Miracle-dz/UniFAR-FTUs huggingface dataset:
Computational predictions of host-pathogen interactions using domain and sequence signature

Pathogens have specialized proteins to invade and infect the host by interacting with the host proteins. Despite several experimental studies, knowledge about host-pathogen interactions (HPIs) is limited. However, this knowledge is essential to understand disease mechanism and identify potential targets for disease prevention and intervention. In this study, we propose a pipeline for identifying host-pathogen protein-protein interactions. The pipeline consists of a biological knowledge-based filter, a domain-based statistical filter followed by a sequence-signature based machine learning method. Interspecies protein-protein interaction data between eukaryotic pathogens and human was used to build the domain-based statistical model. Known host-pathogen interactions of all eukaryotic pathogens from HPIDB and non-interacting protein data from Negatome were used as positive and negative training sets, respectively to train the machine learning model. We applied our pipeline to predict HPIs between human and malarial parasite, P. falciparum. Several biologically relevant features like tissue specificity, protein annotations and functions were used to construct a primary list of possible HPIs. Next, the statistical and machine learning based models were used as filters on the initial list to predict novel protein-protein interactions between human and P. falciparum during intra-erythrocytic stages. We have predicted several HPIs that are involved in host erythrocyte cytoskeleton remodeling, signaling and immune response. The proposed method can be used to find novel HPIs between human cells and any eukaryotic pathogens.
Effective Prediction of Transmission of Solar Irradiance through Dusty Solar Panels using Atmospheric Aerosol Data for Lahore, Pakistan

The effect of soiling on the performance of photovoltaic (PV) panels can be difficult to predict as the process is highly dependent on the site specific climate parameters. Among various climate parameters, highest correlation to the soiling losses have been found for the airborne particulate matter (PM) concentration and the duration of dry period (time between events of significant rain). Here, we study the effect of the size distribution of PM and show that it can significantly modulate the PV soiling loss for a given mass concentration of PM. The PM size distribution from satellite aerosol data for the last 15 years for Lahore is used to predict the PV soiling loss using a model based on Mie scattering theory and Lambert-Beer law. The PV soiling loss is experimentally measured for Lahore to validate the model prediction. For a moderate soiling mass density of ~1.0 g/m2, we show that variations in PM size distribution can modulate the transmission loss by ~5%. The soiling loss across the year for Lahore is predicted to be at its maximum of 19% in June and minimum of 12% in January for a constant mass density of 1.5 g/m2. We further apply the model to predict soiling losses for the particle size distributions extracted from the naturally soiled PV panels reported in literature. A nice match is found between the experimental results and model based predictions.
Evaluation and Comparison of Stress Distribution in Restored Cervical Lesions of Mandibular Premolars: Three-dimensional Finite Element Analysis

Objectives: Restorative materials are used in the treatment of cervical lesions and restoration of the dental tooth. The objective of this study was to assess the suitability of the three commonly used restorative materials by dentists and the evaluation of stress distribution and deformation using Von Mises stress in cervical lesions of mandibular premolars under varying loading condition. Materials and Methods: A computerized model of restored class V cavity of mandibular premolar tooth was created using three dimensional modeling software SpaceClaim. It was subjected to occlusal pressure load of 100, 150, 200 and 250 MPa at right angle to buccal cusp and was analyzed for stress distribution and deformation in different restorative materials using Finite Element analysis, ANSYS Workbench. Results: The analysis carried on the class V restored tooth from biomechanical point of view indicates that restorative material glass–ionomer cement exhibited better bonding with the tooth structure using ionic bonds with the calcium ion present in the tooth structure. The variation of 8%–9% of stress concentration is observed in cavity region across varied pressure loads with glass–ionomer cement to Cention N. Conclusion: Glass–ionomer cement had showed better results than amalgam in terms of biomechanical property which is in agreement with the clinical findings. The stress values of Cention N were comparable to that of glass–ionomer cement.
Purpuric rash in an infant after chicken pox exposure

