Miracle-dz/UniFAR-FTUs huggingface dataset:
Evaluation of the dentate gyrus in adult mice exposed to acetaminophen (paracetamol) on postnatal day 10

Acetaminophen (AAP; or paracetamol) is a widely used nonprescription drug with antipyretic and analgesic properties. Alarmingly, there is an increasing body of evidence showing that developmental exposure to AAP is associated with adverse behavioural outcomes later in life. We have previously shown that relevant doses of AAP in 10‐day‐old mice affected memory, learning and locomotor activity in the adult animals. Interestingly, the neurons of the dentate gyrus (DG) have a relatively late time of origin as they are generated during the first two weeks of postnatal life in rodents. Since the generation of these cells, which are important for memory processing, coincides with our AAP exposure, we aim to investigate if the cytoarchitecture of the DG is affected by postnatal day 10 AAP treatment. In addition, we investigate if markers for differentiation and migration in the hippocampus were affected by the same treatment. We did not observe any visual effects in adult DG cytoarchitecture, nor any changes of markers for differentiation/migration in the hippocampus in 24 hr after exposure. Even though a large effect size was estimated on adult DG thickness following AAP exposure, the estimated 95% CIs around the differences of the means reveal no significant effect. Hence, larger sample sizes are warranted to clarify if neonatal AAP exposure affects adult DG thickness in mice.
Deciphering the combinatorial landscape of immunity

From cellular activation to drug combinations, immunological responses are shaped by the action of multiple stimuli. Synergistic and antagonistic interactions between stimuli play major roles in shaping immune processes. To understand combinatorial regulation, we present the immune Synergistic/Antagonistic Interaction Learner (iSAIL). iSAIL includes a machine learning classifier to map and interpret interactions, a curated compendium of immunological combination treatment datasets, and their global integration into a landscape of ~30,000 interactions. The landscape is mined to reveal combinatorial control of interleukins, checkpoints, and other immune modulators. The resource helps elucidate the modulation of a stimulus by interactions with other cofactors, showing that TNF has strikingly different effects depending on co-stimulators. We discover new functional synergies between TNF and IFNβ controlling dendritic cell-T cell crosstalk. Analysis of laboratory or public combination treatment studies with this user-friendly web-based resource will help resolve the complex role of interaction effects on immune processes.
The effect of calcium supplement intake on lipid profile: a systematic review and meta-analysis of randomized controlled clinical trials

Abstract Despite the potential role of dietary calcium in fat excretion, the favorable effects of calcium supplements on lipid profile remains inconclusive. The current study aimed to review the effect of calcium supplement intake on lipid profile in randomized controlled clinical trials (RCTs). This systematic review and meta-analysis was conducted in PubMed, Scopus, Embase, and Central. RCTs which assessed the effects of calcium supplementation on lipid profile were included. All outcomes were recorded as continuous variables, and the effect size was measured. We classified studies according to dose of supplement, study duration, and dyslipidemia. Calcium supplement intake was associated with a significant reduction in low density lipoprotein cholesterol (LDL-C) level (WMD:-0.08; 95%CI:-0.16,-0.01)(mmol/l), especially with intakes of at least 1000 mg/day (WMD:-0.13; 95%CI:-0.23,-0.03)(mmol/l), with intakes of at least 12 weeks (WMD:-0.08; 95%CI: −0.16,-0.00)(mmol/l), and in individuals without dyslipidemia (WMD:-0.15; 95%CI:-0.26,-0.04)(mmol/l). Also, in another subgroup analysis, consumption of less than 1000 mg/day calcium supplement caused a significant increase in Total Cholesterol (TC) level (WMD: 0.24; 95%CI: 0.05,0.42) (mmol/l). In other blood lipids or study subgroups we observed no significant effect. We concluded that calcium supplements had a favorable effect on LDL-C level, especially in individuals without dyslipidemia, higher calcium intakes, and longer period of consumption.
Transcriptome-wide identification of WRKY family genes and their expression profiling toward salicylic acid in Camellia japonica

