CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations

Systemic analysis of available large-scale biological/biomedical data is critical for studying biological mechanisms, and developing novel and effective treatment approaches against diseases. However, different layers of the available data are produced using different technologies and scattered across individual computational resources without any explicit connections to each other, which hinders extensive and integrative multi-omics-based analysis. We aimed to address this issue by developing a new data integration/representation methodology and its application by constructing a biological data resource. CROssBAR is a comprehensive system that integrates large-scale biological/biomedical data from various resources and stores them in a NoSQL database. CROssBAR is enriched with the deep-learning-based prediction of relationships between numerous data entries, which is followed by the rigorous analysis of the enriched data to obtain biologically meaningful modules. These complex sets of entities and relationships are displayed to users via easy-to-interpret, interactive knowledge graphs within an open-access service. CROssBAR knowledge graphs incorporate relevant genes-proteins, molecular interactions, pathways, phenotypes, diseases, as well as known/predicted drugs and bioactive compounds, and they are constructed on-the-fly based on simple non-programmatic user queries. These intensely processed heterogeneous networks are expected to aid systems-level research, especially to infer biological mechanisms in relation to genes, proteins, their ligands, and diseases.     

Dual-Prevention for UV-Induced Skin Damage: Incorporation of Melatonin-Loaded Elastic Niosomes into Octyl Methoxycinnamate Pickering Emulsions

Incorporation of antioxidants into sunscreens is a logical approach, yet co-delivery of them with UV filters is a challenge. Here, we purposed a combination therapy, in which the chemical UV filter, octyl methoxycinnamate, was accumulated on upper skin while the antioxidant, melatonin, can penetrate deeper layers to show its effects. Melatonin-loaded elastic niosomes and octyl methoxycinnamate Pickering emulsion were prepared separately. Lyophilized elastic niosomes were dispersed into the Pickering emulsion to prepare the proposed combination formulation. The characterization studies of the formulations revealed that elastic niosomes can be prepared with tunable nanometer sizes, whereas Pickering emulsions can encapsulate the UV filter in micrometer-sized droplets. Melatonin-loaded elastic niosomes prepared with Tween80/Span80 mixture were 146 nm with a PI of 0.438, and 58.42% entrapment efficiency was achieved. The mean diameter size of the combination formulation was 27.8 μm. Ex vivo permeation studies revealed that 7.40% of octyl methoxycinnamate and 58% of melatonin were permeated through the rat skin while 27.6% octyl methoxycinnamate and 37% of melatonin accumulated in the skin after 24 h. Cell culture studies with real-time cell analyzer showed that the proposed formulation consist of melatonin-loaded elastic niosomes and octyl methoxycinnamate Pickering emulsion had no negative effect on the cell proliferation and viability. According to α,α-diphenyl-β-picrylhydrazyl free radical scavenging method, the proposed formulation showed as high antioxidant activity as melatonin itself. It is concluded that the proposed formulation would be a promising dual therapy for UV-induced skin damage with co-delivery strategy.     

Variation in Phosphorus Sorption with Soil Particle Size

Phosphorus (P) is considered a primary cause for surface water eutrophication that leads to anoxia. Understanding the relationships between soil particle size and P sorption helps devise effective best management practices (BMPs) to control P transport by erosion, leaching, and overland flow from agricultural land. Consequently, this study examined the effect of surface soil particle size on the sorption of P in five soil series (four Ultisols and one Entisol) from the Mid-Atlantic region. The sorption of P in each soil was assessed by equilibrating (after shaking for 24?h) 5?g soil containing varied amounts of KH₂PO₄ in 20?mL of 0.01?M KCl solution. Phosphorus in solution was determined by the molybdate blue method of Murphy and Riley. The P adsorption characteristics of these soils were described using the Langmuir isotherm. Results indicated that variability in P sorption was related to particle size and soil type. Soil organic matter content contributed a great deal to P sorption in the Entisol. However, soil clay had influence on the P sorption characteristics of each soil. The maximum P retentive capacities of soils (as determined by Sm from Langmuir equation) and P sorbed at 500?mg P kg^?1 addition showed a linear relationship (r2 = 0.94). Therefore, based on the results obtained, the single point method of Bache and Williams may be appropriate to describe the maximum P sorption capacity of non-sandy soils, as observed in this study.     

