AIMC Topic: Computational Biology
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Identification of glucocorticoid-related genes in systemic lupus erythematosus using bioinformatics analysis and machine learning.
PloS one
Mar 25, 2025
BACKGROUND: Systemic lupus erythematosus (SLE) is a complex autoimmune disease that has significant impacts on patients' quality of life and poses a substantial economic burden on society.
CasPro-ESM2: Accurate identification of Cas proteins integrating pre-trained protein language model and multi-scale convolutional neural network.
International journal of biological macromolecules
Mar 22, 2025
Cas proteins (CRISPR-associated protein) are the core components of the CRISPR-Cas system, playing critical roles in defending against foreign DNA and RNA invasions. Identifying Cas proteins can provide deeper insights into the immune mechanisms of t...
Pan-cancer analysis of CDC7 in human tumors: Integrative multi-omics insights and discovery of novel marine-based inhibitors through machine learning and computational approaches.
Computers in biology and medicine
Mar 22, 2025
Cancer remains a significant global health challenge, with the Cell Division Cycle 7 (CDC7) protein emerging as a potential therapeutic target due to its critical role in tumor proliferation, survival, and resistance. However, a comprehensive analysi...
Bioinformatics and machine learning approaches to explore key biomarkers in muscle aging linked to adipogenesis.
BMC musculoskeletal disorders
Mar 22, 2025
Adipogenesis is intricately linked to the onset and progression of muscle aging; however, the relevant biomarkers remain unclear. This study sought to identify key genes associated with adipogenesis in the context of muscle aging. Firstly, gene expre...
Deep-ProBind: binding protein prediction with transformer-based deep learning model.
BMC bioinformatics
Mar 22, 2025
Binding proteins play a crucial role in biological systems by selectively interacting with specific molecules, such as DNA, RNA, or peptides, to regulate various cellular processes. Their ability to recognize and bind target molecules with high speci...
Assessment for antibiotic resistance in : A practical and interpretable machine learning model based on genome-wide genetic variation.
Virulence
Mar 21, 2025
() antibiotic resistance poses a global health threat. Accurate identification of antibiotic resistant strains is essential for the control of infection. In the present study, our goal is to leverage the whole-genome data of to develop practical an...
TopEC: prediction of Enzyme Commission classes by 3D graph neural networks and localized 3D protein descriptor.
Nature communications
Mar 20, 2025
Tools available for inferring enzyme function from general sequence, fold, or evolutionary information are generally successful. However, they can lead to misclassification if a deviation in local structural features influences the function. Here, we...
Compressed Representation of Extreme Learning Machine with Self-Diffusion Graph Denoising Applied for Dissecting Molecular Heterogeneity.
Journal of computational biology : a journal of computational molecular cell biology
Mar 19, 2025
Molecular heterogeneity exists in many biological systems, such as major malignancies or diverse cell populations. Clustering of gene expression profiles has been widely used to dissect molecular heterogeneity. One drawback common to most clustering ...
Multitask learning model for predicting non-coding RNA-disease associations: Incorporating local and global context.
Methods (San Diego, Calif.)
Mar 18, 2025
Long non-coding RNAs (lncRNAs) and microRNAs (miRNAs) are crucial non-coding RNAs involved in various diseases. Understanding these interactions is vital for advancing diagnostic, preventive, and therapeutic strategies. Existing computational methods...
ListPred: A predictive ML tool for virulence potential and disinfectant tolerance in Listeria monocytogenes.
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases
Mar 18, 2025
Despite current surveillance and sanitation strategies, foodborne pathogens continue to threaten the food industry and public health. Whole genome sequencing (WGS) has reached an unprecedented resolution to analyse and compare pathogenic bacterial is...
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