Miracle-dz/UniFAR-FTUs huggingface dataset:
Chemotaxonomic Study of Citrus, Poncirus and Fortunella Genotypes Based on Peel Oil Volatile Compounds - Deciphering the Genetic Origin of Mangshanyegan (Citrus nobilis Lauriro)

Volatile profiles yielded from gas chromatography-mass spectrometry (GC-MS) analysis provide abundant information not only for metabolism-related research, but also for chemotaxonomy. To study the chemotaxonomy of Mangshanyegan, its volatile profiles of fruit and leaf and those of 29 other genotypes of Citrus, Poncirus, and Fortunella were subjected to phylogenetic analyses. Results showed that 145 identified (including 64 tentatively identified) and 15 unidentified volatile compounds were detected from their peel oils. The phylogenetic analysis of peel oils based on hierarchical cluster analysis (HCA) demonstrated a good agreement with the Swingle taxonomy system, in which the three genera of Citrus, Poncirus, and Fortunella were almost completely separated. As to Citrus, HCA indicated that Citrophorum, Cephalocitrus, and Sinocitrus fell into three subgroups, respectively. Also, it revealed that Mangshanyegan contain volatile compounds similar to those from pummelo, though it is genetically believed to be a mandarin. These results were further supported by the principal component analysis of the peel oils and the HCA results of volatile profiles of leaves in the study.
High Proportion of 22q13 Deletions and SHANK3 Mutations in Chinese Patients with Intellectual Disability

Intellectual disability (ID) is a heterogeneous disorder caused by chromosomal abnormalities, monogenic factors and environmental factors. 22q13 deletion syndrome is a genetic disorder characterized by severe ID. Although the frequency of 22q13 deletions in ID is unclear, it is believed to be largely underestimated. To address this issue, we used Affymetrix Human SNP 6.0 array to detect the 22q13 deletions in 234 Chinese unexplained ID patients and 103 controls. After the Quality Control (QC) test of raw data, 22q13 deletions were found in four out of 230 cases (1.7%), while absent in parents of the cases and 101 controls. A review of genome-wide microarray studies in ID was performed and the frequency of 22q13 deletions from the literatures was 0.24%, much lower than our report. The overlapping region shared by all 4 cases encompasses the gene SHANK3. A heterozygous de novo nonsense mutation Y1015X of SHANK3 was identified in one ID patient. Cortical neurons were prepared from embryonic mice and were transfected with a control plasmid, shank3 wild-type (WT) or mutant plasmids. Overexpression of the Y1015 mutant in neurons significantly affected neurite outgrowth compared with shank3 WT. These findings suggest that 22q13 deletions may be a more frequent cause for Chinese ID patients than previously thought, and the SHANK3 gene is involved in the neurite development.
THERMODYNAMICS AND KINETICS OF THERMAL INACTIVATION OF PEROXIDASE FROM MANGOSTEEN ( GARCINIA MANGOSTANA L . ) PERICARP

Mangosteen (Garcinia mangostana L.) pericarp is an abundant source of phytochemicals. Blanching prior to further process stabilizes these valuable compounds. In this research, crude peroxidase (POD) was extracted from mangosteen peel using Triton X-100. Kinetics of POD inactivation was studied over temperature range of 60100°C. The inactivation kinetics followed a monophasic first-order model with k values between 1.93×10 8.14×10 min . The decreasing trend of k values with increasing temperature indicates a faster inactivation of peroxidase from mangosteen pericarp at higher temperatures. The activation energy (Ea) of 35.06 kJ/mol was calculated from the slope of Arrhenius plot. Thermodynamic parameters (∆H, ∆G, ∆S) for inactivation of peroxidase at different temperatures (60-100°C) were studied in detail. The results of this research will help to design pre-processing conditions of mangosteen pericarp as a source of antioxidants.
Quasiconvex Optimization for Robust Geometric Reconstruction