© The Author(s) 2020. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/ licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
Remineralization Potential of Theobromine on Artificial Carious Lesions

Background and Aims: This study aimed to investigate the remineralization potential of two concentrations of theobromine (100mg/L and 200 mmg/L) with fluoridated dentifrice, NovaMin, and nanohydroxyapatite using DIAGNOdent, scanning electron microscopy (SEM), and energy dispersive X-ray (EDX) analysis. Materials and Methods: Two sections were taken from 50 teeth each. Artificial carious lesions were induced using demineralizing solution. Evaluation using DIAGNOdent, SEM, and EDX analysis for elemental evaluation of Ca/P ratio and fluoride ion was carried out. Teeth sections were then randomly assigned to five different groups: (1) fluoridated dentifrice (ColgateTM, Colgate –Palmolive, India), Novamine- Shy NMTM, Group pharamaceuticals, India), 3. Nano-hydroxyapatite- Remin ProTM, Voco, Germany) 4. 100mg and 5. 200mg of Theobromine toothpaste (Theodent classicTM, Rennou, UK-853069003006). Remineralization was carried out for 14 days with two applications per day. Samples were reanalyzed using DIAGNOdent, SEM, and EDX. Results: A Tukey post-hoc test revealed statistically significant difference between NovaMin and all the other toothpastes (P < 0.001) for DIAGNOdent readings. On performing SEM-EDX analysis, it was seen that all agents had remineralization potential; however, no significant difference was found. Conclusion: Theobromine can be used as an effective novel remineralizing agent alternative to the already-available agents.
A Preexperimental Study to Assess the Impact of an Interdisciplinary Educational Intervention on Nurses’ Knowledge of Perinatal and Infant Oral Health Care

Objective: The objective of this study was to assess the impact of an interdisciplinary educational intervention on the knowledge of nursing practitioners regarding perinatal and infant oral health (PIOH) care. Materials and Methods: This was a preexperimental study conducted among nursing practitioners in Lagos, Nigeria. Participants received hands-on training and didactic lectures, which included dental caries etiology and risk factors; oral hygiene and dietary education; teething and its management; dental trauma and its prevention; nonnutritive habits; screening, referrals, and counseling; and fluoride varnish application. Knowledge of the trainees was assessed using pre- and posttest questionnaires. Level of statistical significance was set at P < 0.05. Results: Overall, 110 nurses participated in the study with a mean age of 40.9 ± 10.8 years; 106 (96.4%) were females. Approximately 88% of the participants had not received formal training on PIOH. The baseline mean scores of the participants’ knowledge on oral hygiene, teething, trauma, caries, and oral habits were 4.31 ± 1.9, 9.84 ± 2.6, 2.59 ± 1.7, 4.24 ± 1.8, and 1.45 ± 0.6, respectively; this increased significantly (P < 0.001) following the educational intervention with posttest mean scores as 7.58 ± 0.8, 11.79 ± 1.3, 4.34 ± 1.9, 6.19 ± 1.8, and 1.82 ± 0.4 and six-month evaluation scores as 6.21 ± 1.8,7 10.27 ± 3.1, 4.39 ± 1.5, 5.91 ± 1.8, and 1.79 ± 0.5, respectively. Overall posttest (31.4 ± 4.2) and six-month (28.6 ± 6.2) knowledge scores were significantly higher than the pretest values (22.4 ± 4.8, P < 0.001). At the six-month post-intervention survey, 84% of the nurses reported inclusion of PIOH education in their routine general health education sessions. Conclusion: There was a positive impact of the educational intervention as evidenced by an increase in the knowledge of the nurses on PIOH care and the inclusion of PIOH education in their general health education. A slight decline between posttest and six-month evaluation scores indicates a need for continuous education and evaluation.
Sociodemographic factors associated with the consumption of ultra-processed foods in Colombia

