Miracle-dz/UniFAR-FTUs huggingface dataset:
Endoscopic management of polyposis syndromes: European Society of Gastrointestinal Endoscopy (ESGE) Guideline

Main Recommendations ESGE recommends that individuals with hereditary gastrointestinal polyposis syndromes should be surveilled in dedicated units that provide monitoring of compliance and endoscopic performance measures. Strong recommendation, moderate quality of evidence, level of agreement 90 %. ESGE recommends performing esophagogastroduodenoscopy, small-bowel examination, and/or colonoscopy earlier than the planned surveillance procedure if a patient is symptomatic. Strong recommendation, low quality of evidence, level of agreement 100 %.
Leptospirosis, one neglected disease in rural Senegal

Abstract A serological study was carried out in two Senegalese villages located in the Sine‐Saloum region in order to estimate the presence of anti‐leptospiral antibodies in humans and animals, and to identify the predominant serogroups. Seven hundred and forty‐nine serum samples were collected from humans (n = 545), dogs (n = 33), donkeys (n = 20), goats (n = 52), sheep (n = 43) and N’Dama cattle (n = 56), all originated from Dielmo and Ndiop villages. All samples were tested for different serovars of pathogenic Leptospira species by the microscopic agglutination test. Considering titres ≥ 1:100, 7.7% [CI 95:5.5 to 9.9] on the 545 human blood samples tested and 42.2% [CI95:35.4 to 48.9] on the 204 animal blood samples tested were found to be positive to one or more serovars. The results obtained indicate that the Australis serogroup is the most prevalent serogroup in human (67.3%) and cattle (27.3%). Serogroup Icterohaemorhagiae is the most frequent serogroup in goat (55.6%) and donkey (37.5%). Canicola (23.4%), Icterohaemorhagiae (21.1%) and Australis (12.5%) serogroups are the most prevalent serogroups in dogs. This study shows that diverse Leptospira serovars occur in a wide range of wild and domestic mammal species, as well as in humans in Senegal. However, further studies are needed to better understand the complexity of Leptospira epidemiology in Africa, identify the reservoirs of different serogroups and estimate its impact on livestock. Understanding the multi‐host epidemiology of leptospirosis is essential to control and prevent the disease.
A Study of an In-memory Database System for Real-time Analytics on Semi-structured Data Streams

A study of an in-memory database system for real-time analytics on semi-structured data streams Alan Wen Jun Lu Master of Applied Science Graduate Department of Department of Electrical and Computer Engineering University of Toronto 2015 Recently there have been increasing demands for real-time analytics on rapidly changing data and for databases to effectively support mixed OLTP and OLAP workloads. Inmemory databases provide a promising paradigm for these applications. However, due to the rapid emergence of various types of semi-structured data, one key challenge for in-memory databases is the data layout. In this dissertation, we developed an in-memory database system that dynamically partitions its tables vertically based on workload characteristics to achieve fast querying speed on semi-structured data. We produced a set of guidelines on vertical partitioning in-memory data in different situations and showed that our approach can outperform traditional columnar and row-based storage methods, as well as an alternative data structure, ARGO, that was recently developed to enable JSON storage in relational databases. We also showed that our system has advantages over a system with similar idea, called Hyrise, in partitioning adaptability.
Availability of Extended-Release Naltrexone May Increase the Number of Opioid-Dependent Individuals in Treatment: Extension of a Randomized Clinical Trial

