Miracle-dz/UniFAR-FTUs huggingface dataset:
Gene expression profiles of antigenic proteins of third stage larvae of the zoonotic nematode Anisakis pegreffii in response to temperature conditions

Anisakis pegreffii, a recognised etiological agent of human anisakiasis, is a parasite of homeothermic hosts at the adult stage and of ectothermic hosts at the third larval stage. Among distinct factors, temperature appears to be crucial in affecting parasite hatching, moulting and to modulate parasite-host interaction. In the present study, we investigated the gene transcripts of proteins having an antigenic role among excretory secretory products (ESPs) (i.e., a Kunitz-type trypsin inhibitor, A.peg-1; a glycoprotein, A.peg-7; and the myoglobin, A.peg-13) after 24 h, in A. pegreffii larvae maintained in vitro, under controlled temperature conditions. Temperatures were 37 °C and 20 °C, resembling respectively homeothermic and ectothermic hosts conditions, and 7 °C, the cold stress condition post mortem of the fish host. Primers of genes coding for these ESPs to be used in quantitative real-time PCR were newly designed, and qRT-PCR conditions developed. Expression profiles of the genes A.peg-1 and A.peg-13 were significantly up-regulated at 20 °C and 37 °C, with respect to the control (larvae kept at 2 °C for 24 h). Conversely, transcript profiles of A.peg-7 did not significantly change among the chosen temperature conditions. In accordance with the observed transcript profiles, sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) revealed the presence of the three target ESPs at 37 °C, while only A.peg-13 was observed at 7 °C. The results suggest that temperature conditions do regulate the gene expression profiles of A.peg-1 and A.peg-13 in A. pegreffii larvae. However, regulation of the glycoprotein A.peg-7 is likely to be related to other factors such as the host’s immune response.
High‐resolution structural analysis shows how different crystallographic environments can induce alternative modes of binding of a phosphotyrosine peptide to the SH2 domain of Fer tyrosine kinase

Fes and Fes‐related (Fer) protein tyrosine kinases (PTKs) comprise a subfamily of nonreceptor tyrosine kinases characterized by a unique multidomain structure composed of an N‐terminal Fer/CIP4 homology‐Bin/Amphiphysin/Rvs (F‐BAR) domain, a central Src homology 2 (SH2) domain, and a C‐terminal PTK domain. Fer is ubiquitously expressed, and upregulation of Fer has been implicated in various human cancers. The PTK activity of Fes has been shown to be positively regulated by the binding of phosphotyrosine‐containing ligands to the SH2 domain. Here, the X‐ray crystal structure of human Fer SH2 domain bound to a phosphopeptide that has D‐E‐pY‐E‐N‐V‐D sequence is reported at 1.37 å resolution. The asymmetric unit (ASU) contains six Fer‐phosphopeptide complexes, and the structure reveals three distinct binding modes for the same phosphopeptide. At four out of the six binding sites in the ASU, the phosphopeptide binds to Fer SH2 domain in a type I β‐turn conformation, and this could be the optimal binding mode of this phosphopeptide. At the other two binding sites in the ASU, it appears that spatial proximity of neighboring SH2 domains in the crystal induces alternative modes of binding of this phosphopeptide.
Development of a Practical Course to Assist Elementary School Students in Acquiring the Ability to Support for Elderly People with Dementia

Support for elderly people with dementia is required in the community. Many elementary school students are taking dementia kids supporter training courses, but it is difficult to nurture the ability to correctly understand and respond to dementia. By using multiple information communication technologies, we developed a practical program with concrete response method to convey knowledge on supporting of elderly people with dementia.
New Methodology for Identification of Sympathetic Inrush for a Power Transformer using Wavelet Transform

This paper presents a new methodology to identify the transient of sympathetic inrush between power transformers that aims to prevent the protection system from being affected by this transient. The developed method is based on the variation of the detail coefficients of different levels of DWT decomposition. During the sympathetic inrush condition, the detail coefficients present a different variation from that which occurs during an internal fault condition. The proposed methodology is able to identify the sympathetic inrush conditions without the need to set a threshold, making the methodology intelligent and avoiding unwanted trip of the protection system. The proposed methodology was thoroughly tested and proved to be promising in the identification and discrimination between sympathetic inrush and internal faults.
Mapping the Hyperlink Structure of Diabetes Online Communities