ABSTRACT OBJECTIVE To analyze the consumption of ultra-processed foods in the Colombian population across sociodemographic factors. METHODS We used data from the 2005 National Survey of the Nutritional Status in Colombia. Food consumption was assessed using a 24-hour food recall in 38,643 individuals. The food items were classified according to the degree and extent of industrial processing using the NOVA classification. RESULTS The mean calorie contribution of ultra-processed foods ranged from 0.2% in the lowest quintile of consumers to 41.1% in the highest quintile of consumers. The greatest increases were due to the consumption of industrialized breads, sweet and savory snacks, sugary drinks, processed meats, and confectionery. No major differences were found in the consumption of ultra-processed foods between men and women. We observed significant differences by age, socioeconomic status, area of residence, and geographic region. Children and adolescents showed a higher intake of ultra-processed foods, almost double that of participants over 50 years of age. Children consumed significantly more snacks, confectionery products, processed cereals, milk-based drinks and desserts. Participants over 50 years consumed fewer products from these sub-groups of ultra-processed foods but had the highest consumption of industrialized bread. Individuals from urban areas, those with high socioeconomic status, participants residing in the Bogotá region had 1.5 to 1.7 times higher calorie intake from ultra-processed foods compared with those from a lower socioeconomic status and those residing in rural regions. CONCLUSION In Colombia, industrialized bread is the ultra-processed product that is most easily assimilated into the traditional diet, along with snacks and sugary drinks. Children and adolescents residing in urban areas and households with greater purchasing power have some of the highest intakes of ultra-processed foods in the country.
Effects of Brownfield Remediation on Total Gaseous Mercury Concentrations in an Urban Landscape

In order to obtain a better perspective of the impacts of brownfields on the land–atmosphere exchange of mercury in urban areas, total gaseous mercury (TGM) was measured at two heights (1.8 m and 42.7 m) prior to 2011–2012 and after 2015–2016 for the remediation of a brownfield and installation of a parking lot adjacent to the Syracuse Center of Excellence in Syracuse, NY, USA. Prior to brownfield remediation, the annual average TGM concentrations were 1.6 ± 0.6 and 1.4 ± 0.4 ng·m−3 at the ground and upper heights, respectively. After brownfield remediation, the annual average TGM concentrations decreased by 32% and 22% at the ground and the upper height, respectively. Mercury soil flux measurements during summer after remediation showed net TGM deposition of 1.7 ng·m−2·day−1 suggesting that the site transitioned from a mercury source to a net mercury sink. Measurements from the Atmospheric Mercury Network (AMNet) indicate that there was no regional decrease in TGM concentrations during the study period. This study demonstrates that evasion from mercury-contaminated soil significantly increased local TGM concentrations, which was subsequently mitigated after soil restoration. Considering the large number of brownfields, they may be an important source of mercury emissions source to local urban ecosystems and warrant future study at additional locations.
Two-Way Transmission for Low-Latency and High-Reliability 5G Cellular V2X Communications

As one of key technologies of future networks, vehicle-to-everything (V2X) communication has recently been proposed to improve conventional vehicle systems in terms of traffic and communications. Main benefits of using V2X are efficient and safe traffic as well as low-latency communications and reliable massive connections. Non-orthogonal multiple access (NOMA) scheme was introduced as a promising solution in the fifth-generation (5G) mobile communications, by which quality-of-service (QoS) requirements of many 5G-enabled applications are satisfied as a result of improved network throughput and lower accessing and transmission latency. In this paper, we study NOMA-based communications between vehicles equipped with multiple antennas over Nakagami-m fading channels in V2X networks, in which uplink and downlink transmission between two vehicles with upper controller are supported by a road side unit (RSU) to increase the capacity rather than simply be connected to the base station. In the NOMA-V2X system under study, the outage probability depends on the power allocation factor of RSU transmission and the operation of successive interference cancellation (SIC) at vehicles. Analyses and simulations verify that the outage performance of NOMA-V2X system are mainly affected by fading parameters, levels of imperfect SIC, and power allocation factors.
Impact of HIV and sexual health education on the sexual behaviour of young people: a review update

