Miracle-dz/UniFAR-FTUs huggingface dataset:
Factors influencing the reporting of adverse medical device events: qualitative interviews with physicians about higher risk implantable devices

Background Postmarket surveillance of medical devices is reliant on physician reporting of adverse medical device events (AMDEs). Little is known about factors that influence whether and how physicians report AMDEs, an essential step in developing behaviour change interventions. This study explored factors that influence AMDE reporting. Methods Qualitative interviews were conducted with physicians who differed by specialties that implant cardiovascular and orthopaedic devices prone to AMDEs, geography and years in practice. Participants were asked if and how they reported AMDEs, and the influencing factors. Themes were identified inductively using constant comparative technique, and reviewed and discussed by the research team on four occasions. Results Twenty-two physicians of varying specialty, region, organisation and career stage perceived AMDE reporting as unnecessary, not possible or futile due to multiple factors. Physicians viewed AMDEs as an expected part of practice that they could manage by switching to different devices or developing work-around strategies for problematic devices. Physician beliefs and behaviour were reinforced by limited healthcare system capacity and industry responsiveness. The healthcare system lacked processes and infrastructure to detect, capture, share and act on information about AMDEs, and constrained device choice through purchasing contracts. The device industry did not respond to reports of AMDEs from physicians or improve their products based on such reports. As a result, participants said they used devices that were less than ideal for a given patient, leading to suboptimal patient outcomes. Conclusions There may be little point in solely educating or incentivising individual physicians to report AMDEs unless environmental conditions are conducive to doing so. Future research should explore policies that govern AMDEs and investigate how to design and implement postmarket surveillance systems.
Robot navigation using velocity potential fields and particle filters for obstacle avoidance

Autonomous robots are required to avoid the obstacles during navigation. For this purpose unknown and unexpected obstacles have to be detected during motion. The proposed approach uses particle filters to process sensors data and estimate relative position of the robot with regard to the obstacles and to the goal. These relative position estimations are inputs to the velocity potential field approach for obtaining time varying velocity commands for the robot to avoid all obstacles and reach the goal.
Inhibition of myocardial glucose uptake by cGMP.

Guanosine 3',5'-cyclic monophosphate (cGMP), a second messenger of nitric oxide (NO), regulates myocardial contractility. It is not known whether this effect is accompanied by a change in heart metabolism. We report here the effects of 8-bromoguanosine 3',5'-cyclic monophosphate (8-BrcGMP), a cGMP analog, on regulatory steps of glucose metabolism in isolated working rat hearts perfused with glucose as the substrate. When glucose uptake was stimulated by increasing the workload, addition of the cGMP analog totally suppressed this stimulation and accelerated net glycogen breakdown. 8-BrcGMP did not affect pyruvate dehydrogenase activity but activated acetyl-CoA carboxylase, the enzyme that produces malonyl-CoA, an inhibitor of long-chain fatty acid oxidation. To test whether glucose metabolism could also be affected by altering the intracellular concentration of cGMP, we perfused hearts with N G-nitro-l-arginine methyl ester (l-NAME), an inhibitor of NO synthase, or with S-nitroso- N-acetylpenicillamine (SNAP), a NO donor. Perfusion withl-NAME decreased cGMP and increased glucose uptake by 30%, whereas perfusion with SNAP resulted in opposite effects. None of these conditions affected adenosine 3',5'-cyclic monophosphate concentration. Limitation of glucose uptake by SNAP or 8-BrcGMP decreased heart work, and this was reversed by adding alternative oxidizable substrates (pyruvate, β-hydroxybutyrate) together with glucose. Therefore, increased NO production decreases myocardial glucose utilization and limits heart work. This effect is mediated by cGMP, which is thus endowed with both physiological and metabolic properties.
Cloning and expression of rat lung acidic Ca2+-independent PLA2 and its organ distribution.

