Miracle-dz/UniFAR-FTUs huggingface dataset:
Epidémiologie moléculaire et évolution de l'entérovirus A71 et interactions génétiques avec les autres entérovirus de l'espèce A responsables de la maladie pied-main-bouche.

La maladie pied-main-bouche (PMB) et l’herpangine sont deux maladies pediatriques benignes causees par les enterovirus (EV), en particulier les serotypes de l’espece A (EV-A). Le serotype EV-A71 fait l’objet d’une surveillance dans les pays du Sud Est de l’Asie car il est associe a des atteintes neurologiques severes chez les tres jeunes enfants, parfois mortelles (defaillance cardio-pulmonaire). Les infections causees par les autres EV-A tel que le coxsackievirus A16 (CV-A16) provoquent rarement des atteintes severes. En Europe, les cas de maladie PMB causes par l’EV-A71 ne font pas l’objet d’une declaration obligatoire, car ce virus ne cause pas d’epidemies de grande ampleur. L’objectif general de la these etait d’etudier l’epidemiologie des EV-A en Europe et nous avons utilise une approche phylogenetique bayesienne pour analyser un echantillon de 500 souches. Nous montrons la circulation discontinue de l’EV-A71 de deux populations virales principales (sous genogroupes C1 et C2), ce qui explique la rarete des epidemies en Europe. L’epidemiologie de ce virus est aussi caracterisee par des transports de souches entre les pays Europeens et sporadiquement entre l’Europe et l’Asie (sous genogroupes B5 et C4). La recombinaison genetique intertypique survient rarement parmi les populations d’EV-A71 en circulation et ne contribue pas significativement a leur diversite genetique. Cependant, ce mecanisme genetique est relie a l’emergence d’un sous genogroupe CV-A16 qui circule en France depuis 2011. Compares a l’EV-A71, les serotypes CV-A2, CV-A4, CV-A6 sont plus frequemment sujets a des evenements de recombinaison intertypiques. L’analyse de la selection a l’echelle moleculaire indique que la fixation des mutations dans les proteines de capside de l’EV-A71 est lente, probablement a cause des contraintes structurales et fonctionnelles. La surveillance des infections a EV-A71 en Europe devrait etre renforcee a cause de la neurovirulence de ce virus, de l’introduction recente et repetee de souches variantes « asiatiques » et de l’existence d’une grande diversite de genogroupes en Afrique et en Inde encore peu exploree.
Adaptive unscented Kaiman filter with a fuzzy supervisor for electrified drive train tractors

Electrified drive trains for tractors are supposed to realize great potential of raising performance in heavy operations via optimal traction control. The paper proposes to apply an adaptive unscented Kaiman filter (UKF) with a fuzzy supervisor for identification of electrical drive train tractor dynamics. The key advantage of electrical drive trains lies in feedback of drive torque which plays crucial role in traction parameter estimation. It is known that without using special adaptation techniques, an UKF may cause some divergence problems and lowered precision of estimation as well as its predecessor, an extended Kaiman filter (EKF). A method based on a fuzzy logic supervisor in addition to adaptation of an UKF is proposed to maintain trade-off between tracking strength and estimation accuracy. Simulation results with a comprehensive tractor dynamics model showed increase in estimation precision of traction parameters. Laboratory experiments using a test stand with an electrical load machine showed appropriate estimation of the load torque.
A Critical Reappraisal of the Dynamical Approach to Cognition

Approaches to cognitive science have been socially divided into dynamical and computational camps. We break down the dynamical approach into finer components, suggesting a new taxonomy of dynamical approaches to cognition and questioning the logical unity of the dynamical school. We dispel some confusions surrounding the concepts of dynamical systems, computation, and the relation between the two. We introduce and argue for the notion of "cognition as it could be" and show its value in analysing the dynamicists' account of time
A Componentwise Convex Splitting Scheme for Diffuse Interface Models with Van der Waals and Peng-Robinson Equations of State