This report provides a review of the empirical literature on the effects of HIV/AIDS and sexual and health education on adolescent sex behavior. The review was commissioned by the UNAIDS Policy Strategy and Research Department and the Joint UN Program on HIV/AIDS. This review includes 53 studies that evaluated specific interventions: controlled and other intervention studies cross sectional surveys and international or national comparison studies. Four specific issues were discussed: methodological limitations education issues features of successful programs and the gender social context. Seven basic points were raised by the studies: 1) Education on sexual health and/or HIV/AIDS does not encourage sex activity; 2) good quality programs help delay first intercourse and provide the means to protect adolescents from HIV sexually transmitted diseases and from unwanted pregnancy; 3) adolescents can learn responsible safe sex behavior; 4) sexual health education should begin before the onset of sexual activity; 5) education should be gender-sensitive for both genders; 6) adolescents learn about sexual health issues from multiple sources; and 7) adolescents are a heterogeneous group and should be reached with multiple strategies. Effective education programs were found to be grounded in Social Learning Theory and to have a focused curriculum attention to social influences practice in communication and negotiation skills and openness in communicating about sex. Effective programs help adolescents with skills in decoding mass media messages. Program evaluation should have a solid study design and valid appropriate statistical techniques.
Contacts for Molybdenum Disulfide: Interface Chemistry and Thermal Stability

In this review on contacts with MoS2, we consider reports on both interface chemistry and device characteristics. We show that there is considerable disagreement between reported properties, at least some of which may be explained by variability in the properties of geological MoS2. Furthermore, we highlight that while early experiments using photoemission to study the interface behavior of metal-MoS2 showed a lack of Fermi-level pinning, device measurements repeatedly confirm that the interface is indeed pinned. Here we suggest that a parallel conduction mechanism enabled by metallic defects in the MoS2 materials may explain both results. We note that processing conditions during metal depositions on MoS2 can play a critical role in the interface chemistry, with differences between high vacuum and ultra-high vacuum being particularly important for low work function metals. This can be used to engineer the interfaces by using thin metal-oxide interlayers to protect the MoS2 from reactions with the metals. We also report on the changes in the interfaces that can occur at high temperature which include enhanced reactions between Ti or Cr and MoS2, diffusion of Ag into MoS2, and delamination of Fe. What is clear is that there is a dearth of experimental work that investigates both the interface chemistry and device properties in parallel.
A Mixed-method Study of Providing and Implementing a Support Model Focusing on Systematic Work Environment Management.

AIMS To explore how a support model (Stamina) targeting the systematic work environment management was experienced, provided and implemented in Swedish municipalities. METHODS A mixed method approach was applied, including material from interviews and questionnaire. The questionnaire was answered by 123 persons (67.5%), and 18 participants were interviewed twice during a one year period. Data were analysed using descriptive statistics and qualitative content analysis. RESULTS The participants followed the structure of the Stamina model in their practical work. Still, there was variation in the practical provision of the model. The implementation was supported by their organisations and was influenced by various actors. Creating commitment was an essential part to facilitate implementation. CONCLUSION To promote implementation of the Stamina model, there is a need to create commitment among stakeholders that will participate in the implementation.
Expanding the CRISPR Toolbox in P. patens Using SpCas9-NG Variant and Application for Gene and Base Editing in Solanaceae Crops

Genome editing has become a major tool for both functional studies and plant breeding in several species. Besides generating knockouts through the classical CRISPR-Cas9 system, recent development of CRISPR base editing holds great and exciting opportunities for the production of gain-of-function mutants. The PAM requirement is a strong limitation for CRISPR technologies such as base editing, because the base substitution mainly occurs in a small edition window. As precise single amino-acid substitution can be responsible for functions associated to some domains or agronomic traits, development of Cas9 variants with relaxed PAM recognition is of upmost importance for gene function analysis and plant breeding. Recently, the SpCas9-NG variant that recognizes the NGN PAM has been successfully tested in plants, mainly in monocotyledon species. In this work, we studied the efficiency of SpCas9-NG in the model moss Physcomitrella patens and two Solanaceae crops (Solanum lycopersicum and Solanum tuberosum) for both classical CRISPR-generated gene knock-out and cytosine base editing. We showed that the SpCas9-NG greatly expands the scope of genome editing by allowing the targeting of non-canonical NGT and NGA PAMs. The CRISPR toolbox developed in our study opens up new gene function analysis and plant breeding perspectives for model and crop plants.
Carbapenem-Sparing Strategies for ESBL Producers: When and How

