AIMC Topic: Computational Biology
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Eight quick tips for biologically and medically informed machine learning.
PLoS computational biology
Jan 9, 2025
Machine learning has become a powerful tool for computational analysis in the biomedical sciences, with its effectiveness significantly enhanced by integrating domain-specific knowledge. This integration has give rise to informed machine learning, in...
Multi-region infectious disease prediction modeling based on spatio-temporal graph neural network and the dynamic model.
PLoS computational biology
Jan 9, 2025
Human mobility between different regions is a major factor in large-scale outbreaks of infectious diseases. Deep learning models incorporating infectious disease transmission dynamics for predicting the spread of multi-regional outbreaks due to human...
Developing machine-learning-based amyloidogenicity predictors with Cross-Beta DB.
Alzheimer's & dementia : the journal of the Alzheimer's Association
Jan 8, 2025
INTRODUCTION: The importance of protein amyloidogenesis, associated with various diseases and functional roles, has driven the creation of computational predictors of amyloidogenicity. The accuracy of these predictors, particularly those utilizing ar...
Multi‑omics identification of a novel signature for serous ovarian carcinoma in the context of 3P medicine and based on twelve programmed cell death patterns: a multi-cohort machine learning study.
Molecular medicine (Cambridge, Mass.)
Jan 8, 2025
BACKGROUND: Predictive, preventive, and personalized medicine (PPPM/3PM) is a strategy aimed at improving the prognosis of cancer, and programmed cell death (PCD) is increasingly recognized as a potential target in cancer therapy and prognosis. Howev...
Deciphering hub genes and immune landscapes related to neutrophil extracellular traps in rheumatoid arthritis: insights from integrated bioinformatics analyses and experiments.
Frontiers in immunology
Jan 8, 2025
BACKGROUND: Rheumatoid arthritis (RA) is a chronic autoimmune disease characterized by synovial inflammation and progressive joint destruction. Neutrophil extracellular traps (NETs), a microreticular structure formed after neutrophil death, have rece...
Comprehensive bioinformatics analysis identifies metabolic and immune-related diagnostic biomarkers shared between diabetes and COPD using multi-omics and machine learning.
Frontiers in endocrinology
Jan 8, 2025
BACKGROUND: Diabetes and chronic obstructive pulmonary disease (COPD) are prominent global health challenges, each imposing significant burdens on affected individuals, healthcare systems, and society. However, the specific molecular mechanisms suppo...
NRGCNMDA: Microbe-Drug Association Prediction Based on Residual Graph Convolutional Networks and Conditional Random Fields.
Interdisciplinary sciences, computational life sciences
Jan 7, 2025
The process of discovering new drugs related to microbes through traditional biological methods is lengthy and costly. In response to these issues, a new computational model (NRGCNMDA) is proposed to predict microbe-drug associations. First, Node2vec...
SProtFP: a machine learning-based method for functional classification of small ORFs in prokaryotes.
NAR genomics and bioinformatics
Jan 7, 2025
Small proteins (≤100 amino acids) play important roles across all life forms, ranging from unicellular bacteria to higher organisms. In this study, we have developed SProtFP which is a machine learning-based method for functional annotation of prokar...
Deep Learning Approaches for the Prediction of Protein Functional Sites.
Molecules (Basel, Switzerland)
Jan 7, 2025
Knowing which residues of a protein are important for its function is of paramount importance for understanding the molecular basis of this function and devising ways of modifying it for medical or biotechnological applications. Due to the difficulty...
Uncovering the epigenetic regulatory clues of PRRT1 in Alzheimer's disease: a strategy integrating multi-omics analysis with explainable machine learning.
Alzheimer's research & therapy
Jan 7, 2025
BACKGROUND: Alzheimer's disease (AD) is a complex neurodegenerative disorder with a largely unexplored epigenetic landscape.
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