AIMC Topic: Gene Regulatory Networks

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Reconstructing Molecular Networks by Causal Diffusion Do-Calculus Analysis with Deep Learning.

Advanced science (Weinheim, Baden-Wurttemberg, Germany) Oct 23, 2024
Quantifying molecular regulations between genes/molecules causally from observed data is crucial for elucidating the molecular mechanisms underlying biological processes at the network level. Presently, most methods for inferring gene regulatory and ...
Computational Biology Mendelian Randomization Analysis Deep Learning Gene Regulatory Networks Humans Algorithms
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Machine learning-based identification and validation of immune-related biomarkers for early diagnosis and targeted therapy in diabetic retinopathy.

Gene Oct 18, 2024
The early diagnosis of diabetic retinopathy (DR) is challenging, highlighting the urgent need to identify new biomarkers. Immune responses play a crucial role in DR, yet there are currently no reports of machine learning (ML) algorithms being utilize...
Molecular Targeted Therapy Support Vector Machine Bayes Theorem Early Diagnosis Molecular Docking Simulation Gene Expression Profiling Gene Regulatory Networks Humans Algorithms Biomarkers Diabetic Retinopathy Machine Learning
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Identification and Analysis of Potential Biomarkers Associated with Neutrophil Extracellular Traps in Cervicitis.

Biochemical genetics Oct 17, 2024
Early diagnosis of cervicitis is important. Previous studies have found that neutrophil extracellular traps (NETs) play pro-inflammatory and anti-inflammatory roles in many diseases, suggesting that they may be involved in the inflammation of the ute...
Neural Networks, Computer Machine Learning Biomarkers Female Humans Adult Neutrophils Gene Expression Profiling Uterine Cervicitis Transcriptome Gene Regulatory Networks Extracellular Traps
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"Dictionary of immune responses" reveals the critical role of monocytes and the core target IRF7 in intervertebral disc degeneration.

Frontiers in immunology Oct 17, 2024
BACKGROUND: Intervertebral disc degeneration (IDD) is widely regarded as the primary contributor to low back pain(LBP). As an immune-privileged organ, upon the onset of IDD, various components of the nucleus pulposus (NP) are exposed to the host's im...
Mice Computational Biology Animals Monocytes Gene Expression Profiling Humans Nucleus Pulposus Gene Regulatory Networks Intervertebral Disc Degeneration Machine Learning Interferon Regulatory Factor-7 Cytokines
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Identification of novel biomarkers for atherosclerosis using single-cell RNA sequencing and machine learning.

Mammalian genome : official journal of the International Mammalian Genome Society Oct 14, 2024
Atherosclerosis (AS) is a predominant etiological factor in numerous cardiovascular diseases, with its associated complications such as myocardial infarction and stroke serving as major contributors to worldwide mortality rates. Here, we devised depe...
Animals Gene Expression Profiling Single-Cell Analysis Gene Regulatory Networks Humans Machine Learning Biomarkers Collagen Type I Mice Collagen Type I, alpha 1 Chain Sequence Analysis, RNA Atherosclerosis
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Assessing prospective molecular biomarkers and functional pathways in severe asthma based on a machine learning method and bioinformatics analyses.

The Journal of asthma : official journal of the Association for the Care of Asthma Oct 12, 2024
BACKGROUND: Severe asthma, which differs significantly from typical asthma, involves specific molecular biomarkers that enhance our understanding and diagnostic capabilities. The objective of this study is to assess the biological processes underlyin...
Databases, Genetic Machine Learning Gene Ontology Biomarkers Severity of Illness Index Gene Regulatory Networks Humans Asthma Gene Expression Profiling Computational Biology
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Integrated analysis of gene expressions and targeted mirnas for explaining crosstalk between oral and esophageal squamous cell carcinomas through an interpretable machine learning approach.

Medical & biological engineering & computing Oct 10, 2024
This study explores the bidirectional relation of esophageal squamous cell carcinoma (ESCC) and oral squamous cell carcinoma (OSCC), examining shared risk factors and underlying molecular mechanisms. By employing random forest (RF) classifier, enhanc...
Mouth Neoplasms Esophageal Neoplasms Esophageal Squamous Cell Carcinoma Gene Expression Regulation, Neoplastic Databases, Genetic MicroRNAs Humans Machine Learning Gene Regulatory Networks Computational Biology Carcinoma, Squamous Cell Gene Expression Profiling
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From Noise to Knowledge: Diffusion Probabilistic Model-Based Neural Inference of Gene Regulatory Networks.

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...
Humans Neural Networks, Computer Single-Cell Analysis Gene Regulatory Networks Software Algorithms Computational Biology Models, Genetic Models, Statistical
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Shared diagnostic genes and potential mechanisms between polycystic ovary syndrome and recurrent miscarriage revealed by integrated transcriptomics analysis and machine learning.

Frontiers in endocrinology Sep 27, 2024
OBJECTIVE: More and more studies have found that polycystic ovary syndrome (PCOS) is significantly associated with recurrent spontaneous abortion (RSA), but the specific mechanism is not yet clear.
Abortion, Habitual Machine Learning Gene Expression Profiling Computational Biology Humans Pregnancy Transcriptome Databases, Genetic Female Gene Regulatory Networks Polycystic Ovary Syndrome
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SSCI: Self-Supervised Deep Learning Improves Network Structure for Cancer Driver Gene Identification.

International journal of molecular sciences Sep 26, 2024
The pathogenesis of cancer is complex, involving abnormalities in some genes in organisms. Accurately identifying cancer genes is crucial for the early detection of cancer and personalized treatment, among other applications. Recent studies have used...
Oncogenes Computational Biology Humans Gene Expression Regulation, Neoplastic Supervised Machine Learning Deep Learning Neural Networks, Computer ROC Curve Neoplasms Gene Regulatory Networks
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