This paper presents a componentwise convex splitting scheme for numerical simulation of multicomponent two-phase fluid mixtures in a closed system at constant temperature, which is modeled by a diffuse interface model equipped with the Van der Waals and the Peng--Robinson equations of state (EoS). The Van der Waals EoS has a rigorous foundation in physics, while the Peng--Robinson EoS is more accurate for hydrocarbon mixtures. First, the phase field theory of thermodynamics and variational calculus are applied to a functional minimization problem of the total Helmholtz free energy. Mass conservation constraints are enforced through Lagrange multipliers. A system of chemical equilibrium equations is obtained which is a set of second-order elliptic equations with extremely strong nonlinear source terms. The steady state equations are transformed into a transient system as a numerical strategy on which the scheme is based. The proposed numerical algorithm avoids the indefiniteness of the Hessian matrix arisi.
Analytical Recovery of [ 14 C ] Urea Radioactivity after Precipitation with Ba ( OH ) 2 / ZnSO

We describe a Coupled-enzyme equilibrium method for measuring urea in serum, which is performed on supernates prepared by treating each specimen with Ba(OH)2 and ZnSO4 (Somogyi reagent). Analytical recovery of [14C] urea added to a variety of matrices was essentially complete (mean, 100.6%) for the supernates after precipitation. Nine variables were univariately examined in arriving at the reaction conditions for the method: glutamate dehydrogenase, urease, 2-oxoglutarate, ADP, Tris. HCI, NADH, EDTA, pH, and temperature. The reagent is stable for at least 48 days at -20 #{176}C and for 23 days at 4 #{176}C. Mean analytical recovery of urea (14 mmol/L) added to seven different specimens (three different matrices) was 100.8%. The analytical linear range of the method extends to 30 mmol of urea per liter. Of 22 potential interferents, only bilirubin at 1 mmol/L (580 mg/L), hemoglobin at 10 gIL, and hydroxyurea at 6 mmol/L showed more than 2% interference. We discuss precision and effects of specimen dilution, and compare results for 100 human serum specimens with those measured for the same specimens with four other urea methods. We examined the effects of measuring a blank, consisting of sample and reagent without urease, with each specimen.
POMap: An Effective Pairwise Ontology Matching System

The identification of alignments between heterogeneous ontologies is one of the main research issues in the semantic web. The manual matching of the ontologies is a complex, time consuming and an error prone task. Therefore, ontology matching systems aims to automate this process. Usually, these systems perform the matching process by combining element and structural level matchers. Selecting the optimal string similarity measure associated with its threshold is an important issue in order to enhance the effectiveness of the element level matcher, which in turn will improve the whole ontology system results. In this paper, we present POMap, an ontology matching system based on a syntactic study covering element and structural levels. For the element level matcher we have adopted the best configuration based on the analysis of the performances of many string similarity measures associated with their thresholds. For the structural level, we have performed a syntactic study on both subclasses and siblings in order to infer the structural similarity. Our proposed matching system is validated and evaluated on the Anatomy, the Conference and the Large Biomedical tracks provided by the benchmark of OAEI 2016 ontology matching campaign.
Use of Laboratory Assays To Predict Cytomegalovirus Disease in Renal Transplant Recipients

ABSTRACT Eight laboratory assays, viz., the pp65 direct antigenemia test, a quantitative cytomegalovirus (CMV)-specific immunoglobulin G (IgG) assay (Biomerieux VIDAS), a CMV-specific IgM assay (Biomerieux VIDAS), the Hybrid Capture system (Murex), an in-house PCR with plasma (P-PCR) and leukocytes (L-PCR), and a commercial PCR (Roche AMPLICOR) with plasma (P-AMP) and leukocytes (L-AMP), were compared for their abilities to predict CMV disease before the onset of illness in a prospective study of 37 renal transplant recipients. By using an expanded criterion for active infection (two or more of the markers positive) and a clinical definition of disease, 22 (59%) patients were identified as having active CMV infection and 13 (35%) were identified as having CMV disease. Of the 13 CMV-seronegative recipients who received seropositive kidneys (R− group), 8 had active infection and disease. All assays were 100% specific and 100% predictive of CMV disease in the R− group. The leukocyte PCRs (L-PCR and L-AMP) were the most sensitive assays, had positive results an average of between 8 and 13 days before the onset of illness, and were the assays of choice. The performance of the assays was less satisfactory for the 24 patients who were CMV seropositive before transplantation (R+ group). A negative result was more useful for this group. Overall, P-AMP had the best results, and it could be the assay of choice for monitoring R+ patients. The non-PCR-based methods generally had high specificities but often gave late positive results and were not sensitive enough for use as prediction tools for either group of patients.
Real-Time Hardware-in-the-Loop Simulation of Permanent-Magnet Synchronous Motor Drives Under Stator Faults