Background and objective: Opioid maintenance treatment (OMT) is highly available in Norway, but only 50% of opioid-dependent individuals are enrolled in such programs. This study was aimed at examining if availability of extended-release naltrexone (XR-NTX) could attract individuals who for different reasons were not enrolled in an OMT program. Methods: In a Norwegian clinical study, n = 117 opioid-dependent adults volunteered to receive XR-NTX in a 9-month period, as an extension of a previous randomized clinical trial. Results: Before study inclusion, 40.2% (n = 47) of the study participants were not enrolled in OMT while the remainder were recruited from OMT. Participants not enrolled in OMT displayed more ongoing severe addiction-related problems such as heroin use (p = 0.002), but displayed a higher retention in treatment in the 9-month extension study (p = 0.048 for log-rank test) than participants enrolled in OMT. Conclusion: Availability of XR-NTX attracted opioid-dependent individuals not previously enrolled in OMT. While OMT may be perceived as a burden with regard to daily intake and control measures, one-monthly injections with XR-NTX may be perceived favourable, offering more freedom to the patients, not having addictive properties, and potentially reducing heroin craving. We suggest that an introduction of XR-NTX in Europe may increase the number of opioid-dependent individuals in treatment.
Microbial Fuel Cell-Based Biosensors

The microbial fuel cell (MFC) is a promising environmental biotechnology that has been proposed mainly for power production and wastewater treatment. Though small power output constrains its application for directly operating most electrical devices, great progress in its chemical, electrochemical, and microbiological aspects has expanded the applications of MFCs into other areas such as the generation of chemicals (e.g., formate or methane), bioremediation of contaminated soils, water desalination, and biosensors. In recent decades, MFC-based biosensors have drawn increasing attention because of their simplicity and sustainability, with applications ranging from the monitoring of water quality (e.g., biochemical oxygen demand (BOD), toxicants) to the detection of air quality (e.g., carbon monoxide, formaldehyde). In this review, we summarize the status quo of MFC-based biosensors, putting emphasis on BOD and toxicity detection. Furthermore, this review covers other applications of MFC-based biosensors, such as DO and microbial activity. Further, challenges and prospects of MFC-based biosensors are briefly discussed.
Updated taxonomy of LactifluussectionLuteoli: L.russulisporus from Australia and L.caliendrifer from Thailand

Abstract Lactifluusrussulisporus Dierickx & De Crop and Lactifluuscaliendrifer Froyen & De Crop are described from eucalypt forests in Queensland, Australia and different forest types in Thailand, respectively. Both species have recently been published on Index Fungorum and fit morphologically and molecularly in L.sect. Luteoli, a section within L.subg. Gymnocarpi that encompasses species with alboochraceous basidiomes, white latex that stains brown and typical capitate elements in the pileipellis and/or marginal cells.
An effective biomedical data migration tool from resource description framework to JSON

Abstract Resource Description Framework (RDF) is widely used for representing biomedical data in practical applications. With the increases of RDF-based applications, there is an emerging requirement of novel architectures to provide effective supports for the future RDF data explosion. Inspired by the success of the new designs in National Center for Biotechnology Information dbSNP (The Single Nucleotide Polymorphism Database) for managing the increasing data volumes using JSON (JavaScript Object Notation), in this paper we present an effective mapping tool that allows data migrations from RDF to JSON for supporting future massive data explosions and releases. We firstly introduce a set of mapping rules, which transform an RDF format into the JSON format, and then present the corresponding transformation algorithm. On this basis, we develop an effective and user-friendly tool called RDF2JSON, which enables automating the process of RDF data extractions and the corresponding JSON data generations.
Wayfinding in a virtual environment and Down syndrome: The impact of navigational aids.

OBJECTIVE Individuals with intellectual disabilities (ID), such as those with Down syndrome (DS), sometimes get lost, even when walking familiar routes. Among the spatial cognition models addressing the dynamic construction of spatial representations, the theoretical framework of Siegel and White (1975) remains a reference. The aim of this work is to use virtual reality technology to (a) elucidate the spatial deficits associated with ID in reference to the Siegel and White framework and (b) to evaluate the effectiveness of 3 wayfinding assistive procedures (signified landmarks, arrows, and elevated views). METHOD We have developed a virtual environment that represents a replica of the district near Bordeaux hospital, by using Virtools software. The subject is instructed to learn a path and reproduce it by using a joystick. Four experimental learning conditions were compared. The participant observed the path either from ground level without support ("control" condition), or with direction support ("arrows" condition), or with landmark support ("signified landmarks" conditions) or from a height of 4 m in the "elevated view" condition. RESULTS The results revealed that DS participants achieved significantly lower scores than typically developing children for the wayfinding, route level, and configurational level tasks. The performance of DS participants was enhanced only in the signified landmarks condition (condition in which the landmark had a bright color). CONCLUSION Such results may be particularly fruitful to define appropriate digital aids to support people with DS to travel more independently in unfamiliar environments. (PsycINFO Database Record (c) 2019 APA, all rights reserved).
Molecular determinants of the intrinsic efficacy of the antipsychotic aripiprazole.