ABSTRACT The ornamental plant Camellia japonica is widely distributed worldwide and is susceptible to various environmental stresses. The WRKY transcription factor (TF) is an important node of plant tolerance. However, WRKY TFs from C. japonica have not been reported yet. In this study, 48 CjWRKYs, namely, CjWRKY1 to CjWRKY48, were identified. Protein structure analysis revealed that CjWRKY proteins contain a highly conserved motif (WRKYGQK) and two variant motifs (WRKYGKK and WRKYGRK). Phylogenetic analysis indicated that the 48 CjWRKYs can be divided into three groups, which are further classified into six subgroups, namely, I-C, II-a, II-b, II-c, II-e, and III, which contain 10, 6, 8, 13, 7, and 4 members, respectively. The expression patterns of 15 CjWRKYs under salicylic acid (SA) treatment were investigated by real-time quantitative PCR (qRT-PCR). Results showed that the 15 CjWRKYs could be induced by SA treatment. This study is the first to screen CjWRKYs and identify the expression profile of CjWRKYs under SA treatment and provides a theoretical basis for analyzing the function of CjWRKY genes to SA stress tolerance in C. japonica.
Sex differences in mental health among older adults: investigating time trends and possible risk groups with regard to age, educational level and ethnicity

Abstract Objectives Older women report lower mental health compared to men, yet little is known about the nature of this sex difference. Therefore, this study investigates time trends and possible risk groups. Method Data from the Doetinchem Cohort Study (DCS) and the Longitudinal Aging Study Amsterdam (LASA) were used. General mental health was assessed every 5 years, from 1995 to 1998 onwards (DCS, n = 1412, 20-year follow-up, baseline age 55–64 years). Depressive and anxiety symptoms were assessed for two birth cohorts, from 1992/1993 onwards (LASA cohort 1, n = 967, 24-year follow-up, age 55-65 years,) and 2002/2003 onwards (LASA cohort 2, n = 1002, 12-year follow-up, age 55–65 years) with follow-up measurements every 3–4 years. Results Mixed model analyses showed that older women had a worse general mental health (−6.95; −8.36 to 5.53; range 0–100, ∼10% lower), more depressive symptoms (2.09; 1.53–2.63; range 0-60, ∼30% more) and more anxiety symptoms (0.86; 0.54–1.18; range 0–11, ∼30% more) compared to men. These sex differences remained stable until the age of 75 years, where after they decreased due to an accelerated decline in mental health for men compared to women. Sex differences and their course by age were consistent over successive birth cohorts, educational levels and ethnic groups (Caucasian vs. Turkish/Moroccan). Conclusion There is a consistent female disadvantage in mental health across different sociodemographic groups and over decennia (1992 vs. 2002) with no specific risk groups.
Effect of penetration resistance, bulk density and moisture content of soil on selected yield components of winter triticale in relation to method of cultivation

Theinfluence of penetration resistance, bulk density and moisture content of soil on winter triticale crop yield was investigated. The crops were grown on land that had not been cultivated for several years, and two methods of cultivation were used: direct sowing and plough-based cultivation. Winter triticale crop yields did not differ significantly regardless of the method of cultivation. Analysis of the coefficients for multiple regression showed that winter triticale crop yield was most dependent on the mass of a thousand grains and the number of grains per ear in the case of plough-based cultivation. In the case of direct sowing, the mass of a thousand grains and the number of ears per 1 m 2 had a great influence on the crop yield. Negative partial regression coefficients were obtained for penetration resistance and bulk density of the soil, indicating their inverse relationship to the crop yield. Cano- nical analysis was used, allowing the determination of the range of effect of penetration resistance, bulk density and moisture content (independent variables) on selected components of winter triticale crop yield (dependent variables) relative to the method of culti- vation. The presented canonical analysis showed that the analysed components of the yield were 78% dependent on the three funda- mental physical parameters of the soil in the case of plough-based cultivation and 58% dependent in the case of direct sowing. In the case of plough-based cultivation, primarily the penetration resistan- ce and then the moisture content of the soil had the greatest influ- ence on the variability of the components of the crop yield. A high penetration resistance and a reduced moisture content caused a re- duction in the1000-seed weight. In the case of direct sowing, the moisture content of the soil affected the variability of the number of
In the last years there was an increasing interest in the development of environmentally friendly electrochemical

