Miracle-dz/UniFAR-FTUs huggingface dataset:
Two molecular markers based on mitochondrial genomes for varieties identification of the northern snakehead (Channa argus) and blotched snakehead (Channa maculata) and their reciprocal hybrids

Abstract The northern snakehead (Channa argus) and blotched snakehead (Channa maculata) and their reciprocal hybrids have played important roles in the Chinese freshwater aquaculture industry, with an annual production in China exceeding 400 thousand tons. While these are popular aquaculture breeds in China, it is not easy to identify northern snakehead, blotched snakehead, and their hybrids. Thus, a method should be developed to identify these varieties. To distinguish between the reciprocal hybrids (C. argus ♀ × C. maculata ♂ and C. maculata ♀ × C. argus ♂), the mitochondrial genome sequences of northern snakehead and blotched snakehead and their reciprocal hybrids were compared. Following the alignment and analysis of mtDNA sequences of northern snakehead, blotched snakehead and their hybrids, two pairs of specific primers were designed based on identified differences ranging from 12S rRNA to 16S rRNA gene. The BY1 primers amplified the same bands in the blotched snakehead and the hybrid (C. maculata ♀ × C. argus ♂), while producing no products in northern snakehead and the hybrid (C. argus ♀ × C. maculata ♂). Amplification with WY1 yielded the opposite results. Then, 30 individuals per fish were randomized to verify the primers, and the results showed that the primers were specific for breeds, as intended. The specific primers can not only simply distinguish between two kinds of hybrids, but also rapidly identify the two parents. This study provides a method of molecular marker identification to identify reciprocal hybrids.
Blind SNR Estimation of Gaussian-Distributed Signals in Nakagami Fading Channels

A blind (non-data-aided) SNR estimator using the statistical moments of the received signal is proposed. The proposed envelope-based non-data-aided estimator works for any time-domain Gaussian-distributed signal (e.g., OFDM signals). A closed-form expression for the estimated SNR as a function of the moments of the received signal and the Nakagami-m parameter, is derived. Interestingly, the obtained expression shows that the proposed estimator operation and performance is independent of the constellation of the received signal. Moreover, the existence of the closed-form expression results in lower implementation complexity. Furthermore, to enable theoretical performance analysis, a general mathematical expression is derived for the even moments of the received signal in terms of SNR and the Nakagami-m parameter. The performance of the proposed estimator is evaluated based on the mean-squared-error, under different conditions of the channel. An extension of our SNR estimation method into multiple antennas configurations is provided. Our results reveal that the proposed estimator works better in low SNR conditions, which is attractive to applications such as cognitive radio spectrum sharing scenarios.
Assessment of Medicaid managed behavioral health care for persons with serious mental illness.

OBJECTIVES This five-site study compared Medicaid managed behavioral health programs and fee-for-service programs on use and quality of services, satisfaction, and symptoms and functioning of adults with serious mental illness. METHODS Adults with serious mental illness in managed care programs (N=958) and fee-for-service programs (N=1,011) in five states were interviewed after the implementation of managed care and six months later. After a multiple regression to standardize the groups for case mix differences, a meta-analysis using a random-effects model was conducted, and bioequivalence methods were used to determine whether differences were significant for clinical or policy purposes. RESULTS A significantly smaller proportion of the managed care group received inpatient care (5.7 percent compared with 11.5 percent). The managed care group received significantly more hours of primary care (4.9 compared with 4.5 hours) and was significantly less healthy. However, none of these differences exceed the bioequivalence criterion of 5 percent. Managed care and fee for service were "not different but not equivalent" on 20 of 34 dependent variables. Cochrane's Q statistic, which measured intersite consistency, was significant for 20 variables. CONCLUSIONS Managed care and fee-for-service Medicaid programs did not differ on most measures; however, a lack of sufficient power was evident for many measures. Full endorsement of managed care for vulnerable populations will require further research that assumes low penetration rates and intersite variability.
Determination of Cellular H2O2 Production

