Identification of virulence factors (VFs) is critical for expanding our knowledge on bacterial pathogenesis and also for developing targeted strategies for the prevention and treatment of related infectious diseases. Understanding virulence factors r...
Journal of chemical information and modeling
Nov 17, 2025
Predicting protein function from its primary sequence is a fundamental challenge in computational biology. While deep learning has excelled, the optimal representation of sequence data remains an open question. This study explores protein sonificatio...
Recent advances in Artificial Intelligence have enabled multi-modal systems to model and translate diverse information spaces. Extending beyond text and vision, we introduce OneProt, a multi-modal Deep Learning model for proteins that integrates stru...
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...
BACKGROUND: Predicting protein structural similarity and detecting homologous sequences remain fundamental and challenging tasks in computational biology. Accurate identification of structural homologs enables function inference for newly discovered ...
Statistical applications in genetics and molecular biology
Jul 1, 2025
The transformer model for sequence mining has brought a paradigmatic shift to many domains, including biological sequence mining. However, transformers suffer from quadratic complexity, i.e., O( ), where is the sequence length, which affects the tra...
Identifying DNA-binding proteins and their binding residues is critical for understanding diverse biological processes, but conventional experimental approaches are slow and costly. Existing machine learning methods, while faster, often lack accuracy...
IEEE journal of biomedical and health informatics
Apr 4, 2025
In the Internet of Medical Things (IoMT), de novo peptide sequencing prediction is one of the most important techniques for the fields of disease prediction, diagnosis, and treatment. Recently, deep-learning-based peptide sequencing prediction has be...
Computer methods and programs in biomedicine
Mar 30, 2025
BACKGROUND AND OBJECTIVE: Protein-protein interactions (PPIs) play the key roles in myriad biological processes, helping to understand the protein function and disease pathology. Identification of PPIs and their interaction types through wet experime...
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