| 1. |
- Danko, David, et al.
(author)
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A global metagenomic map of urban microbiomes and antimicrobial resistance
- 2021
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In: Cell. - : Elsevier BV. - 0092-8674 .- 1097-4172. ; 184:13, s. 3376-3393
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Journal article (peer-reviewed)abstract
- We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over 3 years, representing the first systematic, worldwide catalog of the urban microbial ecosystem. This atlas provides an annotated, geospatial profile of microbial strains, functional characteristics, antimicrobial resistance (AMR) markers, and genetic elements, including 10,928 viruses, 1,302 bacteria, 2 archaea, and 838,532 CRISPR arrays not found in reference databases. We identified 4,246 known species of urban microorganisms and a consistent set of 31 species found in 97% of samples that were distinct from human commensal organisms. Profiles of AMR genes varied widely in type and density across cities. Cities showed distinct microbial taxonomic signatures that were driven by climate and geographic differences. These results constitute a high-resolution global metagenomic atlas that enables discovery of organisms and genes, highlights potential public health and forensic applications, and provides a culture-independent view of AMR burden in cities.
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| 2. |
- Ezzat, Kariem, et al.
(author)
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PepFect 14, a novel cell-penetrating peptide for oligonucleotide delivery in solution and as solid formulation
- 2011
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In: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 39:12, s. 5284-5298
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Journal article (peer-reviewed)abstract
- Numerous human genetic diseases are caused by mutations that give rise to aberrant alternative splicing. Recently, several of these debilitating disorders have been shown to be amenable for splice-correcting oligonucleotides (SCOs) that modify splicing patterns and restore the phenotype in experimental models. However, translational approaches are required to transform SCOs into usable drug products. In this study, we present a new cell-penetrating peptide, PepFect14 (PF14), which efficiently delivers SCOs to different cell models including HeLa pLuc705 and mdx mouse myotubes; a cell culture model of Duchenne's muscular dystrophy (DMD). Non-covalent PF14-SCO nanocomplexes induce splice-correction at rates higher than the commercially available lipid-based vector Lipofectamine™ 2000 (LF2000) and remain active in the presence of serum. Furthermore, we demonstrate the feasibility of incorporating this delivery system into solid formulations that could be suitable for several therapeutic applications. Solid dispersion technique is utilized and the formed solid formulations are as active as the freshly prepared nanocomplexes in solution even when stored at an elevated temperatures for several weeks. In contrast, LF2000 drastically loses activity after being subjected to same procedure. This shows that using PF14 is a very promising translational approach for the delivery of SCOs in different pharmaceutical forms.
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| 3. |
- Ali El Hadi Mohamed, Rania, et al.
(author)
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First record of West Nile Virus detection inside wild mosquitoes in Khartoum capital of Sudan using PCR
- 2020
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In: Saudi Journal of Biological Sciences. - : Elsevier BV. - 1319-562X .- 2213-7106. ; 27:12, s. 3359-3364
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Journal article (peer-reviewed)abstract
- This study aimed to explore the presence of West Nile Virus (WNV) inside four species of mosquitoes: Culex univittatus (Theobald), Culex quinquefasciatus (Say) Aedes vittatus (Bigot) and Aedes vexans (Meigen). Adult wild mosquitoes were collected from different sites: Soba West, Hellat Kuku, Shambat, and Khartoum North Central Live Stock Market (KCLM). Surveys were carried out at Khartoum State during two phases: pre to the rainy season and post to the rainy season. Mosquito specimens were identified using classical keys then preserved at −80 °C freezer for two weeks till the virus examination using polymerase chain reaction (PCR) were carried out. WNV has been detected inside the three species of mosquitoes: A. vexans, C. univittatus, and C. quinquefasciatus. The species were collected from Hellat Kuku, (Shambat and Hellat Kuku), and (Shambat and KCLM) respectively. Two species of mosquitoes were positive for the virus: C. quinquefasciatus and C. univittatus. Positive results for the virus during the first phase of the study; males of C. quinquefasciatus and C. univittatus collected during the second phase of the study were also tested for the existence of the virus and they were positive. For our knowledge this study represents first record of WNV inside wild mosquitoes in Sudan. PCR technique provided reliable information because specific primer-probe sets were used for the detection of the virus. Extra studies are required to incriminate these species of mosquitoes as potential vectors of WNV.