Diabetes is one of the largest global health emergencies of the 21st century. As a chronic disease, diabetes requires continuous medical care and constant patient self-management. Such care involves several stakeholders to improve health outcome and patient quality of life. This paper makes use of World Wide Web network analysis to highlight how stakeholders, providing information about online diabetes communities, link to each other. To achieve this, we capture the network of diabetes related websites as a digital trace of a non-digital phenomenon. Furthermore, this helps us to understand the current situation of diabetes organizations from a digital perspective. The methodology involves state-of-the-art tools to crawl (Hyphe) and visualize (Gephi) topic-sensitive networks. While neither of these tools is new in itself, their combination provides a promising way to analyze chronic disease stakeholders, organizations and communities, representing a large proportion of the knowledge and support diabetes patients have access to nowadays.
HomeCoRe: Bringing Cognitive Rehabilitation at Home

CoRe is a system for cognitive rehabilitation that has been successfully used for several years in hospital settings. Leveraging on the positive survey results from the potential final users (patients and their home caregivers), we developed HomeCoRe. This new version of the system will allow discharged patients to continue the rehabilitation treatment at home.
Sex‐specific plasma metabolome signatures in major depressive disorder

Major depressive disorder (MDD) is a highly prevalent mental disorder with obvious sex differences.1 Numerous metabolomics studies have investigated the differential expressed metabolic signatures in MDD; however, few studies have investigated the sex differences at the large-scale molecular level other than transcriptome.2,3 Here, we investigated the sex differences of plasma metabolome signatures in anti-depressant-naïve patients with MDD. This article is protected by copyright. All rights reserved.
Stratified Mortality Prediction of Patients with Acute Kidney Injury in Critical Care

Acute Kidney Injury (AKI) is the most common cause of organ dysfunction in critically ill adults and prior studies have shown AKI is associated with a significant increase of the mortality risk. Early prediction of the mortality risk for AKI patients can help clinical decision makers better understand the patient condition in time and take appropriate actions. However, AKI is a heterogeneous disease and its cause is complex, which makes such predictions a challenging task. In this paper, we investigate machine learning models for predicting the mortality risk of AKI patients who are stratified according to their AKI stages. With this setup we demonstrate the stratified mortality prediction performance of patients with AKI is better than the results obtained on the mixed population.
Inexpensive Graphene Oxide Heaters Lithographed by Laser

In this paper, we present a simple and inexpensive method for the fabrication of high-performance graphene-based heaters on different large-scale substrates through the laser photothermal reduction of graphene oxide (laser-reduced graphene-oxide, LrGO). This method allows an efficient and localized high level of reduction and therefore a good electrical conductivity of the treated films. The performance of the heaters is studied in terms of steady-state temperature, power consumption, and time response for different substrates and sizes. The results show that the LrGO heaters can achieve stable steady-state temperatures higher than 200 °C when a voltage of 15 V is applied, featuring a time constant of around 4 s and a heat transfer coefficient of ~200 °C cm2/W. These characteristics are compared with other technologies in this field, demonstrating that the fabrication approach described in this work is competitive and promising to fabricate large-scale flexible heaters with a very fast response and high steady-state temperatures in a cost-effective way. This technology can be easily combined with other fabrication methods, such as screen printing or spray-deposition, for the manufacturing of complete sensing systems where the temperature control is required to adjust functionalities or to tune sensitivity or selectivity.
Semantic Retrieval for Mongolian Music: An Explorative Study

: [ Objective ] This paper aims to improve the retrieval performance of the booming Mongolian information resources with Ontology based semantic technology. [ Methods ] We designed a semantic retrieval system with the help of Mongolian music domain Ontology as well as the semantic analysis and inference engine Jena. [ Results ] Compared to the keyword matching retrieval systems, the recall and precision of the proposed system were significantly improved (95.6% and 93.2%, respectively). [ Limitations ] The experimental data only included the Mongolian multi-voice music. [ Conclusions ] The proposed semantic retrieval system lays theoretical and technological foundations for the research of Mongolian semantic Web applications.
Berberine and Dyslipidemia: Different Applications and Biopharmaceutical Formulations Without Statin-Like Molecules-A Meta-Analysis.

The aim of this study was to analyze the efficacy of berberine taken alone or in other formulations (with silymarin or other mixtures) on dyslipidemia through a systematic review of the literature and a meta-analysis. A systematic investigation was conducted on 19 studies that were selected based on inclusion and exclusion criteria. Both controlled trials (n = 12) and cross-sectional trials (n = 7) were included. The following formulations were examined: berberine used alone (n = 5), berberine combined with silymarin (n = 8), and other mixture containing berberine (n = 6). A meta-analysis was performed using a fixed-effects model and meta-regression. Total cholesterol (TC), low-density lipoprotein (LDL) cholesterol, high-density lipoprotein (HDL) cholesterol, and triglycerides were considered. Moreover, possible associations of each parameter with age and the dose and duration of the treatment were analyzed. The data obtained showed a significant reduction in TC and LDL cholesterol for each formulation. A reduction in triglycerides was also observed for both TC and LDL but with a smaller impact. As regards HDL, a slight increase was observed, but it was not statistically significant. The formulation of berberine in association with silymarin was found to have the greatest impact on TC, LDL, HDL, and triglycerides. The greater efficacy of the formulation consisting of berberine associated with silymarin can probably be accounted for by the fact that the latter increases the bioavailability of berberine. However, it is necessary to carry out further clinical studies to better define the efficacy of the treatment and which patients show the best response.
Biochemical implications of biotransformation of some toxic floras using natural local enzyme sources.