Here we demonstrate that an aqueous solution of the herbicide amitrole can be completely depolluted at pH 3.0 by anodic oxidation and electro-Fenton process. Anodic oxidation gives faster degradation with a boron- doped diamond anode than with a Pt anode. Electro- Fenton with a Pt anode and 1 mmol l �1 Fe 2+ as catalyst yields the quickest depollution. Amitrole decay always follows a pseudo first-order reaction. NO3 � and NH4 + are accumulated in the medium during mineralization, al- though volatile N-products are also formed. These envi- ronmentally friendly electrochemical treatments could be applied to the remediation of wastewaters containing amitrole.
Efficacy of three-dimensional conformal radiotherapy for 132 patients with esophageal carcinoma

Objective To evaluate the efficacy of three-dimensional conformal radiation therapy (3DCRT) for esophageal carcinoma and identify prognostic factors in this patient group.Methods From May 2002 to Jun 2005,132 patients with unresectable or inoperable esophageal cancer were treated with 3DCRT in our hospital.Their chnical data were analyzed retrospectively.ResultsThe 1-and 2-year local control rates was 65.4% and 52.1% in the whole group,respectively.The overall 1-and 2-year survival rate was 50.7% and 32.2% ,respectively.The median survival time was 13 months.The 1-and 2-year survival rate was 56.7%and 36.7% in stageⅠ + Ⅲ ,respectively,with 35.2% and 14.7% in stage IV.The median survival time were 15 months and 9 months for stage Ⅰ +Ⅲ and Ⅳ,respectively(x2 = 8.17,P = 0.004). Of patients with stage Ⅰ + Ⅲ disease who were absent of perforation sign before radiotherapy,with lesion length less than 8.0 cm and whole course given by 3DCRT,the 1-and 2-year survival rate was 73.0% and 49.9%,respectively.Univariate analysis revealed that condition of alimentation,absence of perforation sign, short lesion length,early TNM stage were associated with good survival.Multivariate analysis confirmed that absence of perforation sign and lesion length were independent prognostic factors for survival. Conclusions 3DCRT is effective for esophageal carcinomas in terms of survival and local control.Further improvement could be achieved with muhi-modality treatment.Absence of perforation sign and lesion length are independ ent prognostic factors for survival. Key words: Esophageal neoplasms/three-dimensional con_formal radiotherapy; Survival analysis; Prognosis
Performance Goals and Task Performance

Recent years have seen an increased interest in understanding how high-stakes evaluative contexts, which are pervasive in the academic arena, may influence crucial outcomes such as performance and achievement. The salience of grades, as well as the importance to distinguish oneself in the eyes of teachers to have access to valued diplomas, encourages the adoption of performance-approach goals (i.e., the desire to outperform others). Consistent with literature documenting the cognitive costs of high-pressure situations, recent findings have highlighted the detrimental consequences of performance-approach goals on availability of working memory resources, pointing at distraction as the cause of this phenomenon. We review and discuss this result in the light of the achievement goal literature. We then present both methodological and theoretical arguments to clarify and reconcile the apparent contradictions between this emerging evidence and the welldocumented positive impact of performance-approach goal pursuit on achievement in the classroom. Throughout, we highlight how the study of performance-approach goal-related interference has the potential to enrich our understanding of how evaluative contexts do generate
CFD Analysis and Wind Tunnel Experiment on a Typical Launch Vehicle Model

ABSTRACT In order to understand the physical phenomena of the wind flow over the typical launch vehicle, the flow was simulated using both Wind tunnel and Computational Fluid Dynamics (CFD). In the present study, tests were conducted on a 1:50 scaled model of a launch vehicle. The model was subjected to two wind conditions, wind flow normal to the shorter plan dimension θ = 0°, where the three main cylinders of the model were one behind the other and wind flow normal to the longer plan dimension, θ = 90°, where all the three main cylinders of the vehicle are subjected to direct wind pressure in the windward direction. Based on the CFD studies, the flow pattern and the force coefficients were derived. To validate these results, wind tunnel tests were carried out on a 1:50 scaled rigid and light-weight models respectively, for obtaining path lines and force coefficients. Results on streamlines obtained based on CFD simulation and wind tunnel experiments compared very well. The force coefficients in both directions were evaluated from CFD results showed good agreement with the corresponding measured values based on wind tunnel experiment.
System Identification in Gaussian Process Dynamical Systems

