Proceedings of the National Academy of Sciences of the United States of America
Sep 23, 2025
Convergent evolution, or convergence, refers to repeated, independent emergences of the same trait in two or more lineages of species during evolution, often indicating functional adaptation to specific environmental factors. Many computational metho...
The identification of bitter peptides is crucial in various domains, including food science, drug discovery, and biochemical research. These peptides not only contribute to the undesirable taste of hydrolyzed proteins but also play key roles in physi...
Journal of chemical information and modeling
Sep 18, 2025
With the increasing discovery of peptide sequences and the growing demand for peptide-targeted drugs, traditional wet-lab experiment methods have become inadequate for peptide function prediction due to their high cost and that they are time consumin...
Journal of chemical information and modeling
Sep 4, 2025
Phytocystatins are proteinaceous inhibitors found in plants that competitively target various classes of cysteine proteinases, including papain-like enzymes, cathepsins, and legumains. Based on structural characteristics and gene organization, phytoc...
Journal of chemical information and modeling
Aug 29, 2025
Antimicrobial Peptides (AMPs) are a promising strategy to address bacterial resistance, yet only a limited number have advanced to clinical trials. Recent advances in deep learning provide new opportunities for AMP design. Here, we propose an integra...
International journal of food microbiology
Aug 18, 2025
Foodborne pathogens such as Bacillus cereus threaten food safety, necessitating novel antimicrobial solutions. Antimicrobial peptides (AMPs) offer broad-spectrum activity and potential applications in food preservation. In this study, we designed a l...
Journal of computer-aided molecular design
Aug 9, 2025
Cyclic peptides, prized for their remarkable bioactivity and stability, hold great promise across various fields. Yet, designing membrane-penetrating bioactive cyclic peptides via traditional methods is complex and resource-intensive. To address this...
Inferring protein function is a fundamental and long-standing problem in biology. Laboratory experiments in this field are often expensive, and therefore large-scale computational protein inference from readily available amino acid sequences is neede...
Accurate prediction of the functional impact of missense variants is important for disease gene discovery, clinical genetic diagnostics, therapeutic strategies, and protein engineering. Previous efforts have focused on predicting a binary pathogenici...
BACKGROUND: Accurate prediction of allergens is essential for identifying the sources of allergic reactions and preventing future exposure to harmful triggers; however, the limited performance of current prediction tools hinders their practical appli...
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