The detection of radical oxygen species (ROS) is central to the understanding of their role in signal transduction. ROS detection is based on the radical-dependent reduction of a compound with a measurable change in a chemical property. However, in vitro several of the compounds are reduced by several oxidants, which results in a lack of specificity when used to detect intracellular ROS. In contrast, by using methods that detect extracellular ROS, specificity can be corroborated by adding the appropriate competitor; for example, superoxide dismutase competes for superoxide, and catalase competes for H2O2. In addition, because of the efficient activity of superoxide dismutases on superoxide and H2O2 membrane permeability, determination of extracellular H2O2 can detect all potential cellular sources of these ROS. In this protocol, extracellular H2O2 is measured as the limiting factor of peroxidase-mediated oxidation of homovanillic acid into a fluorescent dimer. The specificity of this reaction for H2O2 is demonstrated by the addition of catalase as an H2O2 scavenger. Because the assay detects small changes in fluorescence, it is highly sensitive. The high sensitivity and the specificity of this assay make it well suited to measure ROS in nonphagocytic cells where the ROS levels are in the low micromolar range. To further increase sensitivity, H2O2 measurements are performed over time to ensure the detection of maximum response and to minimize the variability in response arising from cellular heterogeneity, an attribute of primary cultures.
Associations between body composition and gait-speed decline: results from the Health, Aging, and Body Composition study.

BACKGROUND In older adults, every 0.1-m/s slower gait speed is associated with a 12% higher mortality. However, little research has identified risk factors for gait-speed decline. OBJECTIVE We assessed the association between several measures of body composition and age-related decline in gait speed. DESIGN Data were from 2306 older adults who were participating in the Health, Aging, and Body Composition cohort and were followed for 4 y (50% women; 38% black). Usual walking speed (m/s) over 20 m was measured in years 2 through 6, and the baseline and changes in several measures of body composition were included in mixed-effects models. RESULTS Gait speed declined by 0.06 ± 0.00 m/s over the 4-y period. Baseline thigh intermuscular fat predicted the annual gait-speed decline (±SE) in both men and women (-0.01 ± 0.00 and -0.02 ± 0.00 m/s per 0.57 cm(2), respectively; P < 0.01). In men, but not in women, this relation was independent of total body adiposity. In longitudinal analyses, changes in thigh intermuscular fat and total thigh muscle were the only body-composition measures that predicted gait-speed decline in men and women combined. When modeled together, every 5.75-cm(2) increase in thigh intermuscular fat was associated with a 0.01 ± 0.00-m/s decrease in gait speed, whereas every 16.92-cm(2) decrease in thigh muscle was associated with a 0.01 ± 0.00-m/s decrease in gait speed. CONCLUSIONS High and increasing thigh intermuscular fat are important predictors of gait-speed decline, implying that fat infiltration into muscle contributes to a loss of mobility with age. Conversely, a decreasing thigh muscle area is also predictive of a decline in gait speed.
Increased production of alpha-amylase by Bacillus amyloliquefaciens in the presence of glycine

The production of alpha-amylase by Bacillus amyloliquefaciens increased by a factor of 300 when glycine was added to a chemically defined simple medium at the early-logarithmic phase of growth. Glycine was not metabolized to a significant extent under the conditions used, but it considerably prevented the lowering of the pH of the culture.
Patient Preferences in Randomised Trials: Threat or Opportunity?

