AIMC Topic: Protein Interaction Maps

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Identification of genetic indicators linked to immunological infiltration in idiopathic pulmonary fibrosis.

Medicine
This study employed bioinformatics to investigate potential molecular markers associated with idiopathic pulmonary fibrosis (IPF) and examined their correlation with immune-infiltrating cells. Microarray data for IPF were retrieved from the Gene Expr...

Negative sampling strategies impact the prediction of scale-free biomolecular network interactions with machine learning.

BMC biology
BACKGROUND: Understanding protein-molecular interaction is crucial for unraveling the mechanisms underlying diverse biological processes. Machine learning (ML) techniques have been extensively employed in predicting these interactions and have garner...

Diagnostic biomarkers and immune infiltration profiles common to COVID-19, acute myocardial infarction and acute ischaemic stroke using bioinformatics methods and machine learning.

BMC neurology
BACKGROUND: COVID-19 is a disease that affects people globally. Beyond affecting the respiratory system, COVID-19 patients are at an elevated risk for both venous and arterial thrombosis. This heightened risk contributes to an increased probability o...

A Multi-Modal Graph Neural Network Framework for Parkinson's Disease Therapeutic Discovery.

International journal of molecular sciences
Parkinson's disease (PD) is a complex neurodegenerative disorder lacking effective disease-modifying treatments. In this study, we integrated large-scale protein-protein interaction networks with a multi-modal graph neural network (GNN) to identify a...

Identification of Hub Genes and Key Pathways Associated with Sepsis Progression Using Weighted Gene Co-Expression Network Analysis and Machine Learning.

International journal of molecular sciences
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...

Study on the mechanism of action of the active ingredient of Calculus Bovis in the treatment of sepsis by integrating single-cell sequencing and machine learning.

Medicine
BACKGROUND: Sepsis, a complex inflammatory condition with high mortality rates, lacks effective treatments. This study explores the therapeutic mechanisms of Calculus Bovis in sepsis using network pharmacology and RNA sequencing.

Unlocking protein networks with Predictomes: The SPOC advantage.

Molecular cell
In this issue of Molecular Cell, Schmid and Walter present "Predictomes," a machine-learning-based platform that utilizes AlphaFold-Multimer (AF-M) to identify high-confidence protein-protein interactions (PPIs). Their SPOC classifier is better than ...

Identification of biomarkers associated with inflammatory response in Parkinson's disease by bioinformatics and machine learning.

PloS one
Parkinson's disease (PD) is a common and debilitating neurodegenerative disorder. The inflammatory response is essential in the pathogenesis and progression of PD. The goal of this study is to combine bioinformatics and machine learning to screen for...

Exploring shared pathogenic mechanisms and biomarkers in hepatic fibrosis and inflammatory bowel disease through bioinformatics and machine learning.

Frontiers in immunology
BACKGROUND: The coexistence of hepatic fibrosis (HF) and inflammatory bowel disease (IBD) represents a significant clinical concern due to their poorly characterized shared pathogenic mechanisms. Current limitations in identifying common biomarkers f...

Identification and validation of shared biomarkers and drug repurposing in psoriasis and Crohn's disease: integrating bioinformatics, machine learning, and experimental approaches.

Frontiers in immunology
BACKGROUND: Psoriasis and Crohn's disease (CD) are chronic inflammatory diseases that involve complex immune-mediated mechanisms. Despite clinical overlap and shared genetic predispositions, the molecular pathways connecting these diseases remain inc...