A clone for a rat acidic Ca2+-independent phospholipase A2(aiPLA2) was isolated from a cDNA library prepared from rat granular pneumocytes with a probe based on the human aiPLA2 sequence (T. S. Kim, C. S. Sundaresh, S. I. Feinstein, C. Dodia, W. R. Skach, M. K. Jain, T. Nagase, N. Seki, K. Ishikawa, N. Nomura, and A. B. Fisher. J. Biol. Chem. 272: 2542-2550, 1997). In addition, a consensus sequence for mouse aiPLA2 was constructed from several mouse cDNA clones in the GenBank and dbEST databases. Each sequence codes for a 224-amino acid protein with 88% identity of the amino acids among the three species and conservation of a putative lipase motif (GDSWG). Translation of mRNA produced from the rat clone in a wheat germ system resulted in expression of PLA2 activity with properties similar to those of the human enzyme, i.e., acidic pH optimum and Ca2+ independence. The localization of aiPLA2 in rat tissues was studied with the human cDNA probe, polyclonal and monoclonal antibodies, and aiPLA2activity. aiPLA2 is present in the lung as evidenced by high levels of mRNA and protein expression and by enzymatic activity that is inhibited by anti-PLA2 antibody and by the transition state analog 1-hexadecyl-3-trifluoroethylglycero- sn-2-phosphomethanol (MJ33). Immunocytochemistry showed the presence of aiPLA2 in alveolar type II cells, alveolar macrophages, and bronchiolar epithelium. In the brain, heart, liver, kidney, spleen, and intestine, aiPLA2 mRNA content was <50% of that in the lung, immunoreactive protein was not detectable, and enzymatic activity was not inhibited by MJ33 or aiPLA2 antibody. These results show marked enrichment of aiPLA2in the lung compared with the other organs and suggest translational control of aiPLA2 expression.
Numerical modeling of sand liquefaction behavior under cyclic loading

Based on the constant volume cyclic biaxial test in particle flow code(PFC),PFC2D,the behavior of sand liquefaction under cyclic loading is simulated by PFC2D.The major advantage of PFC2D is the evolution regularity of microscopic fabric parameters including co-ordination number,contact normal,normal contact force,shear contact force,can be achieved together with the macroscopic liquefaction response.The micromechanism of sand liquefaction is further discussed.The results of numerical simulation indicate that the sand liquefaction is reflected by the accumulation of excess pore water pressure and progressive decrease in mean effective principal stress in macroscopic response;and on the other hand,corresponds to the cumulative loss of co-ordination number and continuous reduction of contact forces in microscopic fabric.The micromechanical research exposes that the loss of co-ordination is related to the lagging of fabric anisotropy behind stress anisotropy.
Assessing the Effects of Software Platforms on Volumetric Segmentation of Glioblastoma

Background Radiological assessments of biologically relevant regions in glioblastoma have been associated with genotypic characteristics, implying a potential role in personalized medicine. Here, we assess the reproducibility and association with survival of two volumetric segmentation platforms and explore how methodology could impact subsequent interpretation and analysis. Methods Post-contrast T1- and T2-weighted FLAIR MR images of 67 TCGA patients were segmented into five distinct compartments (necrosis, contrast-enhancement, FLAIR, post contrast abnormal, and total abnormal tumor volumes) by two quantitative image segmentation platforms - 3D Slicer and a method based on Velocity AI and FSL. We investigated the internal consistency of each platform by correlation statistics, association with survival, and concordance with consensus neuroradiologist ratings using ordinal logistic regression. Results We found high correlations between the two platforms for FLAIR, post contrast abnormal, and total abnormal tumor volumes (spearman’s r(67) = 0.952, 0.959, and 0.969 respectively). Only modest agreement was observed for necrosis and contrast-enhancement volumes (r(67) = 0.693 and 0.773 respectively), likely arising from differences in manual and automated segmentation methods of these regions by 3D Slicer and Velocity AI/FSL, respectively. Survival analysis based on AUC revealed significant predictive power of both platforms for the following volumes: contrast-enhancement, post contrast abnormal, and total abnormal tumor volumes. Finally, ordinal logistic regression demonstrated correspondence to manual ratings for several features. Conclusion Tumor volume measurements from both volumetric platforms produced highly concordant and reproducible estimates across platforms for general features. As automated or semi-automated volumetric measurements replace manual linear or area measurements, it will become increasingly important to keep in mind that measurement differences between segmentation platforms for more detailed features could influence downstream survival or radio genomic analyses.
Atmospheric carbon dioxide retrieved from the Greenhouse gases Observing SATellite (GOSAT): Comparison with ground‐based TCCON observations and GEOS‐Chem model calculations