BACKGROUND Recently it has been established that simultaneous saccharification and fermentation is a potent technique for the detoxification of harmful plant materials. OBJECTIVE Sequel to encouraging medicinal applications of simultaneous application of snail slime and yeast, we exploited their hydrolytic and fermentation potentials to prevent toxicities of the selected floras; Erythrodontium barteri (EB), bracken fern (BF), and crustose lichens (CL). The applicability of the saccharification process has been described in a patent (WO2005010193A2). METHOD The plants were bioprocessed using snail digestive juice and yeast slurry and their health effects evaluated. Seventy rats were divided equally into groups treated with single doses of aqueous extracts of the plants and their bioprocessed forms, and compared with control rats. RESULT The plants showed very high antinutrients levels, which significantly reduced after SSF with enhanced flavonoids, alkaloids and phenols. Potential alterations of WBC differentials, RBC, liver and renal function markers indices were mitigated by bioprocessed extracts. MDA, SOD, GRase, XO and XDH levels of rats administered the bEB and CL were equivalent to the levels found for the control rats. Some bioprocessed plants produced unaltered insulin, ghrelin, and leptin levels. The bioprocessed extracts when compared to the effects of the unprocessed extracts produced lower TNF-α, Caspase-3, and adiponectin levels and abrogated the potential suppression of Na+/K+-ATPase levels. Potential depletion of inhibin-B, testosterone, estrogen, and prolactin were mitigated after bioprocessing. CONCLUSION This study thus, validates the application of bioprocessing using snail digestive juice and yeast as an effective approach to abrogate the potential toxicities of harmful plants.
Combined experimental and computational investigation into inter-subject variability in cardiac electrophysiology

The underlying causes of variability in the electrical activity of hearts from individuals of the same species are not well understood. Understanding this variability is important to enable prediction of the response of individual hearts to diseases and therapies. Current experimental and computational methods for investigating the behaviour of the heart do not incorporate biological variation between individuals. In experimental studies, experimental results are averaged together to control errors and determine the average behaviour of the studied organism. In computational studies, averaged experimental data is usually used to develop models, and these models therefore represent a 'typical' organism, with all information on variability within the species having been lost. In this thesis we develop a methodology for modelling variability between individuals of the same species in cardiac cellular electrophysiology, motivated by the inability of traditional computational modelling approaches to capture experimental variability. A first study is conducted using traditional modelling approaches to investigate potentially pro-arrhythmic abnormalities in rabbit Purkinje fibres. A comparison with experimental recordings highlights their wide variability and the inability of existing computer modelling approaches to capture it. This leads to the development of a novel methodology that integrates the variability observed in experimental data with computational modelling and simulation, by building experimentally-calibrated populations of computational models, that collectively span the variability seen in experimental data. We apply this methodology to construct a population of rabbit Purkinje cell models. We show that our population of models can quantitatively predict the range of responses, not just the average response, to application of the potassium channel blocking drug dofetilide. This demonstrates an important potential application of our methodology, for predicting pro-arrhythmic drug effects in safety pharmacology. We then analyse a data set of experimental recordings from human ventricular tissue preparations, and use this data to develop a population of human ventricular cell models. We apply this population to study how variability between individuals alters the susceptibility of cardiac cells to developing drug-induced repolarisation abnormalities. These abnormalities can increase the chance of fatal arrhythmias, but the mechanisms that determine individual susceptibility are not well-understood.
Identifying Cardiomegaly in ChestX-ray8 Using Transfer Learning

Recently, the National Institutes of Health (NIH) published a chest X-ray image database named "ChestX-ray8", which contains 108,948 X-ray images that are labeled with eight types of diseases. Identifying the pathologies from the clinical images is a challenging task even for human experts, and to develop computer-aided diagnosis systems to help humans identify the pathologies from images is an urgent need. In this study, we applied the deep learning methods to identify the cardiomegaly from the X-ray images. We tested our algorithms on a dataset containing 600 images, and obtained the best performance with an area under the curve (AUC) of 0.87 using the transfer learning method. This result indicates the feasibility of developing computer-aided diagnosis systems for different pathologies from X-rays using deep learning techniques.
Plakophilin-2 Haploinsufficiency Causes Calcium Handling Deficits and Modulates the Cardiac Response Towards Stress