Objectives: To assess whether it is feasible to elicit patients’ preferences for treatments and then to proceed with randomisation which may allocate those with preferences to their less preferred treatment; and to describe which prognostic variables were associated with such preferences within the context of a randomised trial of an exercise programme for back pain. Methods: The first 97 patients enrolled in a randomised controlled trial (RCT) for the treatment of back pain were asked about their preferences, health characteristics and other prognostic variables. Results: Fifty-eight (60%) patients preferred to be allocated to the exercise programme whilst 38 (39%) were indifferent; one patient preferred conventional general practitioner (GP) management. No patient refused randomisation. Comparing patients preferring the exercise programme with indifferent patients showed that the former had a higher belief in the effectiveness of the new treatment (P > 0.01), tended to have worse back pain (P = 0.09), had back pain for a shorter duration (P = 0.04), and tended to have had more GP home visits (P = 0.06). Conclusions: For many randomised trials preference may be an important prognostic variable. In such circumstances, preference should be taken into account in the final analysis. This study demonstrates it is sometimes feasible to randomise patients to their less preferred treatment, thus allowing more robust statistical comparisons between randomised groups. This modification may make RCTs more rigorous and improve their external validity.
A Pneumococcal Protein Array as a Platform to Discover Serodiagnostic Antigens Against Infection*

Pneumonia is one of the most common and severe diseases associated with Streptococcus pneumoniae infections in children and adults. Etiological diagnosis of pneumococcal pneumonia in children is generally challenging because of limitations of diagnostic tests and interference with nasopharyngeal colonizing strains. Serological assays have recently gained interest to overcome some problems found with current diagnostic tests in pediatric pneumococcal pneumonia. To provide insight into this field, we have developed a protein array to screen the antibody response to many antigens simultaneously. Proteins were selected by experimental identification from a collection of 24 highly prevalent pediatric clinical isolates in Spain, using a proteomics approach consisting of “shaving” the cell surface with proteases and further LC/MS/MS analysis. Ninety-five proteins were recombinantly produced and printed on an array. We probed it with a collection of sera from children with pneumococcal pneumonia. From the set of the most seroprevalent antigens, we obtained a clear discriminant response for a group of three proteins (PblB, PulA, and PrtA) in children under 4 years old. We validated the results by ELISA and an immunostrip assay showed the translation to easy-to-use, affordable tests. Thus, the protein array here developed presents a tool for broad use in serodiagnostics.
Does a centralized radiotherapy system provide adequate access to care?

PURPOSE In the Canadian province of Ontario, all radiotherapy is provided by a centrally managed provincial network of nine cancer centers. The primary goal of this study was to determine whether this highly centralized radiotherapy system provides adequate and equitable access to care for the province's dispersed population. METHODS The Ontario Cancer Registry (OCR) was used to identify 295,386 cases of invasive cancer, excluding nonmelanoma skin cancer, which were diagnosed in Ontario between 1984 and 1991. Electronic radiotherapy records from each of the province's radiotherapy centers were linked to the registry at the level of the individual case. RESULTS The proportion of incident cases treated with radiotherapy was 18.8% at 4 months after diagnosis, 23.7% at 1 year, 25.8% at 2 years, 28.2% at 5 years, and 29.1% at 8 years. These rates of radiotherapy use are much lower than the accepted national and international targets, and lower than rates reported from other jurisdictions. The rate of radiotherapy use at 1 year varied significantly from county to county across Ontario (range, 18.6% to 32.4%; P < 10(-6)), and the highest rates were recorded in communities close to radiotherapy centers. There was a common geographic pattern of rate variations among several disease groups, including breast cancer, lung cancer, the genitourinary malignancies, and the gastrointestinal malignancies. CONCLUSION The low and uneven rates of radiotherapy use across the province indicate that Ontario's centralized radiotherapy system does not, at present, provide adequate or equitable access to care.
Laboratory method to study mutational effects on human erythrocyte spectrin tetramerization

