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Significant populations in tropical and sub-tropical locations all over the world are severely impacted by a group of neglected tropical diseases called leishmaniases. This disease is caused by roughly 20 species of the protozoan parasite from the genus. Disease prevention strategies that include early detection, vector control, treatment of affected individuals, and vaccination are all essential. The diagnosis is critical for selecting methods of therapy, preventing transmission of the disease, and minimizing symptoms so that the affected individual can have a better quality of life. Nevertheless, the diagnostic methods do eventually have limitations, and there is no established gold standard. Some disadvantages include the existence of cross-reactions with other species, and limited sensitivity and specificity, which are mostly determined by the type of antigen used to perform the tests. A viable alternative for a more precise diagnosis is the application of recombinant antigens, which have been generated using bioinformatics approaches and have shown increased diagnostic accuracy. This approach proves valuable as it spans from epitope selection to predicting the interactions within the antibody-antigen complex through docking analysis. As a result, identifying potential new antigens using bioinformatics resources becomes an effective technique since it may result in an earlier and more accurate diagnosis. Consequently, the primary aim of this review is to conduct a comprehensive overview of the most significant in silico tools developed over time, with a focus on evaluating their efficacy and exploring their potential applications in optimizing the selection of highly specific molecules for a more effective diagnosis of leishmaniasis.
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http://dx.doi.org/10.3390/molecules29225259 | DOI Listing |
J Microbiol Biol Educ
September 2025
University of California Riverside, Riverside, California, USA.
DNA literacy is becoming increasingly essential for navigating healthcare, understanding pandemics, and engaging with biotechnology-yet genomics education remains limited at the secondary level of education. We present a modular, hands-on curriculum designed for high school and early undergraduate students (ages 14-21) that introduces key genomics concepts through an experiment on fermentation, a process that is key to food preservation and medicine. Students follow a complete scientific process: exploring what DNA is and how microbial succession works, analyzing real DNA sequencing data, and writing a formal scientific report.
View Article and Find Full Text PDFBrief Bioinform
August 2025
State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, No. 2 Yuanmingyuan West Road, Haidian District, Beijing 100193, China.
The systematic identification of human-virus protein-protein interactions (PPIs) is a critical step toward elucidating the underlying mechanisms of viral infection, directly informing the development of targeted interventions against existing and emerging viral threats. In this work, we presented DeepGNHV, an end-to-end framework that integrated a pretrained protein language model with structural features derived from AlphaFold2 and leveraged graph attention networks to predict human-virus PPIs. In comparison to other state-of-the-art approaches, DeepGNHV exhibited superior predictive performance, especially when applied to viral proteins absent from the training process, indicating its strong generalization capability for detecting newly emerging virus-related PPIs.
View Article and Find Full Text PDFBrief Bioinform
August 2025
College of Pharmacy, Chongqing Medical University, No. 1 Yixueyuan Road, Yuzhong District, Chongqing 400016, P. R. China.
Drug-induced hepatotoxicity (DIH), characterized by diverse phenotypes and complex mechanisms, remains a critical challenge in drug discovery. To systematically decode this diversity and complexity, we propose a multi-dimensional computational framework integrating molecular structure analysis with disease pathogenesis exploration, focusing on drug-induced intrahepatic cholestasis (DIIC) as a representative DIH subtype. First, a graph-based modularity maximization algorithm identified DIIC risk genes, forming a DIIC module and eight disease pathogenesis clusters.
View Article and Find Full Text PDFBrief Funct Genomics
January 2025
School of Mathematics and Statistics, Henan University of Science and Technology, No. 263 Kaiyuan Avenue, Luolong District, Luoyang, Henan 471000, China.
Background: Comorbidities and genetic correlations between gastrointestinal tract diseases and psychiatric disorders have been widely reported, but the underlying intrinsic link between Alzheimer's disease (AD) and inflammatory bowel disease (IBD) is not adequately understood.
Methods: To identify pathogenic cell types of AD and IBD and explore their shared genetic architecture, we developed Pathogenic Cell types and shared Genetic Loci (PCGL) framework, which studied AD and IBD and its two subtypes of ulcerative colitis (UC) and Crohn's disease (CD).
Results: We found that monocytes and CD8 T cells were the enriched pathogenic cell types of AD and IBDs, respectively.
Invest Ophthalmol Vis Sci
September 2025
Eye Center, The Second Affiliated Hospital, School of Medicine, Zhejiang University, Zhejiang Provincial Key Laboratory of Ophthalmology. Zhejiang Provincial Clinical Research Center for Eye Diseases, Zhejiang Provincial Engineering Institute on Eye Diseases, Hangzhou, People's Republic of China.
Purpose: Evidence on the association between visceral obesity and diabetic retinopathy (DR) remains sparse and debatable. We aimed to use three novel indicators, body roundness index (BRI), lipid accumulation product (LAP), and visceral adiposity index (VAI), to investigate the longitudinal relationship between visceral obesity and DR, and explore the potential metabolic mechanisms.
Methods: In this prospective study based on the UK Biobank (UKB), 14,738 individuals with diabetes free of DR at baseline were included.