Hardware-in-the-loop (HIL) testing methods can facilitate the development of control strategies in a safe and inexpensive environment particularly when extreme operating conditions such as faults are considered. HIL methods rely on accurate real-time emulation of the equipment under investigation. However, no validated tools for real-time emulation of electrical drives under fault conditions are available. This paper describes the implementation of a high-fidelity real-time emulator of a permanent-magnet synchronous motor drive in a platform suitable for HIL tests. The emulator is capable of representing the drive operation under both healthy conditions and during interturn stator winding faults. Nonlinearities due to saturation, higher order harmonics, slotting effects, etc., are accounted for using four-dimensional look-up tables (LUTs) obtained by finite element analysis. The proposed model is computationally efficient and capable of running in real time in a field programmable gate array platform and is validated against simulations and experimental results in a wide range of operating conditions. Potential applications of the proposed emulation environment to the development of drive control, fault detection, and diagnostic algorithms are proposed.
RECURRENT NEURAL CONTROL FOR ROBOT TRAJECTORY TRACKING

This paper extends the results previously obtained for trajectory tracking of unknown plants using recurrent neural networks. The proposed controller structure is composed of a neural identifier and a control law defined by using the inverse optimal control approach, which has been improved so that less inputs than states are needed. The proposed new control scheme is applied to the control a robotic manipulator model.
The effects of zero-balance ultrafiltration on postoperative recovery after cardiopulmonary bypass: a meta-analysis of randomized controlled trials

Objective: Considered as a significant ultrafiltration technology during cardiopulmonary bypass (CPB), zero-balance ultrafiltration (Z-BUF) has always received controversial support regarding its effectiveness in reducing inflammatory mediators in plasma. Therefore, we conducted a meta-analysis to evaluate the clinical effect of Z-BUF through screening all relevant published randomized controlled trials (RCTs). Methods: A comprehensive search was conducted to screen all RCTs of Z-BUF. Three trained investigators searched databases, including PubMed, Embase, the Cochrane Library, Google scholar, and Chinese literature databases (CNKI, WanFang, WeiPu). RCTs that compared Z-BUF with non-ultrafiltration were included. We focused on clinical outcomes such as length of stay in ICU, duration of ventilation, hospital stay, total amount of chest tube drainage and mortality. Finally, a total of 7 studies containing appropriate criteria were divided into an adult group and a pediatric group. A random effects model was used to calculate weighted mean difference with 95% confidence intervals. Results: In the adult group, the benefits of Z-BUF in duration of ventilation (WMD=-2.77, 95% CI = [-6.26, 0.72], I2=71%, p=0.12) and the length of ICU stay (WMD=-4.13, 95% CI = [-10.09, 1.84], I2=77%, Z=1.36, p=0.17) were not apparent, with significant heterogeneity existing in the statistical results. The rest of the clinical parameters could not be evaluated due to insufficient data. In the pediatric group, combined analysis showed Z-BUF could reduce the duration of mechanical ventilation (WMD=3.07; 95%CI= [-7.56, -3.46], I2=17%, p=0.27). The advantage of Z-BUF was not observed in other clinical outcomes. Conclusion: The benefits of Z-BUF were not apparent, according to the report. Further studies involving combined ultrafiltration are expected to provide improved ultrafiltration during CPB.
Recombinants Between Bacteriophages T7 and T3 Which Productively Infect F-Plasmid-Containing Strains of Escherichia coli

Recombinant phages between T7 and T3 have been isolated that grow well on strains of Escherichia coli that contain the F factor. One phage that has been characterized physically and genetically is predominately of the T7 genotype. Within this hybrid phage, two separate regions of T3 DNA have been located which are necessary for the phenotype of productive growth on F-containing strains. One of these, designated M1, contains the right part of gene 1 and continues through gene 1.3; the second, M2, appears to lie between gene 3 and gene 4.
High-fidelity protein targeting into membrane lipid microdomains in living cells.

