-
Briefings in Bioinformatics Mar 2024Predicting protein function is crucial for understanding biological life processes, preventing diseases and developing new drug targets. In recent years, methods based...
Predicting protein function is crucial for understanding biological life processes, preventing diseases and developing new drug targets. In recent years, methods based on sequence, structure and biological networks for protein function annotation have been extensively researched. Although obtaining a protein in three-dimensional structure through experimental or computational methods enhances the accuracy of function prediction, the sheer volume of proteins sequenced by high-throughput technologies presents a significant challenge. To address this issue, we introduce a deep neural network model DeepSS2GO (Secondary Structure to Gene Ontology). It is a predictor incorporating secondary structure features along with primary sequence and homology information. The algorithm expertly combines the speed of sequence-based information with the accuracy of structure-based features while streamlining the redundant data in primary sequences and bypassing the time-consuming challenges of tertiary structure analysis. The results show that the prediction performance surpasses state-of-the-art algorithms. It has the ability to predict key functions by effectively utilizing secondary structure information, rather than broadly predicting general Gene Ontology terms. Additionally, DeepSS2GO predicts five times faster than advanced algorithms, making it highly applicable to massive sequencing data. The source code and trained models are available at https://github.com/orca233/DeepSS2GO.
Topics: Proteins; Algorithms; Neural Networks, Computer; Protein Structure, Secondary; Computational Biology; Databases, Protein; Gene Ontology; Sequence Analysis, Protein; Software
PubMed: 38701416
DOI: 10.1093/bib/bbae196 -
Journal of Medical Radiation Sciences Jun 2024Health care and research are increasingly mandating consumer involvement in the planning, design and evaluation of services, quality projects and research. The editorial...
Health care and research are increasingly mandating consumer involvement in the planning, design and evaluation of services, quality projects and research. The editorial reviews the Australian progress with accreditation processes in research and provides practical direction in an area that is unfamiliar to many researchers and clinicians.
Topics: Australia; Community Participation; Humans; Accreditation
PubMed: 38530044
DOI: 10.1002/jmrs.782 -
BMJ Open Jul 2023Smartphone and social media use is prevalent during adolescence, with high levels of use associated with lower levels of mental well-being. Secondary schools in the UK... (Observational Study)
Observational Study
Smartphones, social Media and Adolescent mental well-being: the impact of school policies Restricting dayTime use-protocol for a natural experimental observational study using mixed methods at secondary schools in England (SMART Schools Study).
INTRODUCTION
Smartphone and social media use is prevalent during adolescence, with high levels of use associated with lower levels of mental well-being. Secondary schools in the UK have introduced policies that restrict daytime use of smartphones and social media, but there is no evaluation on the impact of these policies on adolescent mental well-being. The SMART Schools Study aims to determine the impact of daytime restrictions of smartphone and social media use on indicators of adolescent mental well-being, anxiety, depression, physical activity, sleep, classroom behaviour, attainment and addictive social media use.
METHODS AND ANALYSIS
This is a natural experimental observational study using mixed methods. Secondary schools within a 100 mile radius of the recruiting centre in the West Midlands (UK) have been categorised into two groups: Schools that restrict (intervention) and permit (comparator) daytime use of smartphones. We aim to recruit 30 schools (20 restrictive, 10 permissive) and 1170 pupils aged 12-13 and 14-15 years. We will collect data on mental well-being, anxiety and depressive symptoms, phone and social media use, sleep and physical activity from pupil surveys, and accelerometers. Policy implementation measures and data on individual pupil factors will be collected through school staff surveys, and website/policy analysis. Six case study schools will explore individual, school and family/home factors that influence relationships between school smartphone policies, smartphone/social media use, and mental well-being. Economic evaluation will be completed through a cost-consequence analysis from an education sector perspective.
ETHICS AND DISSEMINATION
Ethical approval was obtained from the University of Birmingham's Research Ethics Committee (ERN_22-0723). Parents/carers of pupil participants can complete a form to opt their child out of the study. Pupil, school staff and parent/carer participants are asked to complete online/written consent (or assent). Findings will be disseminated through policy briefings, resources for schools, social media, reports, and open access publications.
TRIAL REGISTRATION NUMBER
ISRCTN77948572.
Topics: Adolescent; Child; Humans; England; Policy; Schools; Smartphone; Social Media
PubMed: 37407051
DOI: 10.1136/bmjopen-2023-075832 -
Heliyon Feb 2024This paper reviews the chemical behaviour of glass polyalkenoate (glass-ionomer) dental cements, both conventional and resin-modified, in contact with natural tissues,... (Review)
Review
OBJECTIVES
This paper reviews the chemical behaviour of glass polyalkenoate (glass-ionomer) dental cements, both conventional and resin-modified, in contact with natural tissues, with the aim of determining whether these materials can be considered to be bioactive.
