AIMC Topic: Metabolic Networks and Pathways

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Metabolic pathway alterations in cerebrospinal fluid as diagnostic biomarkers for primary central nervous system lymphoma.

Clinica chimica acta; international journal of clinical chemistry May 19, 2025
Primary Central Nervous System Lymphoma (PCNSL) is a rare and aggressive type of hematological malignancy that can pose diagnostic challenges. Early detection is critical for effective treatment and better patient outcomes. The goal of this study was...
Lymphoma Metabolomics Metabolic Networks and Pathways Biomarkers, Tumor Male Central Nervous System Neoplasms Humans Female
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Integrative analysis of signaling and metabolic pathways, immune infiltration patterns, and machine learning-based diagnostic model construction in major depressive disorder.

Scientific reports Apr 19, 2025
Major depressive disorder (MDD) is a multifactorial disorder involving genetic and environmental factors, with unclear pathogenesis. This study aims to explore the pathogenic pathway of MDD and its relationship with immune responses and to discover i...
Humans Machine Learning Algorithms Gene Expression Profiling Computational Biology Signal Transduction Female Depressive Disorder, Major Databases, Genetic Metabolic Networks and Pathways
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An integrated AI knowledge graph framework of bacterial enzymology and metabolism.

Proceedings of the National Academy of Sciences of the United States of America Apr 7, 2025
The study of bacterial metabolism holds immense significance for improving human health and advancing agricultural practices. The prospective applications of genomically encoded bacterial metabolism present a compelling opportunity, particularly in t...
Computational Biology Metabolic Networks and Pathways Bacterial Proteins Artificial Intelligence Deep Learning Bacteria
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Bootstrap inference and machine learning reveal core differential plasma metabolic connectome signatures in major depressive disorder.

Journal of affective disorders Mar 3, 2025
BACKGROUND: Major depressive disorder (MDD) involves molecular alterations and pathway dysregulation. Metabolic interconnections are crucial for normal functioning, yet current analysis focuses on individual pathways or biomarkers, overlooking intric...
Metabolic Networks and Pathways Connectome Middle Aged Depressive Disorder, Major Metabolomics Metabolome Humans Case-Control Studies Female Adult Male Machine Learning Biomarkers
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Multilayered visual metabolomics analysis framework for enhanced exploration of functional components in wolfberry.

Food chemistry Feb 25, 2025
Wolfberry, regarded as a nutritious fruit, has garnered significant attention in the food industry due to potential health benefits. However, the tissue-specific distribution and dynamic accumulation patterns of nutritional metabolites such as flavon...
Metabolic Networks and Pathways Fruit Lycium Metabolomics Flavonoids
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Coupling flux balance analysis with reactive transport modeling through machine learning for rapid and stable simulation of microbial metabolic switching.

Scientific reports Feb 19, 2025
Integrating genome-scale metabolic networks with reactive transport models (RTMs) provides a detailed description of the dynamic changes in microbial growth and metabolism. Despite promising demonstrations in the past, computational inefficiency has ...
Metabolic Networks and Pathways Models, Biological Metabolic Flux Analysis Neural Networks, Computer Shewanella Machine Learning Computer Simulation
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Identification of biomarkers in Alzheimer's disease and COVID-19 by bioinformatics combining single-cell data analysis and machine learning algorithms.

PloS one Feb 18, 2025
BACKGROUND: Since its emergence in 2019, COVID-19 has become a global epidemic. Several studies have suggested a link between Alzheimer's disease (AD) and COVID-19. However, there is little research into the mechanisms underlying these phenomena. The...
Transcriptome Single-Cell Analysis Computational Biology Humans Metabolic Networks and Pathways Machine Learning Gene Regulatory Networks Biomarkers SARS-CoV-2 Gene Expression Profiling Alzheimer Disease COVID-19 Algorithms Gene Ontology
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Machine learning methods for predicting essential metabolic genes from Plasmodium falciparum genome-scale metabolic network.

PloS one Dec 23, 2024
Essential genes are those whose presence is vital for a cell's survival and growth. Detecting these genes in disease-causing organisms is critical for various biological studies, including understanding microbe metabolism, engineering genetically mod...
Genome, Protozoan Plasmodium falciparum Genes, Essential Machine Learning Metabolic Networks and Pathways Computational Biology
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Metabolic Fluxes Using Deep Learning Based on Enzyme Variations: .

International journal of molecular sciences Dec 13, 2024
Metabolic pathway modeling, essential for understanding organism metabolism, is pivotal in predicting genetic mutation effects, drug design, and biofuel development. Enhancing these modeling techniques is crucial for achieving greater prediction accu...
Deep Learning Metabolic Flux Analysis Glycolysis Models, Biological Metabolic Networks and Pathways Entamoeba histolytica
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A Multi-Omics, Machine Learning-Aware, Genome-Wide Metabolic Model of Bacillus Subtilis Refines the Gene Expression and Cell Growth Prediction.

Advanced science (Weinheim, Baden-Wurttemberg, Germany) Sep 17, 2024
Given the extensive heterogeneity and variability, understanding cellular functions and regulatory mechanisms through the analysis of multi-omics datasets becomes extremely challenging. Here, a comprehensive modeling framework of multi-omics machine ...
Machine Learning Gene Expression Bacillus subtilis Multiomics Models, Biological Metabolic Networks and Pathways
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