Geometric reconstruction problems in computer vision are often solved by minimizing a cost function that combines the reprojection errors in the 2D images. In this paper, we show that, for various geometric reconstruction problems, their reprojection error functions share a common and quasiconvex formulation. Based on the quasiconvexity, we present a novel quasiconvex optimization framework in which the geometric reconstruction problems are formulated as a small number of small-scale convex programs that are readily solvable. Our final reconstruction algorithm is simple and has intuitive geometric interpretation. In contrast to existing local minimization approaches, our algorithm is deterministic and guarantees a predefined accuracy of the minimization result. The quasiconvexity also provides an intuitive method to handle directional uncertainties and outliers in measurements. For a large-scale problem or in a situation where computational resources are constrained, we provide an efficient approximation that gives a good upper bound (but not global minimum) on the reconstruction error. We demonstrate the effectiveness of our algorithm by experiments on both synthetic and real data.
Analysis and optimization of gate leakage current of power gating circuits

Power gating is widely accepted as an efficient way to suppress subthreshold leakage current. Yet, it suffers from gate leakage current, which grows very fast with scaling down of gate oxide. We try to understand the sources of leakage current in power gating circuits and show that input MOSFETs plays a crucial role in determining total gate leakage current. It is also shown that the choice of a current switch in terms of polarity, threshold voltage, and size has a significant impact on total leakage current. From the observation of the importance of input MOSFETs, we propose the power optimization of power gating circuits through input control
Burden of human metapneumovirus infection in young children.

BACKGROUND The inpatient and outpatient burden of human metapneumovirus (HMPV) infection among young children has not been well established. METHODS We conducted prospective, population-based surveillance for acute respiratory illness or fever among inpatient and outpatient children less than 5 years of age in three U.S. counties from 2003 through 2009. Clinical and demographic data were obtained from parents and medical records, HMPV was detected by means of a reverse-transcriptase polymerase-chain-reaction assay, and population-based rates of hospitalization and estimated rates of outpatient visits associated with HMPV infection were determined. RESULTS HMPV was detected in 200 of 3490 hospitalized children (6%), 222 of 3257 children in outpatient clinics (7%), 224 of 3001 children in the emergency department (7%), and 10 of 770 asymptomatic controls (1%). Overall annual rates of hospitalization associated with HMPV infection were 1 per 1000 children less than 5 years of age, 3 per 1000 infants less than 6 months of age, and 2 per 1000 children 6 to 11 months of age. Children hospitalized with HMPV infection, as compared with those hospitalized without HMPV infection, were older and more likely to receive a diagnosis of pneumonia or asthma, to require supplemental oxygen, and to have a longer stay in the intensive care unit. The estimated annual burden of outpatient visits associated with HMPV infection was 55 clinic visits and 13 emergency department visits per 1000 children. The majority of HMPV-positive inpatient and outpatient children had no underlying medical conditions, although premature birth and asthma were more frequent among hospitalized children with HMPV infection than among those without HMPV infection. CONCLUSIONS HMPV infection is associated with a substantial burden of hospitalizations and outpatient visits among children throughout the first 5 years of life, especially during the first year. Most children with HMPV infection were previously healthy. (Funded by the Centers for Disease Control and Prevention and the National Institutes of Health.).
Organizing conceptual knowledge in humans with a gridlike code

Coding abstract concepts in the brain Grid cells are thought to provide the neuronal code that underlies spatial knowledge in the brain. Grid cells have mostly been studied in the context of path integration. However, recent theoretical studies have suggested that they may have a broader role in the organization of general knowledge. Constantinescu et al. investigated whether the neural representation of concepts follows a structure similar to the representation of space in the entorhinal cortex. Several brain regions, including the entorhinal cortex and the ventromedial prefrontal cortex, showed gridlike neural representation of conceptual space. Science, this issue p. 1464 Grid cells in the brain can also represent nonspatial knowledge. It has been hypothesized that the brain organizes concepts into a mental map, allowing conceptual relationships to be navigated in a manner similar to that of space. Grid cells use a hexagonally symmetric code to organize spatial representations and are the likely source of a precise hexagonal symmetry in the functional magnetic resonance imaging signal. Humans navigating conceptual two-dimensional knowledge showed the same hexagonal signal in a set of brain regions markedly similar to those activated during spatial navigation. This gridlike signal is consistent across sessions acquired within an hour and more than a week apart. Our findings suggest that global relational codes may be used to organize nonspatial conceptual representations and that these codes may have a hexagonal gridlike pattern when conceptual knowledge is laid out in two continuous dimensions.
Prophylactic therapy with enoxaparin during l-asparaginase treatment in children with acute lymphoblastic leukemia