DATA
Relevant papers describing the behaviour of bioactive glasses and ceramics, and glass-ionomer (glass polyalkenoate) cements have been identified using PubMed and Science Direct. This has allowed a comparison to be made between the behaviour of glass-ionomers and the speciality glasses and ceramics that are widely classified as bioactive, a designation considered valid for over fifty years. More recent papers concerning bioactive metals and polymers have also been studied and both and studies are included.
SOURCES
Have included general papers on the chemistry and biological behaviour of bioactive glasses and ceramics, as well as papers on glass-ionomers dealing with (i) ion release, (ii) bonding to the surface of teeth, (iii) influence on surrounding pH and (iv) interaction with bone.
CONCLUSION
The literature shows that glass-ionomers (glass polyalkenoates) have three types of behaviour that are similar to those of bioactive glasses as follows: Formation of direct bonds to living tissue (teeth and bones) without fibrous capsule; release of biologically beneficial ions; and change of the local pH. However, in tests, they do not cause calcium phosphate to precipitate from solutions of simulated body fluid, SBF. Despite this, studies show that, in patients, glass-ionomers interact chemically with hard tissues and this suggests that may indeed be considered bioactive.
PubMed: 38352767
DOI: 10.1016/j.heliyon.2024.e25239 -
Frontiers in Public Health 2024
Topics: Humans; Malaria; Global Health; Disease Eradication
PubMed: 38915746
DOI: 10.3389/fpubh.2024.1433213 -
Nanomaterials (Basel, Switzerland) Nov 2023Complex-structured polymeric microparticles hold significant promise as an advance in next-generation medicine mostly due to demand from developing targeted drug...
Complex-structured polymeric microparticles hold significant promise as an advance in next-generation medicine mostly due to demand from developing targeted drug delivery. However, the conventional methods for producing these microparticles of defined size, shape, and sophisticated composition often face challenges in scalability, reliance on specialized components such as micro-patterned templates, or limited control over particle size distribution and cargo (functional payload) release kinetics. In this study, we introduce a novel and reliably scalable approach for manufacturing microparticles of defined structures and sizes with variable parameters. The concept behind this method involves the deposition of a specific number of polymer layers on a substrate with low surface energy. Each layer can serve as either the carrier for cargo or a programmable shell-former with predefined permeability. Subsequently, this layered structure is precisely cut into desired-size blanks (particle precursors) using a laser. The manufacturing process is completed by applying heat to the substrate, which results in sealing the edges of the blanks. The combination of the high surface tension of the molten polymer and the low surface energy of the substrate enables the formation of discrete particles, each possessing semi-spherical or other designed geometries determined by their internal composition. Such anisotropic microparticles are envisaged to have versatile applications.
PubMed: 37999330
DOI: 10.3390/nano13222976 -
PLoS Pathogens Jul 2023Coxiella burnetii is a Gram-negative intracellular pathogen that causes the debilitating disease Q fever, which affects both animals and humans. The only available human...
Coxiella burnetii is a Gram-negative intracellular pathogen that causes the debilitating disease Q fever, which affects both animals and humans. The only available human vaccine, Q-Vax, is effective but has a high risk of severe adverse reactions, limiting its use as a countermeasure to contain outbreaks. Therefore, it is essential to identify new drug targets to treat this infection. Macrophage infectivity potentiator (Mip) proteins catalyse the folding of proline-containing proteins through their peptidyl prolyl cis-trans isomerase (PPIase) activity and have been shown to play an important role in the virulence of several pathogenic bacteria. To date the role of the Mip protein in C. burnetii pathogenesis has not been investigated. This study demonstrates that CbMip is likely to be an essential protein in C. burnetii. The pipecolic acid derived compounds, SF235 and AN296, which have shown utility in targeting other Mip proteins from pathogenic bacteria, demonstrate inhibitory activities against CbMip. These compounds were found to significantly inhibit intracellular replication of C. burnetii in both HeLa and THP-1 cells. Furthermore, SF235 and AN296 were also found to exhibit antibiotic properties against both the virulent (Phase I) and avirulent (Phase II) forms of C. burnetii Nine Mile Strain in axenic culture. Comparative proteomics, in the presence of AN296, revealed alterations in stress responses with H2O2 sensitivity assays validating that Mip inhibition increases the sensitivity of C. burnetii to oxidative stress. In addition, SF235 and AN296 were effective in vivo and significantly improved the survival of Galleria mellonella infected with C. burnetii. These results suggest that unlike in other bacteria, Mip in C. burnetii is required for replication and that the development of more potent inhibitors against CbMip is warranted and offer potential as novel therapeutics against this pathogen.