We have developed a laboratory method combining a random mutagenesis method and a yeast two‐hybrid system to study effects of mutation on human erythrocyte spectrin tetramerization. A PCR‐based procedure was used to generate random mutations in DNA fragments of the first 55 residues of α‐spectrin. Each of the DNA fragments from random mutagenesis was fused with a DNA fragment of native spectrin consisting of residues 56 to 368 to give a DNA fragment of the first 368 residues in α‐spectrin. The α‐spectrin DNA fragment and a DNA fragment containing the last 449 residues in β‐spectrin were introduced into the yeast two‐hybrid system for rapid screening of α‐ and β‐spectrin interaction. Yeast colonies with interacting α‐ and β‐peptides were blue, and those with non‐interacting α‐ and β‐peptides were white. Six single amino acid mutations (R27G, Y35N, F38S, L49H, Y53N, and Y53C) and a double amino acid mutation (K16M, I24N) were identified from 8 white colonies, but no mutations were found in the DNA fragments of 14 blue colonies. Thus this simple laboratory method allows us to study effects of mutation on interactions of α‐ and β‐spectrin at the tetramerization site. Am. J. Hematol. 67:247–251, 2001. © 2001 Wiley‐Liss, Inc.
High temperature, wide bandgap full-bridge power modules for high frequency applications

In high frequency power conversion applications, one of the dominant mechanisms attributed to power loss is the turn-on and -off transition times. To this end, low inductance silicon carbide (SiC)-based near-hermetic and hermetic full-bridge power modules were designed to operate above standard operating temperatures. These power modules were optimized to exhibit low inductance power loops which are paramount for high frequency switching applications such as charging and power distribution systems. Three-dimensional finite-element parasitic modeling was performed to determine the parasitic impedance values of the package. In addition, the junction-to-case thermal resistance and breakdown of the thermal stack-up was modeled to determine the thermal characteristics of the package. Moreover, both power modules were designed and packaged using high temperature materials and processes such that the package housing is resistant to high temperature excursions from the die and/or ambient environment.
A novel hybrid intelligence approach for 2D packing through internet crowdsourcing

Packing problems on its current state are being utilized for wide area of industrial applications. The aim of present research is to create and implement an intelligent system that tackles the problem of 2D packing of objects inside a 2D container, such that objects do not overlap and the container area is to be maximized. The packing problem becomes easier, when regular/rectangular objects and container are used. In most of the practical situations, the usage of irregular objects comes to existence. To solve the packing problem of irregular objects inside a rectangular container, a hybrid intelligence approach is introduced in our proposed work. The combination of machine intelligence and human intelligence is referred as the hybrid intelligence or semi-automated approach in the proposed methodology. The incorporation of human intelligence in the outcome of machine intelligence is possible to obtain using the internet crowdsourcing as we wish to handle the packing problem through internet crowdsourcing involving rural people. The proposed methodology is tested on different standard data sets and it is observed that it has clear advantage over both manual as well as fully automated heuristic based methods in terms of time and space efficiency.
Electrical Activity of the Bladder Is Attenuated by Intravesical Inhibition of P2X2/3 Receptors During Micturition in Female Rats

Purpose To simultaneously monitor electrical discharges in various bladder regions and the external urethral sphincter (EUS) during voiding contractions, and to assess the functional role of myogenic modulation of the lower urinary tract (LUT) by ionotropic purinergic receptors containing the P2X3 subunit. Methods Female Sprague-Dawley rats were anesthetized with urethane, and implanted with a suprapubic catheter for open cystometry. Flexible microelectrodes were placed ventrally in the bladder dome, upper bladder, lower bladder, and bladder base, along with the middle section of the exposed EUS. Intravesical P2X3-containing receptors were blocked with AF-323, a specific P2X3-P2X2/3 receptor antagonist. A digital electrophysiology amplifier was used to record electrical and cystometric signals throughout the LUT. Results Electrical activity in the LUT started before effective voiding contractions. Bladder pressure and electrical waveforms showed consistent out-of-phase activity when compared with the recordings made at the EUS. This pattern was also observed during voiding contractions in the presence of AF-353, supporting the hypothesis that during bladder distension, activation of P2X3-containing receptors is required for voiding contractions. Furthermore, the inhibition of P2X3-containing receptors significantly decreased the amplitude of electrical signals in the urinary bladder, but not the base or EUS. Conclusions Our results provide novel information about the regulation of the micturition process by P2X3-containing receptors located in the inner layers of the bladder.
Molecular characterization of environmental and nontoxigenic strains of Vibrio cholerae