Sister chromatid exchange rate from pleural fluid cells in patients with malignant mesothelioma

This study assessed the impact of malignant mesothelioma on the frequencies of sister chromatid exchange (SCE) in the pleural effusion cells. Ten patients with mesothelioma and 20 control subjects were included in the study. The control subjects were the patients with tuberculosis pleurisy, and the remaining 10 subjects of control group were healthy volunteers and only heparinized blood samples were collected from these subjects. The pleural effusion cells were cultured with conventional culture methods. The samples were obtained from the patients after histopathologic confirmation of the malignancy but before the initiation of chemotherapy or radiotherapy. At the end of the culture period and 48 h prior the harvesting, BrdU was added into flasks. Totally, 100 metaphases were scored for each sample. In this study, we found that the SCE frequencies of malignant pleural mesotheliomas were significantly higher than the control subjects (P<0.001). Six of 10 patients came from central Anatolia, which is of great importance due to high rate of exposure to asbestosis in this region.     

Operational Perspectives on Extended Producer Responsibility

We revisit three important assumptions about extended producer responsibility (EPR) that originate from academia, policy, or practice: (1) A central objective of EPR should be to induce product designs for the environment; (2) collective EPR implementations mute incentives to design for the environment; and (3) more stringent EPR policy parameters will generate better environmental outcomes. We discuss the potential shortcomings of these assumptions from an operations perspective and their implications for academic and policy research.     

Nutrient and Microbial Dynamics in Biosolids Amended Soils Following Rainfall Simulation

Municipal waste treatment plants are mandated by U.S. EPA to treat domestic wastewater prior to releasing it to receiving streams. The dewatering and high temperature drying processes at the plant are considered effective in reducing microbial contaminants in the waste. The resulting solid material (biosolid) is rich in nutrients that may serve as a value-added product for plant growth. In this study, we examined the nutrient value of biosolids, their potential biological and chemical risks that could result from surface application to two Mid-Atlantic soils: Bojac (coarse-loamy, mixed, thermic Typic Hapludult) and Cullen (clayey, mixed, thermic Typic Hapludult). Soils were placed on tilt beds and packed to their respective bulk density. Biosolids were added at a rate of 2.24 Mg/ha equivalent and mixed with the top 5 cm of the soil bed. Simulated rain was applied at a rate of 65 mm h^?1 for 45 minutes. Surface runoff and percolation water were collected and analyzed for elemental content, Escherichia coli (E. coli) and total coliform bacteria. Among the nutrient elements of concern (P, Zn, Mn, and Cu) in biosolids, none were found to be higher than the specified EPA limits. The concentration of P was highest in runoff and percolation water from beds packed with Bojac and biosolids. The combined effects of high clay (35%), Al (1.14%), and Fe (5.11%) in Cullen increased its P-adsorbing capacity. Low levels of E. coli and other coliform bacteria were present in samples from biosolids-treated beds packed with Cullen. Microbial counts in runoff and percolation samples varied with soil type; in some instances they were ten-fold higher in Bojac than in Cullen. The results obtained in this study suggest that surface runoff from land applications of biosolids might contribute to microbial contamination of receiving waters near agricultural fields.     

Development of Seeded and Seedless Hypanthium of Rosa Canina After Application of Growth Substances

Dog rose (Rosa canina L.) plants in the bloom stages of flowering were sprayed by indole-3-acetic acid (IAA) in concentrations of 0.06 and 0.60 mM and gibberellic acid (GA₃) in concentrations of 0.60 and 1.50 mM. Ascorbic acid, total sugar, reducing sugar and carotenoid contents gradually increased, while the protein content remained unchanged and the content of phenolic substances decreased during hypanthium development. Ascorbic acid, total sugar, reducing sugar and carotenoid contents increased in hypanthium sprayed by GA₃ and IAA. However, IAA and GA₃ applications (except low concentrations) decreased contents of phenolic substances. IAA and GA applications might be a good way to produce the high quality hypanthium in R. canina.     

Investigation of the Efficacy of Lactobacillus rhamnosus GG in Infants With Cow’s Milk Protein Allergy: a Randomised Double-Blind Placebo-Controlled Trial

Probiotics and Antimicrobial Proteins - This investigation has been performed to show the efficacy of Lactobacillus rhamnosus GG (LGG) together with milk-free diet in patients with cow’s milk...