INTRODUCTION: Aptamers refer to short ssDNA/RNA sequences that target small molecules, proteins, or cells. Aptamers have significantly advanced diagnostic applications, including biosensors for detecting specific biomarkers, state-of-the-art imaging,...
Journal of computational biology : a journal of computational molecular cell biology
Oct 10, 2024
Understanding gene regulatory networks (GRNs) is crucial for elucidating cellular mechanisms and advancing therapeutic interventions. Original methods for GRN inference from bulk expression data often struggled with the high dimensionality and inhere...
Interdisciplinary sciences, computational life sciences
Oct 9, 2024
The concurrent use of multiple drugs may result in drug-drug interactions, increasing the risk of adverse reactions. Hence, it is particularly crucial to propose computational methods for precisely identifying unknown drug-drug interactions, which is...
Based on bioinformatics and machine learning methods, we conducted a study to screen the core genes of minimal change disease (MCD) and further explore its pathogenesis. First, we obtained the chip data sets GSE108113 and GSE200828 from the Gene Expr...
Ecotoxicology and environmental safety
Oct 9, 2024
Osteoporosis (OP), a metabolic disorder predominantly impacting postmenopausal women, has seen considerable progress in diagnosis and treatment over the past few decades. However, the intricate interplay between genetic factors and endocrine disrupto...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 9, 2024
Due to the great successes of Graph Neural Networks (GNN) in numerous fields, growing research interests have been devoted to applying GNN to molecular learning tasks. The molecule structure can be naturally represented as graphs where atoms and bond...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 9, 2024
As a series of single-stranded RNAs, circRNAs have been implicated in numerous diseases and can serve as valuable biomarkers for disease therapy and prevention. However, traditional biological experiments demand significant time and effort. Therefore...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 9, 2024
A novel framework for designing the molecular structure of chemical compounds with a desired chemical property has recently been proposed. The framework infers a desired chemical graph by solving a mixed integer linear program (MILP) that simulates t...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 9, 2024
Accurate prediction of Drug-Target binding Affinity (DTA) is a daunting yet pivotal task in the sphere of drug discovery. Over the years, a plethora of deep learning-based DTA models have emerged, rendering promising results in predicting the binding...
IEEE/ACM transactions on computational biology and bioinformatics
Oct 9, 2024
Discovering the novel associations of biomedical entities is of great significance and can facilitate not only the identification of network biomarkers of disease but also the search for putative drug targets.Graph representation learning (GRL) has i...