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| 4. |
- Chernomoretz, Ariel, et al.
(author)
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The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report
- 2016
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In: Microbiome. - : Springer Science and Business Media LLC. - 2049-2618. ; 4
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Journal article (peer-reviewed)abstract
- The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium is a novel, interdisciplinary initiative comprised of experts across many fields, including genomics, data analysis, engineering, public health, and architecture. The ultimate goal of the MetaSUB Consortium is to improve city utilization and planning through the detection, measurement, and design of metagenomics within urban environments. Although continual measures occur for temperature, air pressure, weather, and human activity, including longitudinal, cross-kingdom ecosystem dynamics can alter and improve the design of cities. The MetaSUB Consortium is aiding these efforts by developing and testing metagenomic methods and standards, including optimized methods for sample collection, DNA/RNA isolation, taxa characterization, and data visualization. The data produced by the consortium can aid city planners, public health officials, and architectural designers. In addition, the study will continue to lead to the discovery of new species, global maps of antimicrobial resistance (AMR) markers, and novel biosynthetic gene clusters (BGCs). Finally, we note that engineered metagenomic ecosystems can help enable more responsive, safer, and quantified cities.
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| 5. |
- Elmeligy, Sahar, et al.
(author)
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Pharmaceutical manipulation of citrus flavonoids towards improvement of its bioavailability and stability. A mini review and a meta-analysis study
- 2021
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In: Food Bioscience. - : Elsevier BV. - 2212-4292 .- 2212-4306. ; 44
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Research review (peer-reviewed)abstract
- Citrus flavonoids are well recognized for their health benefits and contribution to daily nutritional dietary supplements. Their biological effects include anticancer, anti-inflammatory and antioxidant effects. Nevertheless, their low solubility, stability, and bioavailability challenge their potential industrial formulations. This review summarizes the state-of-the art optimization of citrus flavonoid formulations representing the possible physicochemical modifications and their potential implications. These modifications could be achieved using different techniques such as nanonization and encapsulation in nanoscale carriers. This review summarizes the recent research on chemical modifications of citrus flavonoids to facilitate their commercial use and or applications. Applications of these technologies are presented to the reader highlighting their advantages, limitations and needed future improvements. Furthermore, a meta-analysis study was conducted to prove-by-evidence the superiority of drugs-loaded nanocarriers regarding bioavailability compared to their conventionally delivered counterparts.
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| 6. |
- Hashim, Ahmed, et al.
(author)
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Pattern of novel psychoactive substance use among patients presented to the poison control centre of Ain Shams University Hospitals, Egypt : A cross-sectional study
- 2022
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In: Heliyon. - : Elsevier BV. - 2405-8440. ; 8:8
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Journal article (peer-reviewed)abstract
- Background: Novel psychoactive substances (NPSs) are relatively new substances in the illicit drug market, notpreviously listed in the United Nations Office on Drugs and Crime (UNDOC). Strox and Voodoo are consideredsome of the most popular blends of NPS in the Egyptian drug market.Objectives: The current study was conducted to assess NPS's use pattern: Voodoo and Strox among acutelyintoxicated patients presented to the poison control center of Ain Shams University Hospitals (PCC- ASUH).Methods: A single center based cross-sectional study was carried out in the PCC-ASUH among acutely intoxicatedpatients presenting to the emergency department (ED) over four months (from January–April 2019. using apreviously adopted and validated Fahmy and El-Sherbini socioeconomic scale (SES). Data were presented asmean, median and range as appropriate. Both smoking and crowding indexes were calculated and presented aspreviously reported.Results: Fifty-one patients were presented to the ED of PCC-ASUH during the study period. A total of 96.1% (n ¼49) were males. The mean age was 25 7.5 years. The most common NPS used was Strox: 54.9% (n ¼ 28),followed by Voodoo: 27.4% (n ¼ 14). Neurological and gastrointestinal (GI) symptoms were the most frequentpresentations. The most common motive behind NPS use was the desire to give a trial of new psychoactivesubstances. The mean SES score was 35.1 13.17. Most patients have the preparatory as the highest education36.0% (n ¼ 18).Conclusions: NPS use is common among young males in preparatory education from different social classes,starting it most commonly as a means to experiencing a new high. Neurological and GI manifestations are themost common presenting symptoms of NPS intoxication.