Environmental and nontoxigenic strains of Vibrio cholerae 0-1 were examined for genes homologous to genes encoding Escherichia coli heat-labile enterotoxin (LT). Restriction fragments encoding LT A and B subunits were isolated from the recombinant plasmid EWD299 and labeled in vitro with 32P. These probes were then hybridized to deoxyribonucleic acid extracted from strains of V. cholerae and visualized by autoradiography. None of the nontoxigenic strains of V. cholerae 0-1 from Louisiana, Alabama, Maryland, Guam, Brazil, Bangladesh, or Great Britain hybridized with the LT probes, whereas all toxigenic strains exhibited homology. In addition, strains of V. cholerae non-0-1, "group F" vibrios, V. vulnificus, and Aeromonas hydrophila were tested, and all were negative except two strains of V. cholerae non-0-1. The presence of plasmids did not correlate with toxigenicity or nontoxigenicity in any of the species examined. Thus, it appears that these strains are not simple nontoxigenic mutants, but rather do not possess any genetic material encoding cholera toxin. Such strains therefore cannot revert and serve as a reservoir of cholera.
Molecular Mechanism of Gas Solubility in Liquid: Constant Chemical Potential Molecular Dynamics Simulations.

Accurate prediction of a gas solubility in a liquid is crucial in many areas of chemistry, and a detailed understanding of the molecular mechanism of the gas solvation continues to be an active area of research. Here, we extend the idea of constant chemical potential molecular dynamics (CμMD) approach to the calculation of the gas solubility in the liquid under constant gas chemical potential conditions. As a representative example, we utilize this method to calculate the isothermal solubility of carbon dioxide in water. Additionally, we provide microscopic insight into the mechanism of solvation that preferentially occurs in areas of the surface where the hydrogen network is broken.
Delayed blow‐up for chemotaxis models with local sensing

The aim of this paper is to analyze a model for chemotaxis based on a local sensing mechanism instead of the gradient sensing mechanism used in the celebrated minimal Keller–Segel model. The model we study has the same entropy as the minimal Keller–Segel model, but a different dynamics to minimize this entropy. Consequently, the conditions on the mass for the existence of stationary solutions or blow‐up are the same; however, we make the interesting observation that with the local sensing mechanism the blow‐up in the case of supercritical mass is delayed to infinite time.
Interpretable Learning-to-Rank with Generalized Additive Models

Interpretability of learning-to-rank models is a crucial yet relatively under-examined research area. Recent progress on interpretable ranking models largely focuses on generating post-hoc explanations for existing black-box ranking models, whereas the alternative option of building an intrinsically interpretable ranking model with transparent and self-explainable structure remains unexplored. Developing fully-understandable ranking models is necessary in some scenarios (e.g., due to legal or policy constraints) where post-hoc methods cannot provide sufficiently accurate explanations. In this paper, we lay the groundwork for intrinsically interpretable learning-to-rank by introducing generalized additive models (GAMs) into ranking tasks. Generalized additive models (GAMs) are intrinsically interpretable machine learning models and have been extensively studied on regression and classification tasks. We study how to extend GAMs into ranking models which can handle both item-level and list-level features and propose a novel formulation of ranking GAMs. To instantiate ranking GAMs, we employ neural networks instead of traditional splines or regression trees. We also show that our neural ranking GAMs can be distilled into a set of simple and compact piece-wise linear functions that are much more efficient to evaluate with little accuracy loss. We conduct experiments on three data sets and show that our proposed neural ranking GAMs can achieve significantly better performance than other traditional GAM baselines while maintaining similar interpretability.