Forty-one consecutive children with acute lymphoblastic leukemia (ALL) received prophylaxis therapy with the low molecular weight heparin (LMWH) enoxaparin during l-asparaginase treatment. Enoxaparin was given every 24 h subcutaneously at a median dose of 0.84 mg/kg per day (range, 0.45–1.33 mg/kg per day) starting at the first dose of l-asparaginase until 1 week after the last dose. Molecular analysis for thrombophilic polymorphisms documented prothrombin G20210A mutation in 3/27 (11%), homozygosity for MTHFR C677T mutation in 5/27 (18.5%, and heterozygosity for factor V Leiden mutation in 5/27 (18.5%) children. There were no thrombotic events during 76 courses of l-asparaginase in 41 patients who had received enoxaparin. One patient suffered brain infarct 7 days after enoxaparin was stopped. There were no bleeding episodes. In a historical control group of 50 ALL children who had not received prophylactic enoxaparin during l-asparaginase treatment, two had thromboembolisms (one deep vein thrombosis and one pulmonary embolism). Enoxaparin is safe and seems to be effective in prevention of thromboembolism in ALL patients during l-asparaginase therapy. This study provides pilot data for a future randomized trial of the use of LMWH during ALL therapy for the prevention of asparaginase-associated thrombotic events.
Identifying Activity Levels and Steps of People With Stroke Using a Novel Shoe-Based Sensor

Background/Purpose: Advances in sensor technologies provide a method to accurately assess activity levels of people with stroke in their community. This information could be used to determine the effectiveness of rehabilitation interventions as well as provide behavior-enhancing feedback. The purpose of this study was to assess the accuracy of a novel shoe-based sensor system (SmartShoe) to identify different functional postures and steps in people with stroke. The SmartShoe system consists of five force-sensitive resistors built into a flexible insole and an accelerometer on the back of the shoe. Pressure and acceleration data are sent via Bluetooth to a smart phone. Methods: Participants with stroke wore the SmartShoe while they performed activities of daily living (ADLs) in sitting, standing, and walking positions. Data from four participants were used to develop a multilayer perceptron artificial neural network (ANN) to identify sitting, standing, and walking. A signal-processing algorithm used data from the pressure sensors to estimate the number of steps taken while walking. The accuracy, precision, and recall of the ANN for identifying the three functional postures were calculated with data from a different set of participants. Agreement between steps identified by SmartShoe and actual steps taken was analyzed by the Bland Altman method. Results: The SmartShoe was able to accurately identify sitting, standing, and walking. Accuracy, precision, and recall were all greater than 95%. The mean difference between steps identified by SmartShoe and actual steps was less than one step. Discussion: The SmartShoe was able to accurately identify different functional postures, using a unique combination of pressure and acceleration data, of people with stroke as they performed different ADLs. There was a strong level of agreement between actual steps taken and steps identified by the SmartShoe. Further study is needed to determine whether the SmartShoe could be used to provide valid information on activity levels of people with stroke while they go about their daily lives in their home and community.
Self-Rated Health Trajectories in the African American Health Cohort