Partial agonists of the dopamine D2 receptor (D2R) have been developed to treat the symptoms of schizophrenia without causing the side effects elicited by antagonists. The receptor-ligand interactions that determine the intrinsic efficacy of such drugs, however, are poorly understood. Aripiprazole has an extended structure comprising a phenylpiperazine primary pharmacophore and a 1,2,3,4-tetrahydroquinolin-2-one secondary pharmacophore. We combined site-directed mutagenesis, analytical pharmacology, ligand fragments and molecular dynamics simulations to identify the D2R-aripiprazole interactions that contribute to affinity and efficacy. We reveal that an interaction between the secondary pharmacophore of aripiprazole and a secondary binding pocket defined by residues at the extracellular portions of transmembrane segments 1, 2 and 7 determine the intrinsic efficacy of aripiprazole. Our findings reveal a hitherto unappreciated mechanism through which to fine-tune the intrinsic efficacy of D2R agonists.
A Novel Flexure Parallel Micromanipulator Based on Multi-Level Displacement Amplifier

The conventional flexure parallel micromanipulators (FPM) usually suffer from small stroke. The performances of a FPM are highly related with the stroke of each actuated limb and the constraints including the non-actuated limbs. To conquer the drawbacks of the small workspace of the conventional FPM, the mechanism for displacement amplification would make a great contribution when it is imported into the design of the actuated limbs. This research is focused on a unique FPM based on multi-level displacement amplifier. Firstly, the structure modeling based on compact modular design is introduced. The macro/micro analysis of the displacement amplifier is conducted. Then, the comprehensive finite-element modeling including the strain and total deformation are implemented to examine the actual mechanical behavior of the proposed mechanism. The developed method and technology provide a promising solution to enhance the performance of the generic FPMs. Keywords-Flexure parallel micromanipulator; multi-level displacement amplifier; finite-element analysis; symmetrical topology structure
A Comparison of Performance Validity Measures in Predicting MMPI-2 Lie Scale Results

Abstract Objective: This study examined the relationship between tests of performance validity (PVT) and symptom validity (SVT) among claimants undergoing independent neuropsychological evaluations. Previous research comparing PVTs with SVTs has examined symptom validity with respect to overreporting impairment, whereas the current study focused on how PVTs predict underreporting of psychological symptoms and minimization of negative personality characteristics. Method: The sample included 99 claimants presenting with psychological and cognitive complaints who were assessed in a private practice setting. Participants were administered several SVTs (MMPI-2 Lie Scale (L), Superlative Self Presentation Scale (S), Correction Scale (K)) and PVTs, including Reliable Digit Span (RDS), California Verbal Learning Test forced choice recognition, the Victoria Symptom Validity Test (VSVT), and the Test of Memory Malingering (TOMM). Results: Analyses revealed moderate yet significant (p<.001) negative correlations between the L Scale and PVTs with exception of the VSVT. These relationships were substantiated by moderate to large effect sizes (d = 0.56–0.81) when comparing L Scale scores in above and below PVT cutoff conditions. Significant relationships between PVTs and the K and S Scales were not observed. Exploratory analyses revealed that PVT/L Scale relationships were not significantly moderated by presenting concern. Conclusions: Claimants exhibiting invalid PVT performance were more likely to endorse virtuous personality characteristics on the L Scale, supporting the idea that PVT and SVT constructs are interrelated, particularly in the domain of underreporting moral flaws.
The early-acting glycosome biogenic protein Pex3 is essential for trypanosome viability