Lipid analogues carrying three nitrilotriacetic acid (tris-NTA) head groups were developed for the selective targeting of His-tagged proteins into liquid ordered (lo ) or liquid disordered (ld ) lipid phases. Strong partitioning into the lo phase of His-tagged proteins bound to tris-NTA conjugated to saturated alkyl chains (tris-NTA DODA) was achieved, while tris-NTA conjugated to an unsaturated alkyl chain (tris-NTA SOA) predominantly resided in the ld phase. Interestingly, His-tag-mediated lipid crosslinking turned out to be required for efficient targeting into the lo phase by tris-NTA DODA. Robust partitioning into lo phases was confirmed by using viral lipid mixtures and giant plasma membrane vesicles. Moreover, efficient protein targeting into lo and ld domains within the plasma membrane of living cells was demonstrated by single-molecule tracking, thus establishing a highly generic approach for exploring lipid microdomains in situ.
New Biflavonoids with α-Glucosidase and Pancreatic Lipase Inhibitory Activities from Boesenbergia rotunda

Roots of Boesenbergia rotunda (L.) Mansf. are prominent ingredients in the cuisine of several Asian countries, including Thailand, Malaysia, Indonesia, India, and China. An extract prepared from the roots of this plant showed strong inhibitory activity against enzymes α-glucosidase and pancreatic lipase and was subjected to chromatographic separation to identify the active components. Three new biflavonoids of the flavanone-chalcone type (9, 12, and 13) were isolated, along with 12 known compounds. Among the 15 isolates, the three new compounds showed stronger inhibitory activity against α-glucosidase than the drug acarbose but displayed lower pancreatic lipase inhibitory effect than the drug orlistat. The results indicated the potential of B. rotunda roots as a functional food for controlling after-meal blood glucose levels.
TiO2 Photocatalysis Causes DNA Damage via Fenton Reaction-Generated Hydroxyl Radicals during the Recovery Period

ABSTRACT Here, we show that resistance of Escherichia coli to TiO2 photocatalysis involves defenses against reactive oxygen species. Results support the idea that TiO2 photocatalysis generates damage which later becomes deleterious during recovery. We found this to be partly due to DNA attack via hydroxyl radicals generated by the Fenton reaction during recovery.
A direct array injection technique in a fine-grain multithreading execution model

We propose on optimized array handling scheme called the direct array injection technique (DAIT) which can be used in conjunction with I-Structures to provide non-strict and parallel array accesses in a fine/medium grain multithreaded computing environment. By overlapping array production and consumption, better processor utilization can be achieved resulting in higher performance. The direct array injection technique differs from the I-Structure approach in that array elements are forwarded directly from the producer activation to the consumer activation without being buffered in a structure store. The advantages of this technique over I-Structures are: network traffic is reduced; and dynamic memory allocation from the global heap space to store arrays is avoided. <<ETX>>
Submitting a Systematic Review

Evidence-based pediatric physical and occupational therapy practice involves finding, appraising, sharing, and applying research. Keeping abreast of research is a challenge for busy practitioners, especially in light of the increasing number of studies being published each year. The mission of Physical & Occupational Therapy in Pediatrics is to provide pediatric therapists the latest clinical research, knowledge, and practical applications. The systematic review is a means of providing readers with evidence in a format that is accessible and manageable. This editorial informs readers about the systematic review and provides guidelines for preparation and submission of a systematic review to Physical & Occupational Therapy in Pediatrics.
PoKiTT: Exposing Task and Data Parallelism on Heterogeneous Architectures for Detailed Chemical Kinetics, Transport, and Thermodynamics Calculations

