 plasmid into Eca109 esophageal cancer cell lines with Lipofectamine 2000 to overexpress Hugl-1. Real-time reverse transcription-polymerase chain reaction (RT-PCR) and Western blotting were performed to determine the effects of the plasmid on Hugl-1 expression. In vitro cell proliferation and apoptosis were examined separately by cell counting Kit-8 (CCK-8) assay, flow cytometry, and Western blotting before and after the transfection of the plasmid into Eca109 cells. Cell cycle distribution was assessed with flow cytometry. The effect of Hugl-1 overexpressing on tumor growth in vivo was performed with a xenograft tumor model in nude mice. Expression of Hugl-1 in xenograft tumor was analyzed by immunohistochemistry. The transferase-mediated dUTP nick end-labeling (TUNEL) technique was performed to detect and quantitate apoptotic cell. RESULTS The transfection efficiency was confirmed with real-time RT-PCR and Western blotting. Our results show that compared with control groups the mRNA levels and protein levels of Hugl-1 in pEZ-M29-Hugl1-treated group were remarkably increased (P < 0.05). The CCK-8 assay demonstrated that the growth of cells overexpressing Hugl-1 was significantly lower than control cells. Cell cycle distribution showed there was a G0/G1 cell cycle arrest in cells overexpressing Hugl-1 (64.09% ± 3.14% vs 50.32% ± 4.60%, 64.09% ± 3.14% vs 49.13% ± 2.24%). Annexin V-fluorescein isothiocyanate revealed that apoptosis was significantly increased in cells overexpressing Hugl-1 compared with control group (17.33% ± 4.76% vs 6.90% ± 1.61%, 17.33% ± 4.76% vs 6.27% ± 0.38%). Moreover, we found that Hugl-1 changes the level of the anti-apoptotic protein Bcl-2 and the pro-apoptotic protein Bax and the activation of both caspase-3 and caspase-9. With a TUNEL assay, we found that Hugl-1 markedly increased the apoptosis rate of Eca109 cells in vivo (60.50% ± 9.11% vs 25.00% ± 12.25%). It was shown that Hugl-1 represents a significantly more effective tumor suppressor gene alone in a xenograft tumor mouse model. This data suggest that Hugl-1 inhibited tumor growth and induced cell apoptosis in vivo. CONCLUSION These results suggest that Hugl-1 induces growth suppression and apoptosis in a human esophageal squamous cell carcinoma cell line both in vitro and in vivo.
Periodical structures and multiscale modelling

The paper discusses a numerical model for more accurate analysis of electro-hydro-dynamic processes at the level of MEMS and NANO-EMS structures. Based on previous examinations of graphene structures [1] and using traditional modeling techniques, the authors employ diverse analyses of relevant limiting parameters to propose a structural analysis facilitating the evaluation of numerical models within the nano and micro dimensions. A simple example is used to demonstrate the properties of the given approach to the current multiscale modeling of structures of matter.