Background Self-rated health taps health holistically and dynamically blends prior health histories with current illness burdens and expectations for future health. While consistently found as an independent predictor of functional decline, sentinel health events, physician visits, hospital episodes, and mortality, much less is known about intra-individual changes in self-rated health across the life course, especially for African Americans. Materials/Methods Data on 998 African American men and women aged 50–64 years old were taken from a probability-based community sample that was first assessed in 2000–2001 and re-assessed 1, 2, 3, 4, 7, and 9 years later. Using an innovative approach for including decedents in the analysis, semi-parametric group-based mixture models were used to identify person-centered group trajectories of self-rated health over time. Multivariable multinomial logistic regression analysis was then used to differentiate the characteristics of AAH participants classified into the different group trajectories. Results Four self-rated health group trajectories were identified: persistently good health, good but declining health, persistently fair health, and fair but declining health. The main characteristics that differentiated the self-rated health trajectory groups from each other were age, education, smoking, morbidity (angina, congestive heart failure, diabetes, and kidney disease), having been hospitalized in the year prior to baseline, depressive symptoms, mobility limitations, and initial self-rated health. Conclusions This is the first study to examine self-rated health trajectories separately among African Americans. Four qualitatively distinct self-rated health group trajectories were identified that call into question the accuracy of prior reports that a single, average self-rated health trajectory for African Americans adequately captures their within-group heterogeneity.
Free Radicals Generated during the Glycation Reaction of Amino Acids by Methylglyoxal

The formation of α-dicarbonyl compounds seems to be an important step for cross-linking proteins in the glycation or Maillard reaction. To elucidate the mechanism for the cross-linking reaction, we studied the reaction between a three-carbon α-dicarbonyl compound, methylglyoxal, and amino acids. Our results showed that this reaction generated yellow fluorescent products as formed in some glycated proteins. In addition, three types of free radical species were also produced, and their structures were determined by EPR spectroscopy. These free radicals are 1) the cross-linked radical cation, 2) the methylglyoxal radical anion as the counterion, and 3) the superoxide radical anion produced only in the presence of oxygen. The generation of the cross-linked radical cations and the methylglyoxal radical anions does not require metal ions or oxygens. These results indicate that dicarbonyl compounds cross-link free amino groups of protein by forming Schiff bases, which donate electrons directly to dicarbonyl compounds to form the cross-linked radical cations and the methylglyoxal radical anions. Oxygen can accept an electron from the radical anion to generate a superoxide radical anion, which can initiate damaging chain reactions. Time course studies suggest that the cross-linked radical cation is a precursor of yellow fluorescent glycation end products.
Comparison of Various Equations for Estimating GFR in Malawi: How to Determine Renal Function in Resource Limited Settings?

Background Chronic kidney disease (CKD) is a probably underrated public health problem in Sub-Saharan-Africa, in particular in combination with HIV-infection. Knowledge about the CKD prevalence is scarce and in the available literature different methods to classify CKD are used impeding comparison and general prevalence estimates. Methods This study assessed different serum-creatinine based equations for glomerular filtration rates (eGFR) and compared them to a cystatin C based equation. The study was conducted in Lilongwe, Malawi enrolling a population of 363 adults of which 32% were HIV-positive. Results Comparison of formulae based on Bland-Altman-plots and accuracy revealed best performance for the CKD-EPI equation without the correction factor for black Americans. Analyzing the differences between HIV-positive and –negative individuals CKD-EPI systematically overestimated eGFR in comparison to cystatin C and therefore lead to underestimation of CKD in HIV-positives. Conclusions Our findings underline the importance for standardization of eGFR calculation in a Sub-Saharan African setting, to further investigate the differences with regard to HIV status and to develop potential correction factors as established for age and sex.
A consensus‐based strategy to improve the quality of fault localization

A vast number of software fault localization techniques have been proposed recently with the growing realization that manual debugging is time‐consuming, tedious, and error‐prone, and fault localization is one of the most expensive debugging activities. Although some techniques perform better than others on a large number of data sets, they do not do so on all data sets and therefore, the actual quality of fault localization can vary considerably by using just one technique. This paper proposes the use of a consensus‐based strategy that combines the results of multiple fault localization techniques to consistently provide high quality performance, irrespective of data set. Empirical evidence based on case studies conducted on six sets of programs (seven programs of the Siemens suite, and the gzip, grep, make, space, and Ant programs) and three different fault localization techniques (Tarantula, Ochiai, and H3) suggests that the consensus‐based strategy holds merit and generally provides close to the best, if not the best, results. Empirically, we show that this is true of both single‐fault and multifault programs. Additionally, the consensus‐based strategy makes use of techniques that all operate on the same set of input data, minimizing the overhead. It is also simple to include or exclude techniques from consensus, making it an easily extensible or tractable strategy. Copyright © 2011 John Wiley & Sons, Ltd.
Fission Yeast Pot1-Tpp1 Protects Telomeres and Regulates Telomere Length

