Biomedical ontologies, such as Gene Ontology (GO), Disease Ontology (DO), and the Human Phenotype Ontology (HPO), have been extensively applied to characterize molecular roles and their semantic relationships in biomedical research and clinical pract...
BACKGROUND AND OBJECTIVE: The Gene Ontology (GO) project has been pivotal in providing a structured framework for characterizing genes and annotating them to specific biological concepts. While traditional gene annotation primarily focuses on mapping...
Protein function prediction is a fundamental cornerstone in bioinformatics, providing critical insights into biological processes and disease mechanisms. Despite significant advances, challenges persist due to data sparsity and functional ambiguity. ...
Atherosclerosis (AS) is a complex cardiovascular disease associated with mitochondrial dysfunction (MD), which contributes to plaque formation and instability. This study explores the relationship and shared risk factors between the pathogenesis of A...
The interpretation of proteomics data often relies on functional enrichment analysis, such as Gene Ontology (GO) enrichment, to uncover the biological functions of proteins, as well as the examination of protein expression patterns across data sets l...
Diabetes mellitus (DM) is a chronic metabolic disorder that poses significant challenges to public health. Among its various complications, diabetic nephropathy (DN) emerges as a critical microvascular complication associated with high mortality rate...
Detecting protein complexes is crucial in computational biology for understanding cellular mechanisms and facilitating drug discovery. Evolutionary algorithms (EAs) have proven effective in uncovering protein complexes within networks of protein-prot...
International journal of molecular sciences
May 7, 2025
Sepsis is a life-threatening condition driven by dysregulated immune responses, resulting in organ dysfunction and high mortality rates. Identifying key genes and pathways involved in sepsis progression is crucial for improving diagnostic and therape...
SUMMARY: Currently available and frequently used tools for annotating antibiotic resistance genes (ARGs) in genomes and metagenomes provide results using inconsistent nomenclature. This makes the comparison of different ARG annotation outputs challen...
MOTIVATION: Understanding the protein sequence-function relationship is essential for advancing protein biology and engineering. However, <1% of known protein sequences have human-verified functions. While deep-learning methods have demonstrated prom...
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