This study reports the identification of trypanosome Pex3, the master regulator of glycosome biogenesis. Trypanosome Pex3 is essential for glycosome assembly and trypanosome viability and is distinct from human Pex3. Trypanosomatid parasites are infectious agents for diseases such as African sleeping sickness, Chagas disease, and leishmaniasis that threaten millions of people, mostly in the emerging world. Trypanosomes compartmentalize glycolytic enzymes to an organelle called the glycosome, a specialized peroxisome. Functionally intact glycosomes are essential for trypanosomatid viability, making glycosomal proteins as potential drug targets against trypanosomatid diseases. Peroxins (Pex), of which Pex3 is the master regulator, control glycosome biogenesis. Although Pex3 has been found throughout the eukaryota, its identity has remained stubbornly elusive in trypanosomes. We used bioinformatics predictive of protein secondary structure to identify trypanosomal Pex3. Microscopic and biochemical analyses showed trypanosomal Pex3 to be glycosomal. Interaction of Pex3 with the peroxisomal membrane protein receptor Pex19 observed for other eukaryotes is replicated by trypanosomal Pex3 and Pex19. Depletion of Pex3 leads to mislocalization of glycosomal proteins to the cytosol, reduced glycosome numbers, and trypanosomatid death. Our findings are consistent with Pex3 being an essential gene in trypanosomes.
The Role of ALD-ZnO Seed Layers in the Growth of ZnO Nanorods for Hydrogen Sensing

Hydrogen is one of the most important clean energy sources of the future. Because of its flammability, explosiveness, and flammability, it is important to develop a highly sensitive hydrogen sensor. Among many gas sensing materials, zinc oxide has excellent sensing properties and is therefore attracting attention. Effectively reducing the resistance of sensing materials and increasing the surface area of materials is an important issue to increase the sensitivity of gas sensing. Zinc oxide seed layers were prepared by atomic layer deposition (ALD) to facilitate the subsequent hydrothermal growth of ZnO nanorods. The nanorods are used as highly sensitive materials for sensing hydrogen due to their inherent properties as oxide semiconductors and their very high surface areas. The low resistance value of ALD-ZnO helps to transport electrons when sensing hydrogen gas and improves the sensitivity of hydrogen sensors. The large surface area of ZnO nanorods also provides lots of sites of gas adsorption which also increases the sensitivity of the hydrogen sensor. Our experimental results show that perfect crystallinity helped to reduce the electrical resistance of ALD-ZnO films. High areal nucleation density and sufficient inter-rod space were determining factors for efficient hydrogen sensing. The sensitivity increased with increasing hydrogen temperature, from 1.03 at 225 °C, to 1.32 at 380 °C after sensing 100 s in 10,000 ppm of hydrogen. We discuss in detail the properties of electrical conductivity, point defects, and crystal quality of ALD-ZnO films and their probable effects on the sensitivity of hydrogen sensing.
Kidney involvement in yellow fever: a review

ABSTRACT Yellow fever is one of the most important mosquito-borne diseases, which still affects a significant number of people every year, mainly in tropical countries. Mortality can be high, even with intensive treatment due to multiple organ failure, including acute kidney injury (AKI). This disease can also be a burden on the health care system in developing countries, without mentioning the number of lives that could be spared with an early diagnosis and adequate monitoring and treatment. The pathophysiology of yellow fever-induced acute kidney injury (AKI) is still to be completely understood, and the best clinical approach has not yet been determined. This manuscript presents the most recent scientific evidence of kidney involvement in yellow fever, since AKI plays an important role in the mortality rate. Recent outbreaks have occurred in Brazil and further studies are required to provide a better clinical control for patients with yellow fever.
Evaluation of magnetic nanoparticles for magnetic fluid hyperthermia