Telomeres are specialized chromatin structures that protect chromosomal ends. Protection of telomeres 1 (Pot1) binds to the telomeric G-rich overhang, thereby protecting telomeres and regulating telomerase. Mammalian POT1 and TPP1 interact and constitute part of the six-protein shelterin complex. Here we report that Tpz1, the TPP1 homolog in fission yeast, forms a complex with Pot1. Tpz1 binds to Ccq1 and the previously undiscovered protein Poz1 (Pot1-associated in Schizosaccharomyces pombe), which protect telomeres redundantly and regulate telomerase in positive and negative manners, respectively. Thus, the Pot1-Tpz1 complex accomplishes its functions by recruiting effector molecules Ccq1 and Poz1. Moreover, Poz1 bridges Pot1-Tpz1 and Taz1-Rap1, thereby connecting the single-stranded and double-stranded telomeric DNA regions. Such molecular architectures are similar to those of mammalian shelterin, indicating that the overall DNA-protein architecture is conserved across evolution.
Reduction of discards in the Danish Nephrops (Nephrops norvegicus) directed trawl fisheries in Kattegat and Skagerrak

This study illuminates a range of technological options relevant to present legislation for regulating fish by-catch in a small-meshed Nephrops fishery. The selection of cod, haddock, hake, lemon sole, Nephrops, plaice, saithe, witch, and whiting were evaluated using the twin-trawl technique for: (i) a 90 mm diamond mesh codend (standard codend); (ii) a standard codend with a 120 mm square mesh panel (SMP); and (iii) a standard codend with a 35/80 mm grid mounted in the extension piece to hinder access to the codend for large individuals. We used selection models to estimate selection parameters by species and confidence bands to compare the selective properties of different gear types. For cod, haddock, hake, Nephrops, plaice, and whiting we obtained estimates for all three gear variants, whereas we obtained estimates for lemon sole and witch only with the standard and the SMP codends and for saithe only for the SMP codend. The SMP significantly (p < 0.05) improved selectivity of haddock in terms of releasing more individuals below minimum landing size (MLS). For a narrow size range of plaice below MLS, the SMP retained more individuals than did the standard codend. No effect of the SMP was detected for any emon sole laice aithe itch hiting quare mesh panel of the other species. The grid codend significantly reduced catches of all fish species above MLS, but the codend also had an increased retention of cod and haddock below MLS. Furthermore, the grid resulted in a 17% loss of marketable Nephrops. © 2009 Elsevier B.V. All rights reserved.
A comparative study of the metabolic response in rainbow trout and Nile tilapia to changes in dietary macronutrient composition

Metabolic mechanisms underlying the divergent response of rainbow trout (Oncorhynchus mykiss) and Nile tilapia (Oreochromis niloticus) to changes in dietary macronutrient composition were assessed. Fish were fed one of four isoenergetic diets having a digestible protein-to-digestible energy (DP:DE) ratio above or below the optimal DP:DE ratio for both species. At each DP:DE ratio, fat was substituted by an isoenergetic amount of digestible starch as the non-protein energy source (NPE). Dietary DP:DE ratio did not affect growth and only slightly lowered protein gains in tilapia. In rainbow trout fed diets with low DP:DE ratios, particularly with starch as the major NPE source, growth and protein utilisation were highly reduced, underlining the importance of NPE source in this species. We also observed species-specific responses of enzymes involved in amino acid catabolism, lipogenesis and gluconeogenesis to dietary factors. Amino acid transdeamination enzyme activities were reduced by a low dietary DP:DE ratio in both species and in tilapia also by the substitution of fat by starch as the NPE source. Such decreased amino acid catabolism at high starch intakes, however, did not lead to improved protein retention. Our data further suggest that a combination of increased lipogenic and decreased gluconeogenic enzyme activities accounts for the better use of carbohydrates and to the improved glycaemia control in tilapia compared with rainbow tront fed starch-enriched diets with low DP:DE ratio.