Inference and learning in linear dynamical systems have long been studied in signal processing, machine learning, and system theory for tracking, localization, and control. In the linear Gaussian case, closed form solutions to inference and learning, also called system identification, are known as the Kalman Filter. For nonlinear dynamical systems (NLDSs), inference and system identification typically require approximations, such as the Extended Kalman Filter (EKF).
Evaluating Transfer Learning for Macular Fluid Detection with Limited Data

The ability to transfer knowledge learned with large datasets to train classifiers where labeled data is scarce, has made transfer learning a prime step on deep learning applications. The availability of models pre-trained on large datasets makes possible to apply deep learning to a wide variety of computer aided diagnosis tasks including retinal image processing. However, with dozens of deep convolutional network architectures, choosing the right model for transfer learning is not a trivial task. While current art implies that the deeper the model the better, here we verified this assertion by fine-tuning a suite of deep convolutional network architectures on a scenario with limited resources. Contrary to what was expected, deeper architectures did not perform as well with limited data as with large datasets.
Research Article: Expression differences of interferon regulatory factor 3 and non-specific cytotoxic cell receptor protein-1 in grass carp (Ctenopharyngodon idella) after challenges with two genotypes of grass carp reovirus, and analysis of antiviral signaling pathways

Grass carp reovirus (GCRV), with high genetic diversity, seriously affects grass carp farming. Meanwhile, interferon regulatory factor 3 (IRF3) and non-specific cytotoxic cell receptor protein-1 (NCCRP-1) play crucial roles in immunity system of fish. In this paper, we took IRF3 and NCCRP-1 as molecular markers in order to explore the differences in immune responses of grass carp infected with different GCRV strains, which is helpful in better understanding of the GCRV pathogenesity. Accordingly, we analyzed the expression differences of IRF3 and NCCRP-1 in grass carp after challenges with GCRV GD108 (genotype III) and GCRV 096 (genotype I) by qRT-PCR. We found IRF3 and NCCRP-1 was up-regulated in all tested tissues after challenges of GCRV GD108 and GCRV 096. However, the expression levels of IRF3 and NCCRP-1 depended on the GCRV strain, and the up-regulation changes were qualitatively similar but quantitatively different after challenges of GCRV GD108 and GCRV 096, that is, NCCRP-1 was up-regulated more, earlier, and more broadly than IRF3 after GCRV challenge. Besides, the NCCRP-1 was more rapidly up-regulated to a greater extent after challenges with GCRV 096 than GCRV GD108. In order to clarify whether the antiviral immune response and development of grass carp hemorrhage in grass carp differed depending on GCRV genotypes needs more investigation. Moreover, we speculated that the GCRV-induced signaling pathways in grass carp were enriched with measlesand influenza A-induced signaling pathways, and found 13 types of new genes in the GCRV-induced signaling pathway.
Long-Term Combined Effects of Crude Oil and Dispersant on Sediment Bacterial Community

To better understand long-term combined effects of crude oil and dispersant on bacterial community, sediments microcosms were set up in triplicates and treated with dispersant (Corexit 9500A), crude oil, and Corexit 9500A plus crude oil. After 60 days exposure, there was a significant change in the bacterial community structure in all treatments. The shift in the bacterial community structure in Corexit 9500A plus crude oil treatment was considerably different from those by either Corexit 9500A or crude oil. DNA sequence analysis showed that Hydrocarboniphaga effuse, Parvibaculum lavamentivorans,and Alicyclobacillus ferrooxydans were the major bacterial species in crude oil treatment. Pandoraea thiooxydans, Janthinobacterium sp. and Hyphomicrobium nitrativorans were the most dominant species in Corexit 9500A treatment. The species Janthinobacterium sp. , Parvibaculum lavamentivorans, and Dyella sp. were enriched in Corexit 9500A plus crude oil treatment. The majority of the detected species were hydrocarbons degraders. The study showed that Corexit 9500A addition enhanced the biodegradation rate by increasing the diversity and richness of hydrocarbons degrading species. Corexit A9500 application should be considered during crude oil spills to evaluate environmental impacts.
Helicopter Control Using Fuzzy Logic and Narma-L2 Techniques