Abstract Background: Magnetic nanoparticles (MNPs) generate heat when exposed to an alternating magnetic field. Consequently, MNPs are used for magnetic fluid hyperthermia (MFH) for cancer treatment, and have been shown to increase the efficacy of chemotherapy and/or radiation treatment in clinical trials. A downfall of current MFH treatment is the inability to deliver sufficient heat to the tumor due to: insufficient amounts of MNPs, unequal distribution of MNPs throughout the tumor, or heat loss to the surrounding environment. Objective: In this study, the objective was to identify MNPs with high heating efficiencies quantified by their specific absorption rate (SAR). Methods: A panel of 31 commercially available MNPs were evaluated for SAR in two different AMFs. Additionally, particle properties including iron content, hydrodynamic diameter, core diameter, magnetic diameter, magnetically dead layer thickness, and saturation mass magnetization were investigated. Results: High SAR MNPs were identified. For SAR calculations, the initial slope, corrected slope, and Box–Lucas methods were used and validated using a graphical residual analysis, and the Box–Lucas method was shown to be the most accurate. Other particle properties were identified and examined for correlations with SAR values. Positive correlations of particle properties with SAR were found, including a strong correlation for the magnetically dead layer thickness. Conclusions: This work identified high SAR MNPs for hyperthermia, and provides insight into properties which correlate with SAR which will be valuable for synthesis of next-generation MNPs. SAR calculation methods must be standardized, and this work provides an in-depth analysis of common calculation methods.
Mapping hole hopping escape routes in proteins

Significance Hole hopping pathways consisting of redox-active amino acids are proposed to direct potentially damaging holes away from active sites of proteins to the protein surface where they may be neutralized. We developed an approach to rapidly identify hole hopping pathways and to quantify the timescale for their shepherding of holes to the protein surface. Using this theoretical methodology, we identify the dominant hopping pathways in cytochrome P450, cytochrome c peroxidase, and benzylsuccinate synthase (BSS). Hopping pathways that involve a high-potential [4Fe4S] cluster as the terminal hole acceptor in BSS were identified to be accessible on a millisecond timescale, highlighting a [4Fe4S] cluster that is kinetically poised to play an oxidative damage protective role in a protein. A recently proposed oxidative damage protection mechanism in proteins relies on hole hopping escape routes formed by redox-active amino acids. We present a computational tool to identify the dominant charge hopping pathways through these residues based on the mean residence times of the transferring charge along these hopping pathways. The residence times are estimated by combining a kinetic model with well-known rate expressions for the charge-transfer steps in the pathways. We identify the most rapid hole hopping escape routes in cytochrome P450 monooxygenase, cytochrome c peroxidase, and benzylsuccinate synthase (BSS). This theoretical analysis supports the existence of hole hopping chains as a mechanism capable of providing hole escape from protein catalytic sites on biologically relevant timescales. Furthermore, we find that pathways involving the [4Fe4S] cluster as the terminal hole acceptor in BSS are accessible on the millisecond timescale, suggesting a potential protective role of redox-active cofactors for preventing protein oxidative damage.
Designing Functional Implementations of Graph Algorithms

Classic graph algorithms are usually presented and analysed in imperative programming languages. Imperative programming languages are well-suited for the description of a program flow, in which the order in which the operations are performed is important. One common example of such a description is the successive, typically destructive modification of objects. This kind of iteration often occurs in the context of graph algorithms that deal with a certain kind of optimisation. In functional programming, the order of execution is abstracted and problem solutions are described as compositions of intermediate solutions. Additionally, functional programming languages are referentially transparent and thus destructive updates of objects are discouraged. The development of purely functional graph algorithms begins with the decomposition of a given problem into simpler problems. In many cases the solutions of these partial problems can be used to solve different problems as well. What is more, this compositionality allows exchanging functions for more efficient or more comprehensible versions with little effort. An algebraic approach with a focus on relation algebra as defined by Tarski is used as an intermediate step in this dissertation. One advantage of this approach is the formality of the resulting specifications. Despite their formality, the resulting expressions are still readable, because the algebraic operations have intuitive interpretations. Another advantage is that the specification is executable, once the necessary operations are implemented. This dissertation presents the basics of the algebraic approach in the functional programming language Haskell. Using this foundation, some exemplary graph-theoretic problems are solved in the presented framework. Finally, optimisations of the presented implementations are discussed and pointers are provided to further problems that can be solved using the above methods.