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Comparative Evaluation of Open-Source Bioinformatics Pipelines for Full-Length Viral Genome Assembly.
Viruses
November 2024
Institute of Biology, ELTE Eötvös Loránd University, 1117 Budapest, Hungary.
The increasingly widespread application of next-generation sequencing (NGS) in clinical diagnostics and epidemiological research has generated a demand for robust, fast, automated, and user-friendly bioinformatics workflows. To guide the choice of tools for the assembly of full-length viral genomes from NGS datasets, we assessed the performance and applicability of four open-source bioinformatics pipelines (shiver-for which we created a user-friendly Dockerized version, referred to as dshiver; SmaltAlign; viral-ngs; and V-pipe) using both simulated and real-world HIV-1 paired-end short-read datasets and default settings. All four pipelines produced consensus genome assemblies with high quality metrics (genome fraction recovery, mismatch and indel rates, variant calling F1 scores) when the reference sequence used for assembly had high similarity to the analyzed sample.
View Article and Find Full Text PDFPlant Cell Culture-Derived Saponin Adjuvant Enhances Immune Response Against a Stabilized Human Metapneumovirus Pre-Fusion Vaccine Candidate.
Vaccines (Basel)
December 2024
Johnson & Johnson, Janssen Vaccines & Prevention, 2333 CN Leiden, The Netherlands.
Unlabelled: Human metapneumovirus (HMPV) is a significant respiratory pathogen, particularly in vulnerable populations.
Background: No vaccine for the prevention of HMPV is currently licensed, although several subunit vaccines are in development. Saponin-based adjuvant systems (AS), including QS-21, have transformed the field of subunit vaccines by dramatically increasing their potency and efficacy, leading to the development of several licensed vaccines.
Development, Pre-Clinical Safety, and Immune Profile of RENOVAC-A Dimer RBD-Based Anti-Coronavirus Subunit Vaccine.
Vaccines (Basel)
December 2024
Center for Advanced Technologies, Tashkent 100174, Uzbekistan.
The development of effective and safe vaccines and their timely delivery to the public play a crucial role in preventing and managing infectious diseases. Many vaccines have been produced and distributed globally to prevent COVID-19 infection. However, establishing effective vaccine development platforms and evaluating their safety and immunogenicity remains critical to increasing health security, especially in developing countries.
View Article and Find Full Text PDFIdentifying the Gaps in Human Papillomavirus (HPV) Vaccine Uptake: An Exploratory Factor Analysis of Adults in Tennessee.
Vaccines (Basel)
December 2024
Department of Environmental, Agricultural & Occupational Health, College of Public Health, University of Nebraska Medical Center, Omaha, NE 68198, USA.
Human papillomavirus (HPV) remains the most prevalent sexually transmitted infection in the United States (U.S.).
View Article and Find Full Text PDFExtracting Optimal Number of Features for Machine Learning Models in Multilayer IoT Attacks.
Sensors (Basel)
December 2024
School of Engineering, Technology and Design, Canterbury Christ Church University, Canterbury CT1 1QU, UK.
The rapid integration of Internet of Things (IoT) systems in various sectors has escalated security risks due to sophisticated multilayer attacks that compromise multiple security layers and lead to significant data loss, personal information theft, financial losses etc. Existing research on multilayer IoT attacks exhibits gaps in real-world applicability, due to reliance on outdated datasets with a limited focus on adaptive, dynamic approaches to address multilayer vulnerabilities. Additionally, the complete reliance on automated processes without integrating human expertise in feature selection and weighting processes may affect the reliability of detection models.
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