We retrieved column-averaged dry air mole fractions of atmospheric carbon dioxide (X_CO_2) from backscattered short-wave infrared (SWIR) sunlight measured by the Japanese Greenhouse gases Observing SATellite (GOSAT). Over two years of X_CO_2 retrieved from GOSAT is compared with X_CO_2 inferred from collocated SWIR measurements by seven ground-based Total Carbon Column Observing Network (TCCON) stations. The average difference between GOSAT and TCCON X_CO_2 for individual TCCON sites ranges from −0.87 ppm to 0.77 ppm with a mean value of 0.1 ppm and standard deviation of 0.56 ppm. We find an average bias between all GOSAT and TCCON X_CO_2 retrievals of −0.20 ppm with a standard deviation of 2.26 ppm and a correlation coefficient of 0.75. One year of XCO2 was retrieved from GOSAT globally, which was compared to global 3-D GEOS-Chem chemistry transport model calculations. We find that the latitudinal gradient, seasonal cycles, and spatial variability of GOSAT and GEOS-Chem agree well in general with a correlation coefficient of 0.61. Regional differences between GEOS-Chem model calculations and GOSAT observations are typically less than 1 ppm except for the Sahara and central Asia where a mean difference between 2 to 3 ppm is observed, indicating regional biases in the GOSAT X_CO_2 retrievals unobserved by the current TCCON network. Using a bias correction scheme based on linear regression these regional biases are significantly reduced, approaching the required accuracy for surface flux inversions.
Life‐History Consequences of Divergent Selection on Egg Size in Drosophila melanogaster

Life histories are generally assumed to evolve via antagonistic pleiotropy (negative genetic correlations) among traits, and trade‐offs between life‐history traits are typically studied using either phenotypic manipulations or selection experiments. We investigated the trade‐off between egg size and fecundity in Drosophila melanogaster by examining both the phenotypic and genetic relationships between these traits after artificial selection for large and small eggs, relative to female body size. Egg size responded strongly to selection in both directions, increasing in the large‐egg selected lines and decreasing in the small‐egg selected lines. Phenotypic correlations between egg size and fecundity in the large‐egg selected lines were negative, but no relationship between these traits occurred in either the control or small‐egg selected lines. There was no negative genetic correlation between egg size and fecundity. Total reproductive allocation decreased in the small‐egg selected lines but did not increase in the large‐egg lines. Our results have three implications. First, our selection procedure may have forced females selected for large eggs into a physiological trade‐off not reflected in a negative genetic correlation between these traits. Second, the lack of a negative genetic correlation between egg size and number suggests that the phenotypic trade‐off frequently observed between egg size and number in other organisms may not evolve over the short term via a direct genetic trade‐off whereby increases in egg size are automatically accompanied by decreased fecundity. Finally, total reproductive allocation may not evolve independently of egg size as commonly assumed.
Sagittal crest formation in great apes and gibbons