Simulating combustion provides detailed insights into the interplay between fluid flow, molecular diffusion, and chemical reactions. However, the breadth of state of the art simulations is restricted by both hardware capacity and software capability. In this paper we introduce PoKiTT, a library of detailed thermochemical calculations which runs on heterogeneous and parallel architectures including CPUs, GPUs, and Xeon Phi coprocessors. PoKiTT leverages both data parallelism, by using large computational domains, and task parallelism, by using directed acyclic graphs for scheduling. When compared against Cantera, PoKiTT's executions are up to $4\times$ faster while using one CPU core. Running PoKiTT on 16 CPU cores improves execution speeds by up to $13\times$, and running on a GPU improves speeds by up to $40\times$. PoKiTT reduces the execution time, relative to one CPU core, for an illustrative simulation of methanol combustion by $9\times$ using 16 CPU cores and $25\times$ using a GPU.
Understanding timeliness and quality of financial reporting in a Finnish public company

The objective of this study is to understand the reporting practices of the case company in terms of timeliness and quality. The study aims to explain and describe the factors behind the reporting behavior, both motivational factors and those affecting the quality and reporting lag. In addition, it aims to observe and analyze the case company’s perceptions of reporting lag and quality of financial information. This study does not particularly aim to look for a generalization to a wider array of companies but the goal is to understand and interpret the phenomenon in this specific case company, eventually offering us a better comprehension of its reporting practices. The empirical part of the study is conducted in a case company by doing a qualitative research. The qualitative research was executed as interviewees. The case company was chosen based on the fact that it has gone through major changes in its reporting environment recently and these changes have concerned especially the fastening of financial reporting and improvements of quality. This offers a great basis for analyzing the reporting behavior. The main outcomes of this study present that the size and multinationality affect the reporting lag as well as taxation and other internal determinants stated in the study. The board and CFO’s role can be seen as important factor contributing to faster reporting and the employees also affect this practice by executing the changes. On the motivational side, company image is a major reason for faster reporting in the case company. In addition, the welfare of employees and management capability are important motivators behind case company’s reporting behavior. Lastly, the good quality of financial reporting indicates better transparency and best practice behavior which ultimately improves the company image.
Distance field manipulation of surface models

A surface manipulation technique that uses distance fields-scalar fields derived geometrically from surface models-to combine, modify, and analyze surfaces is presented. It is intended for application to complex models arising in scientific visualization. Computing distance from single triangles is discussed, and an optimized algorithm for computing the distance field from an entire closed surface is built. The use of the fields for surface removal, interpolation and blending is examined. The strength of the approach is that it lets simple 3D algorithms substitute for potentially very complex 2D methods. <<ETX>>
Neural correlates of formal thought disorder: An activation likelihood estimation meta‐analysis

Formal thought disorder (FTD) refers to a psychopathological dimension characterized by disorganized and incoherent speech. Whether symptoms of FTD arise from aberrant processing in language‐related regions or more general cognitive networks, however, remains debated. Here, we addressed this question by a quantitative meta‐analysis of published functional neuroimaging studies on FTD. The revised Activation Likelihood Estimation (ALE) algorithm was used to test for convergent aberrant activation changes in 18 studies (30 experiments) investigating FTD, of which 17 studies comprised schizophrenia patients and one study healthy subjects administered to S‐ketamine. Additionally, we analyzed task‐dependent and task‐independent (resting‐state) functional connectivity (FC) of brain regions showing convergence in activation changes. Subsequent functional characterization was performed for the initial clusters and the delineated connectivity networks by reference to the BrainMap database. Consistent activation changes were found in the left superior temporal gyrus (STG) and two regions within the left posterior middle temporal gyrus (p‐MTG), ventrally (vp‐MTG) and dorsally (dp‐MTG). Functional characterization revealed a prominent functional association of ensuing clusters from our ALE meta‐analysis with language and speech processing, as well as auditory perception in STG and with social cognition in dp‐MTG. FC analysis identified task‐dependent and task‐independent networks for all three seed regions, which were mainly related to language and speech processing, but showed additional involvement in higher order cognitive functions. Our findings suggest that FTD is mainly characterized by abnormal activation in brain regions of the left hemisphere that are associated with language and speech processing, but also extend to higher order cognitive functions. Hum Brain Mapp 38:4946–4965, 2017. © 2017 Wiley Periodicals, Inc.