Human variants in plakophilin-2 (PKP2) associate with most cases of familial arrhythmogenic cardiomyopathy (ACM). Recent studies show that PKP2 not only maintains intercellular coupling, but also regulates transcription of genes involved in Ca2+ cycling and cardiac rhythm. ACM penetrance is low and it remains uncertain, which genetic and environmental modifiers are crucial for developing the cardiomyopathy. In this study, heterozygous PKP2 knock-out mice (PKP2-Hz) were used to investigate the influence of exercise, pressure overload, and inflammation on a PKP2-related disease progression. In PKP2-Hz mice, protein levels of Ca2+-handling proteins were reduced compared to wildtype (WT). PKP2-Hz hearts exposed to voluntary exercise training showed right ventricular lateral connexin43 expression, right ventricular conduction slowing, and a higher susceptibility towards arrhythmias. Pressure overload increased levels of fibrosis in PKP2-Hz hearts, without affecting the susceptibility towards arrhythmias. Experimental autoimmune myocarditis caused more severe subepicardial fibrosis, cell death, and inflammatory infiltrates in PKP2-Hz hearts than in WT. To conclude, PKP2 haploinsufficiency in the murine heart modulates the cardiac response to environmental modifiers via different mechanisms. Exercise upon PKP2 deficiency induces a pro-arrhythmic cardiac remodeling, likely based on impaired Ca2+ cycling and electrical conduction, versus structural remodeling. Pathophysiological stimuli mainly exaggerate the fibrotic and inflammatory response.
Artesunate inhibits myofibroblast formation via induction of apoptosis and antagonism of pro‐fibrotic gene expression in human dermal fibroblasts

The anti‐malaria drug artesunate and other chemical analogs of artemisinin have demonstrated cytostatic and cytotoxic effects in bacterial and cancer cells. Artemisinin‐derived compounds have also been demonstrated to attenuate fibrosis in preclinical animal models, but the mechanisms by which this inhibition occurs are not well‐understood. We investigated the effects of artesunate on the emergence of the myofibroblast, which is causally implicated in pro‐fibrotic pathologies. CRL‐2097 human dermal fibroblasts were analyzed for protein and transcript expression after treatment with artesunate to analyze fibroblast activation. Proliferation and apoptosis were also evaluated following treatment with artesunate in this cell line. Treatment of human dermal fibroblasts with artesunate antagonized fibroblast activation and pro‐fibrotic extracellular matrix (ECM) deposition, both at basal culture conditions and when cultured in the presence of exogenous transforming growth factor‐β1 (TGF‐β1), a major pro‐fibrotic cytokine. Artesunate‐treated fibroblasts also demonstrated decreased proliferation and increased apoptosis. Transcript analysis by quantitative real‐time polymerase chain reaction demonstrated that artesunate downregulated expression of pro‐fibrotic genes including canonical myofibroblast markers, ECM genes, and several TGF‐β receptors and ligands, and upregulated expression of cell cycle inhibitors and matrix‐metalloproteinases. Together, these data demonstrate that artesunate antagonizes fibroblast activation and decreases expression of pro‐fibrotic genes, while also promoting myofibroblast apoptosis, suggesting that these mechanisms may be responsible in part for the anti‐fibrotic effects of artesunate described previously.
When Ants Take Care of Humans: ACO for Home-Care Services Planning Optimization

Current planning approaches for home care services do not generally support the social and human dimension of planning. They focus on optimization criteria that are easily quantifiable, such as the cost. Whereas other criteria such as the quality of the relationship between caregivers and beneficiaries or the satisfaction of the latter are important too as they can highly influence the planning. To address this issue, we investigate in this work the problem of planning optimization for home care service. We propose an extension of the classical ant colony optimization algorithms. Optimization is carried out by several classic criteria such as the cost along with social-based criteria such as the relationship between caregivers and beneficiaries. We also propose a flexible and expressive language to represent the constraints in the form of predicates that can include variables, constants and functions of the problem. This allows each organisation to add its own constraints.
Development and Validation of a Controlled Vocabulary: An OWL Representation of Organizational Structures of Trauma Centers and Trauma Systems

In trauma care and trauma care research there exists an implementation gap regarding a consistent controlled vocabulary to describe organizational aspects of trauma centers and trauma systems. This paper describes the development and evaluation of a controlled vocabulary for trauma care organizations. We give a detailed description of the involvement of domain experts in the domain analysis workflow and the authoring of definitions and additional term descriptions. Finally, the paper details the evaluation methodology to assess the initial version of the controlled vocabulary. The results of the evaluation show that our development process yields terms most of which find approval from domain experts not involved in the development. In addition, our evaluation tools resulted in valuable domain expert input to optimize the controlled vocabulary.