The frequency of sagittal crest expression and patterns of sagittal crest growth and development have been documented in hominoids, including some extinct hominin taxa, and the more frequent expression of the sagittal crest in males has been traditionally linked with the need for larger‐bodied individuals to have enough attachment area for the temporalis muscle. In the present study, we investigate sagittal cresting in a dentally mature sample of four hominoid taxa (Pan troglodytes schweinfurthii, Gorilla gorilla gorilla, Pongo pygmaeus pygmaeus and Hylobates lar). We investigate whether sagittal crest size increases with age beyond dental maturity in males and females of G. g. gorilla and Po. pyg. pygmaeus, and whether these taxa show sex differences in the timing of sagittal crest development. We evaluate the hypothesis that the larger sagittal crest of males may not be solely due to the requirement for a larger surface area than the un‐crested cranial vault can provide for the attachment of the temporalis muscle, and present data on sex differences in temporalis muscle attachment area and sagittal crest size relative to cranial size. Gorilla g. gorilla and Po. pyg. pygmaeus males show significant relationships between tooth wear rank and sagittal crest size, and they show sagittal crest size differences between age groups that are not found in females. The sagittal crest emerges in early adulthood in the majority of G. g. gorilla males, whereas the percentage of G. g. gorilla females possessing a sagittal crest increases more gradually. Pongo pyg. pygmaeus males experience a three‐fold increase in the number of specimens exhibiting a sagittal crest in mid‐adulthood, consistent with a secondary growth spurt. Gorilla g. gorilla and Po. pyg. pygmaeus show significant sex differences in the size of the temporalis muscle attachment area, relative to cranial size, with males of both taxa showing positive allometry not shown in females. Gorilla g. gorilla males also show positive allometry for sagittal crest size relative to cranial size. Our results suggest that although patterns of sagittal crest expression have limited utility for taxonomy and phylogeny reconstruction, they could be useful for reconstructing aspects of social behaviour in some extinct hominin taxa. In particular, our results in G. g. gorilla and Po. pyg. pygmaeus, which suggest that the size of sagittal crests in males cannot be solely explained by the surface area required for attachment of the temporalis muscle, offer partial support for the hypothesis that large sagittal crests form in response to sexual selection and may play a role in social signalling.
Pregnancy outcome after false diagnosis of fetal growth restriction

Abstract Objectives: To evaluate pregnancy outcome following false diagnosis of fetal growth restriction (FGR). Methods: Retrospective analysis of all singleton term deliveries of appropriately grown fetuses (10–90th weight percentiles) in a single medical center (2007–2014). Elective cesarean-section, diabetes, and hypertension were excluded. Cohort was stratified based on third trimester sonographic estimated-fetal-weight (≥32 weeks). Women with false diagnosis FGR (<10th percentile) were compared with the rest (control). Induction of labor, cesarean deliveries, and short-term perinatal outcome were compared. Logistic regression analysis was performed to adjust outcome for birth weight and gestational age at delivery. Results: Of 34,474 pregnancies, 415 were falsely diagnosed as FGR (1.2%). Women in study group delivered earlier (38.6 ± 1.1 versus. 39.0 ± 0.9) with lower birth weights (2856 ± 270 versus 3271 ± 307 grams) and increased rate of labor inductions (19.8% versus 6.4%) and cesarean deliveries (10.8% versus 5.7%). Despite appropriate birth weight, study group neonates had higher rates of NICU admissions (10.6% versus 6.8%), mechanical ventilation (1.7% versus 0.5%), transient tachypnea of the newborn (1.7% versus 0.5%), hypoglycemia (1.7% versus 0.5%), and jaundice (11.3% versus 7.0%). p < 0.01 for all. All remained significant after adjustment to confounders. Conclusions: False diagnosis of FGR is associated with higher rates of induction of labor, cesarean deliveries, and short-term adverse neonatal outcome.
Energy provision from glycogen, glucose, and fatty acids on adrenergic stimulation of isolated working rat hearts.

We postulated that glycogen is a significant energy substrate compared with fatty acids and glucose in response to adrenergic stimulation of working rat hearts. Oxidation rates were determined at 1-min intervals by release of3H2O from [9,10-3H]oleate (0.4 mM, 1% albumin) and14CO2from exogenous [U-14C]glucose (5 mM) or, by a pulse-chase method, from [14C]glycogen. We estimated the 14C enrichment of glycogen metabolized at each time point to determine true rates of glycogen use. Based on the pattern of glycogen enrichment over time, glycogenolysis did not exhibit a high degree of preference for newly synthesized glycogen. Epinephrine (1 μM) increased contractile performance 86% but did not stimulate oleate oxidation. The increased energy demand was supplied by carbohydrates, initially by a burst of glycogenolysis (contributing 35% to total ATP synthesis for 5 min) and followed by delayed increase in the use of exogenous glucose (eventually contributing 29% to ATP synthesis). On the basis of the release of14CO2and [14C]lactate specifically from glucose or glycogen, we found that a larger portion of glycogen was oxidized compared with exogenous glucose, augmenting the yield of ATP from glycogen. Thus the heart responds to an acute increase in energy demand by selective oxidation of glycogen.
Progress and Prospects in Gender Visibility at SMBE Annual Meetings