Helicopter instability is one of the most limitations that should be addressed in a nonlinear application. Accordingly, researchers are invited to design a robust and reliable controller to obtain a stable system and enhance its overall performance. The present study focuses on the use of the intelligent system in controlling the pitch and yaw angles. This lead to controlling the elevation and the direction of the helicopter. Further to the application of the Linear Quadratic Regulator (LQR) controller, this research implemented the Proportional Integral Derivative (PID), Fuzzy Logic Control (FLC), and Artificial Neural Network (ANN). The results show that FLC achieved a good controllability for both angles, particularly for the pitch angle in comparison to the nonlinear auto regressive moving average (NARMA-L2). Moreover, NARMA-L2 requires further improvement by using, for example, the swarm optimization method to provide better controllability. The PID controller, on the other hand, had a greater capability in controlling the yaw angle in comparison to the other controllers implemented. Accordingly, it is suggested that the integration of PID and FLC may lead to more optimal outcomes.
Homology Modeling of Salicyl-AMP ligase involved in Mycobacterium Tuberculosis

Tuberculosis (TB) is caused by Mycobacterium tuberculosis (strain ATCC 25618/H37Rv) that most often affect the lungs, but can also affect other parts of the body. A total of 1.5 million people died from TB in 2018 Worldwide. TB is spread from person to person through the air. The high prevalence of TB obligates the identification of new therapeutic targets and the development of anti TB vaccines that can control multidrug resistant and latent TB infection. Membrane protein has recently been suggested as key targets for bacterial viability. However, M. tuberculosis has a thick, waxy mycolic acid capsule that protects it from these toxic substances. Mycobacterium tuberculosis is able to reproduce inside the macrophage and will eventually kill the immune cell. Its treatments require the use of multiple antibiotics over long periods of time. Antibiotics resistance is a growing problem with increasing rates of multiple drug resistant tuberculosis (MDR-TB) and extensively drug resistant tuberculosis (XDR-TB). Subsequent work suggests that Salicyl-AMP ligase is involved in the initial steps of the mycobactin biosynthetic pathway. In the present study, we used different In-Silico tools and techniques which include retrieval of Salicyl-AMP ligase protein sequence from UniProt KB database and the sequence analysis was performed by using Protparam tool which concluded that the protein was unstable and basic in nature. The secondary structure was predicted by using PSI-PRED tool which indicated that the percentage of coils was higher than the percentage of alpha helix and extended strand. Then the 3D structure of Salicyl-AMP ligase was predicted by using SWISS MODEL server and the model was validated by using PROCHECK analysis tool. After validation of the model, the validation score was 90% indicating that the model was of good quality and the predicted 3D structure was deposited in protein model database (PMDB). Further study on Salicyl-AMP ligase protein can be carried out in molecular docking and in structure based drug designing (SBDD) to inhibit tuberculosis.
NENN: Incorporate Node and Edge Features in Graph Neural Networks

Graph neural networks (GNNs) have attracted an increasing attention in recent years. However, most existing state-of-the-art graph learning methods only focus on node features and largely ignore the edge features that contain rich information about graphs in modern applications. In this paper, we propose a novel model to incorporate N ode and E dge features in graph N eural N etworks (NENN) based on a hierarchical dual-level attention mechanism. NENN consists of node-level attention layer and edge-level attention layer. The two types of layers of NENN are alternately stacked to learn and aggregate embeddings for nodes and edges. Specifically, the node-level attention layer aims to learn the importance of the node based neighbors and edge based neighbors for each node, while the edge-level attention layer is able to learn the importance of the node based neighbors and edge based neighbors for each edge. Leveraging the proposed NENN, the node and edge embeddings can be mutually reinforced. Extensive experiments on academic citation and molecular networks have verified the effectiveness of our proposed graph embedding model.