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| 7. |
- Mohamed, Nahla, et al.
(author)
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Prevalence and identification of arthropod-transmitted viruses in Kassala state, Eastern Sudan
- 2019
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In: Libyan Journal of Medicine. - : Taylor & Francis. - 1993-2820 .- 1819-6357. ; 14:1
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Journal article (peer-reviewed)abstract
- Vector-borne diseases are responsible for more than 20% of the infectious diseases worldwide. The prevalence of arboviruses transmit diseases to humans in Sudan has not been investigated. Mosquito-borne viral diseases increase globally incidence, including the Sudan. Frequent unknown fever outbreaks have been reported in eastern region, Sudan. However, diagnosis was based exclusively on clinical signs and symptoms without confirmatory laboratory investigations. However, for accurate detection of these viruses in outbreaks, molecular technique is considered. The objective of this study was to determine the prevalence of six arboviruses in the Kassala state of east Sudan during unknown fever outbreak. A cross sectional hospital-based study was conducted in the Kassala, Teaching Hospital. Blood samples from 119 patients suffering from unknown fever were used for screening of six arboviruses, hepatitis E virus and malarial using molecular techniques and serology. The overall arboviruses seroprevelance was 61.3% (73/119). The highest positivity rate was 73.1% (52/73) chikungunya virus; 29 males and 20 females patients were chikungunya positive. Other arboviruses were circulating in low rate 20.5% (15/73), and 6.8% (5/73) for sindbis and rift valley fever viruses respectively. Hepatitis E virus was negative in all cases and malaria positivity rate 13.4% (16/119). The prevalence of arboviruses among unknown fever patients present to Kassala teaching hospital of eastern region in Sudan is significantly high (61.3%). The chikungunya virus is the predominant causative agent of arboviruses. Molecular techniques such as PCR are important for accurate and rapid diagnosis of this viral outbreak.
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| 8. |
- Mustafa, Elfatih Mohammed, et al.
(author)
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Efficient CuO/Ag2WO4 photoelectrodes for photoelectrochemical water splitting using solar visible radiation
- 2023
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In: RSC Advances. - : ROYAL SOC CHEMISTRY. - 2046-2069. ; 13:17, s. 11297-11310
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Journal article (peer-reviewed)abstract
- Water splitting energy production relies heavily on the development of high-performance photoelectrochemical cells (PECs). Among the most highly regarded semiconductor materials, cupric oxide (CuO) is an excellent photocathode material. Pristine CuO does not perform well as a photocathode due to its tendency to recombine electrons and holes rapidly. Photocathodes with high efficiency can be produced by developing CuO-based composite systems. The aim of our research is to develop an Ag2WO4/CuO composite by incorporating silver tungstate (Ag2WO4) nanoparticles onto hydrothermally grown CuO nanoleaves (NLs) by successive ionic layer adsorption and reaction (SILAR). To prepare CuO/Ag2WO4 composites, SILAR was used in conjunction with different Ag2WO4 nanoparticle deposition cycles. Physicochemical characterization reveals well-defined nanoleaves morphologies with tailored surface compositions. Composite CuO/Ag2WO4 crystal structures are governed by the monoclinic phase of CuO and the hexagonal phase of Ag2WO4. It has been demonstrated that the CuO/Ag2WO4 composite has outstanding performance in the PEC water splitting process when used with five cycles. In the CuO/Ag2WO4 photocathode, water splitting activity is observed at low overpotential and high photocurrent density, indicating that the reaction takes place at low energy barriers. Several factors contribute to PEC performance in composites. These factors include the high density of surface active sites, the high charge separation rate, the presence of favourable surface defects, and the synergy of CuO and Ag2WO4 photoreaction. By using SILAR, silver tungstate can be deposited onto semiconducting materials with strong visible absorption, enabling the development of energy-efficient photocathodes.