Abstract Reduced visibility of women in science is thought to be one of the causes of their underrepresentation among scientists, in particular at senior positions. Visibility is achieved through publications, and through conference attendance and presentations. Here, we investigated gender differences in visibility at the annual meetings of the Society of Molecular Biology and Evolution. The analysis of meeting programs showed a regular increase in female speakers for the last 16 years. Data on abstract submission suggest that there are no gender-related preferences in the acceptance of contributed presentations at the most recent meetings. However, data collected on-site in 2015 and 2016 show that women asked only ∼25% of the questions, that is, much less than expected given the female attendance. Understanding the reasons for this pattern is necessary for the development of policies that aim to reduce imbalance in visibility.
Ammonia Emissions from U.S. Laying Hen Houses in Iowa and Pennsylvania

Ammonia (NH3) emission rates (ER) of ten commercial layer houses (six high-rise or HR houses and four manure- belt or MB houses) with different manure handling or dietary schemes were monitored for one year in Iowa (IA) and Pennsylvania (PA). Gaseous (NH3 and CO2) concentrations of incoming and exhaust air streams were measured using custom-designed portable monitoring units that shared similar performance to EPA-approved measurement apparatus. Building ventilation rates were determined by calibrated CO2 mass balance using the latest metabolic rate data for modern laying hens. The field monitoring involved a total of 386 and 164 house-day measurements or 18,528 and 7,872 30-min emission data points for the HR houses and the MB houses, respectively. The ER showed considerable diurnal and seasonal variations. The annual mean ERs (g NH3 hen-1 d-1) and standard errors were 0.90 ±0.027 for IA-HR houses with standard diet, 0.81 ±0.02 for IA-HR houses with a nutritionally balanced 1% lower crude protein diet, 0.83 ±0.070 for PA-HR houses with standard diet, 0.054 ±0.0035 for IA-MB houses with daily manure removal, and 0.094 ±0.006 for PA-MB houses with twice a week manure removal. Mass balance of nitrogen (N) intake and output performed for IA-HR houses revealed a total N intake recovery of 94% to 101%, further verifying the certainty of the NH3 ER measurements. Results of the study contribute to the U.S. national inventory on NH3 emissions from animal feeding operations, particularly laying hen facilities as affected by housing type, manure handling scheme, crude protein content of the diet, and geographical location.
The role of human host genetics in tuberculosis resistance

ABSTRACT Introduction: Tuberculosis (TB) remains a public health problem: the latest estimate of new incident cases per year is a staggering 10.4 million. Despite this overwhelming number, the majority of the immunocompetent population can control infection with Mycobacterium tuberculosis. The human genome underlies the immune response and contributes to the outcome of TB infection. Areas covered: Investigations of TB resistance in the general population have closely mirrored those of other infectious diseases and initially involved epidemiological observations. Linkage and association studies, including studies of VDR, SLC11A1 and HLA-DRB1 followed. Genome-wide association studies of common variants, not necessarily sufficient for disease, became possible after technological advancements. Other approaches involved the identification of those individuals with rare disease-causing mutations that strongly predispose to TB, epistasis and the role of ethnicity in disease. Despite these efforts, infection outcome, on an individual basis, cannot yet be predicted. Expert commentary: The early identification of future disease progressors is necessary to stem the TB epidemic. Human genetics may contribute to this endeavour and could in future suggest pathways to target for disease prevention. This will however require concerted efforts to establish large, well-phenotyped cohorts from different ethnicities, improved genomic resources and a better understanding of the human genome architecture.
Mixed Reality Experience - How to Use a Virtual (TV) Studio for Demonstration of Virtual Reality Applications

The article discusses the question of “How to convey the experience in a virtual environment to third parties? ” and explains the different technical implementations which can be used for live streaming and recording of a mixed reality experience. The real-world applications of our approach include education, entertainment, e- sports, tutorials, and cinematic trailers, which can benefit from our research by finding a suitable solution for their needs. We explain and outline our Mixed Reality systems as well as discuss the experience of recorded demonstrations of different VR applications, including the need for calibrated camera lens parameters based on realtime encoder values.