Extended spectrum β-lactamase (ESBL)-producing bacteria are prevalent worldwide and correlated with hospital infections, but they have been evolving as an increasing cause of community acquired infections. The spread of ESBL constitutes a major threat for public health, and infections with ESBL-producing organisms have been associated with poor outcomes. Established therapeutic options for severe infections caused by ESBL-producing organisms are considered the carbapenems. However, under the pressure of carbapenem overuse and the emergence of resistance, carbapenem-sparing strategies have been implemented. The administration of carbapenem-sparing antibiotics for the treatment of ESBL infections has yielded conflicting results. Herein, the current available knowledge regarding carbapenem-sparing strategies for ESBL producers is reviewed, and the optimal conditions for the “when and how” of carbapenem-sparing agents is discussed. An important point of the review focuses on piperacillin–tazobactam as the agent arousing the most debate. The most available data regarding non-carbapenem β-lactams (i.e., ceftolozane–tazobactam, ceftazidime–avibactam, temocillin, cephamycins and cefepime) are also thoroughly presented as well as non β-lactams (i.e., aminoglycosides, quinolones, tigecycline, eravacycline and fosfomycin).
Do interruptions to the continuity of methadone maintenance treatment in specialist addiction settings increase the risk of drug‐related poisoning deaths? A retrospective cohort study

Abstract Aims To examine the risk of mortality associated with interruptions to the continuity of methadone maintenance treatment (MMT), including transfers between services, in opioid‐dependent individuals attending specialist addiction services. Design Retrospective cohort study using addiction services and primary care dispensing records, the National Methadone Register and National Drug‐Related Death Index (NDRDI). Setting Geographically defined population in Dublin, Ireland. Participants A total of 2899 people prescribed and dispensed methadone in specialist addiction services between January 2010 and December 2015. There were five exposure groups: weeks 1–4 following transfer between treatment providers; weeks 1–4 out of treatment; weeks 5–52 out of treatment; weeks 1–4 of treatment initiation; and weeks 5+ of continuous treatment (reference category). Measurements Primary outcome: drug‐related poisoning (DRP) deaths. Secondary outcome: all‐cause mortality (ACM). Mortality rates calculated by dividing number of deaths (DRP; ACM) in exposure groups by person‐years exposure. Unadjusted and adjusted Poisson regression (covariates age, sex, incarceration, methadone dose and comorbidities) estimated differences in mortality rates. Findings There were 154 ACM deaths, 55 (35.7%) identified as DRP deaths. No deaths were observed in the first month following transfer between treatment providers. The risk of DRP mortality was highest in weeks 1–4 out of treatment [adjusted relative risk (aRR = 4.04, 95% confidence interval (CI) = 1.43–11.43, P = 0.009] and weeks 1–4 of treatment initiation (ARR = 3.4, 95% CI = 1.2–9.64, P = 0.02). Similarly, risk of ACM was highest in weeks 1–4 out of treatment (ARR = 11.78, 95% CI = 7.73–17.94, P < 0.001), weeks 1–4 of treatment initiation (aRR = 5.11, 95% CI = 2.95–8.83, P < 0.001) and weeks 5–52 off treatment (aRR = 2.04, 95% CI = 1.2–3.47, P = 0.009). Conclusions Interruptions to the continuity of methadone maintenance treatment by treatment provider do not appear to be periods of risk for drug‐related poisoning or all‐cause mortality deaths. Risk of drug related poisoning and all‐cause mortality deaths appears to be greatest during the first 4 weeks of treatment initiation/re‐initiation and after treatment cessation.