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| 9. |
- Savoyant, A., et al.
(author)
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Light-induced high-spin state in ZnO nanoparticles
- 2020
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In: Nanotechnology. - : IOP PUBLISHING LTD. - 0957-4484 .- 1361-6528. ; 31:9
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Journal article (peer-reviewed)abstract
- The effects of white-light irradiation on similar to 15.nm diameter ZnO nanoparticles are investigated by means of electron paramagnetic resonance, near liquid-nitrogen and liquid-helium temperatures. Under dark conditions, usual core- and surface-defects are detected, respectively, at g = 1.960 and g = 2.003. Under white-light illumination, the core-defect signal intensity is strongly increased, which is to be correlated to the light-induced conductivitys augmentation. Beside, a four-lines structure appears, with the same gravity center as that of the surface defects. Simulations and intensity power-dependence measurements show that this four-line-structure is very likely to arise from a localized high spin S = 2, induced by light irradiation, and subjected to a weak axial anisotropy. At 85K, this high-spin state can last several hours after the light-irradiation removal, probably due to highly spin-forbidden recombination process. The possible excited resonant complexes at the origin of this signal are discussed. Other light-induced S = 1/2-like centers are detected as well, which depend on the nanoparticles growth conditions.
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| 10. |
- Singh, Jagmeet P., et al.
(author)
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Phased target trial design and meta-analysis in a head-to-head treatment comparison
- 2023
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In: Pharmacoepidemiology and Drug Safety. - : John Wiley & Sons. - 1053-8569 .- 1099-1557. ; 32:Suppl. 1, s. 444-444
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Journal article (other academic/artistic)abstract
- Background: For conditions with rare clinical outcomes, real-world treatment comparisons are challenging to design and prone to confounding.Objectives: To present a robust methodologic approach for rigorous and transparent assessment of rare outcomes using real-world data.Methods: We emulated a target trial using an active comparator, new-user design to compare dronedarone to sotalol for rhythm control in atrial fibrillation (AF) as both are recommended for similar patient phenotypes. Using one protocol, a pre-specified stepwise approach was implemented across 4 datasets (Optum CDM; IBM MarketScan; Veterans Affairs Electronic Health Records; Swedish National Patient Register). Meta-analysis was used to ensure sufficient capture of specific, rare primary outcomes (cardiovascular (CV) hospitalization and ventricular proarrhythmia) and to evaluate consistency of findings across patient populations. Steps 1–3 focused on cohort selection, propensity score matching (PSM), baseline equipoise and residual confounding assessment via negative control outcome analyses. In steps 4–6, outcomes in the individual cohorts were analyzed using an as-treated approach and Cox proportional hazards models. Step 7 included a heterogeneity assessment, meta-analysis using fixed effects models, and hypothesis testing using a hierarchical approach. In step 8, sensitivity analyses, including E-values and Inverse Probability of Censoring Weighting, were conducted to verify the robustness of findings.Results: In step 1, 35,467 sotalol and 27,955 dronedarone patients with AF who were antiarrhythmic drug-naive were identified across databases. In steps 2–3, 23,275 dronedarone patients were PS-matched to 23,275 sotalol patients. Baseline covariates were well-balanced and little-to-no residual confounding was observed via the negative control analyses. Individual HRs were estimated in steps 4–6, and, when no significant heterogeneity between databases was observed, hazard ratios (HRs) were pooled across datasets in step 7. For example, for CV hospitalization, dronedarone was superior to sotalol with no heterogeneity (HR: 0.91; 95% CI: 0.85, 0.97; Cochran Q p-value: 0.32). Eleven sensitivity analyses were conducted in step 8 and confirmed that findings were generally robust.Conclusions: An active comparator, new-user design using the target trial approach coupled with meta-analysis generated consistent findings across databases and countries using one protocol. Similar methods, including a pre-specified stepwise approach, negative control outcome, and tests for robustness should be considered for real-world studies where specific, rare outcomes need to be examined in a rigorous and transparent way.
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