Topics: Animals; Humans; Peptidylprolyl Isomerase; Coxiella burnetii; Bacterial Proteins; Hydrogen Peroxide; Q Fever; Bacteria; Macrophages
PubMed: 37399210
DOI: 10.1371/journal.ppat.1011491 -
Fundamental Research Jan 2024This paper gives a definition of the Industrial Internet and expounds on the academic connotation of the future Industrial Internet. From this foundation, we outline the... (Review)
Review
This paper gives a definition of the Industrial Internet and expounds on the academic connotation of the future Industrial Internet. From this foundation, we outline the development and current status of the Industrial Internet in China and globally. Moreover, we detail the avant-garde paradigms encompassed within the National Natural Science Foundation of China (NSFC)'s "Future Industrial Internet Fundamental Theory and Key Technologies" research plan and its corresponding management strategies. This research initiative endeavors to enhance interdisciplinary collaborations, aiming for a synergistic alignment of industry, academia, research, and practical implementations. The primary focus of the research plan is on the pivotal scientific challenges inherent to the future industrial internet. It is poised to traverse the "first mile", encompassing foundational research and pioneering innovations specific to the industrial internet, and seamlessly bridges to the "last mile", ensuring the effective commercialization of scientific and technological breakthroughs into tangible industrial market applications. The anticipated contributions from this initiative are projected to solidify both the theoretical and practical scaffolding essential for the cultivation of a globally competitive industrial internet infrastructure in China.
PubMed: 38933842
DOI: 10.1016/j.fmre.2023.06.017 -
Environmental Science and Pollution... Aug 2023Countries' sectors are currently under great scrutiny for their response to the greenhouse gas (GHG) emission profile and the general effect of the sectoral activities...
Countries' sectors are currently under great scrutiny for their response to the greenhouse gas (GHG) emission profile and the general effect of the sectoral activities on the environment. As in the agenda of all sectors, environmental concerns and investigations are of high importance in shipping and maritime transport. Amidst the rising forms of globalization, the need for sustainable transportation is constantly increasing. However, the machines that are the cornerstone of transportation largely depend on fossil fuels, thus resulting in environmental degradation. Notably, environmental-related degradation has continued to account for global warming, climate change, and ocean acidification. Shipping is considered the most environmentally friendly mode of transportation in terms of carbon dioxide (CO) emissions per ton per mile of transported unit load when compared against road transportation. In this study, six ferry lines (FLs) of Washington State Ferries were calculated to compare ship-generated carbon dioxide (CO) emissions with those from road transportation as if the carried vehicles had used the highway instead of transport by FL. While making these calculations, the Greatest Integer function (GIF) and Trozzi and Vaccaro function (TVF) were utilized. From the examined three scenarios, i.e., all passengers travel by car instead of ferry as scenario 1, all ferries carry both cars and passengers as scenario 2, and all car-free passengers travel by bus instead of ferry as scenario 3, the outlined results are as follows: (i) none of the cars were carried by the ferry, and car-free passengers preferred traveling by their own cars as observed in scenario 1; (ii) hypothetical scenarios (1 to 3) in which the road vehicles carried on FLs had instead used the highway, and the total potential CO emissions of these road vehicles were calculated as 2,638,858.138, 704,958.2998, and 1,394,148.577 tonnes per year, respectively. Policy-wise, this study revealed the management strategies for CO emissions reduction for two transport modes, shipping and road transportation, under current conditions.
Topics: Vehicle Emissions; Carbon Dioxide; Washington; Hydrogen-Ion Concentration; Seawater; Transportation; Air Pollutants
PubMed: 37378729
DOI: 10.1007/s11356-023-28281-7 -
The Lancet Regional Health. Southeast... Nov 2023Globally 20 Neglected tropical diseases (NTDs) are prioritized by World Health Organization (WHO), of which 15 are present in the South-East Asia Region (SEAR) with all... (Review)
Review
UNLABELLED
Globally 20 Neglected tropical diseases (NTDs) are prioritized by World Health Organization (WHO), of which 15 are present in the South-East Asia Region (SEAR) with all 11 countries being affected. As the region bears 54% of the global burden, "Finishing the task of eliminating neglected tropical diseases and other diseases on the verge of elimination" was identified as a regional flagship priority in 2014 with focus on lymphatic filariasis (LF), kala-azar, yaws, trachoma, and leprosy. Intensified efforts have been made to raise and sustain political commitment and momentum among partners innovate tools, interventions and strategies to accelerate elimination, and establish the process and support countries to accelerate and validate achievement of elimination targets. Seven countries have verified or validated for having eliminated at least one NTD since 2016, including yaws, LF and trachoma. Between 2010 and 2020, the number of people requiring interventions against NTDs in the South-East Asia Region reduced by 20%. The priorities in the next decade are to strengthen last-mile efforts to eliminate identified NTDs, sustain it and to use the lessons learnt to eliminate other NTDs.
FUNDING
None.
PubMed: 38028173
DOI: 10.1016/j.lansea.2023.100302