AIMC Topic: Gene Expression Profiling

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DeSide: A unified deep learning approach for cellular deconvolution of tumor microenvironment.

Proceedings of the National Academy of Sciences of the United States of America Nov 8, 2024
Cellular deconvolution via bulk RNA sequencing (RNA-seq) presents a cost-effective and efficient alternative to experimental methods such as flow cytometry and single-cell RNA-seq (scRNA-seq) for analyzing the complex cellular composition of tumor mi...
Humans Tumor Microenvironment Neoplasms Gene Expression Profiling Transcriptome Deep Learning Cell Line, Tumor Single-Cell Analysis RNA-Seq Sequence Analysis, RNA Gene Expression Regulation, Neoplastic
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Interpretable machine learning uncovers epithelial transcriptional rewiring and a role for Gelsolin in COPD.

JCI insight Nov 8, 2024
Transcriptomic analyses have advanced the understanding of complex disease pathophysiology including chronic obstructive pulmonary disease (COPD). However, identifying relevant biologic causative factors has been limited by the integration of high di...
Mice Disease Models, Animal Epithelial Cells Gelsolin Lung Gene Expression Profiling Transcriptome Gene Regulatory Networks Humans Machine Learning Female Pulmonary Disease, Chronic Obstructive Animals Male
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Machine Learning-enhanced Signature of Metastasis-related T Cell Marker Genes for Predicting Overall Survival in Malignant Melanoma.

Journal of immunotherapy (Hagerstown, Md. : 1997) Nov 7, 2024
In this study, we aimed to investigate disparities in the tumor immune microenvironment (TME) between primary and metastatic malignant melanoma (MM) using single-cell RNA sequencing (scRNA- seq ) and to identify metastasis-related T cell marker genes...
Melanoma Male Humans Tumor Microenvironment Gene Expression Profiling Machine Learning Biomarkers, Tumor Nomograms Prognosis T-Lymphocytes Neoplasm Metastasis Female
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The shared biomarkers and immune landscape in psoriatic arthritis and rheumatoid arthritis: Findings based on bioinformatics, machine learning and single-cell analysis.

PloS one Nov 7, 2024
OBJECTIVE: Psoriatic arthritis (PsA) and rheumatoid arthritis (RA) are the most common types of inflammatory musculoskeletal disorders that share overlapping clinical features and complications. The aim of this study was to identify shared marker gen...
Arthritis, Psoriatic Gene Regulatory Networks Arthritis, Rheumatoid Computational Biology Transcription Factors Machine Learning Humans Biomarkers Gene Expression Profiling Single-Cell Analysis
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Comprehensive Analysis of Immune Infiltration and Key Genes in Peri-Implantitis Using Bioinformatics and Molecular Biology Approaches.

Medical science monitor : international medical journal of experimental and clinical research Nov 6, 2024
BACKGROUND Peri-implantitis is the main cause of failure of implant treatment, and there is little research on its molecular mechanism. This study aimed to identify key biomarkers and immune infiltration of peri-implantitis using a bioinformatics met...
Databases, Genetic Gene Ontology Molecular Biology Peri-Implantitis Transcriptome Gene Regulatory Networks Computational Biology Support Vector Machine Humans Algorithms Biomarkers Gene Expression Profiling
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SFWN: A Novel Semi-Supervised Feature Weighted Neural Network for Gene Data Feature Learning and Mining With Graph Modeling.

IEEE journal of biomedical and health informatics Nov 6, 2024
Gene expression data can serve for analyzing the genes with changed expressions, the correlation between genes and the influence of different circumstance on gene activities. However, labeling a large number of gene expression data is laborious and t...
Computational Biology Databases, Genetic Supervised Machine Learning Data Mining Humans Neural Networks, Computer Algorithms Gene Expression Profiling
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Screening of CAD-related secretory genes associated with type II diabetes based on comprehensive bioinformatics analysis and machine learning.

BMC cardiovascular disorders Nov 5, 2024
BACKGROUND: Type II diabetes mellitus (T2DM) is strongly linked with a heightened risk of coronary artery disease (CAD). Exploring biological targets common to T2DM and CAD is essential for CAD intervention strategies.
Diabetes Mellitus, Type 2 Single-Cell Analysis Gene Regulatory Networks Genetic Predisposition to Disease Male Middle Aged Gene Expression Profiling Transcriptome Myocytes, Smooth Muscle Fibroblast Growth Factor 7 Computational Biology Databases, Genetic Coronary Artery Disease Myocytes, Cardiac Humans Machine Learning Female Aged
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Exploration of common pathogenesis and candidate hub genes between HIV and monkeypox co-infection using bioinformatics and machine learning.

Scientific reports Nov 4, 2024
This study explored the pathogenesis of human immunodeficiency virus (HIV) and monkeypox co-infection, identifying candidate hub genes and potential drugs using bioinformatics and machine learning. Datasets for HIV (GSE 37250) and monkeypox (GSE 2412...
Humans Machine Learning Mpox, Monkeypox Computational Biology Gene Ontology Gene Expression Profiling Transcription Factors HIV Infections MicroRNAs Protein Interaction Maps Coinfection Gene Regulatory Networks
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Identification and validation of interferon-stimulated gene 15 as a biomarker for dermatomyositis by integrated bioinformatics analysis and machine learning.

Frontiers in immunology Nov 4, 2024
BACKGROUND: Dermatomyositis (DM) is an autoimmune disease that primarily affects the skin and muscles. It can lead to increased mortality, particularly when patients develop associated malignancies or experience fatal complications such as pulmonary ...
Gene Regulatory Networks Computational Biology Biopsy Molecular Docking Simulation Humans Skin Dermatomyositis Gene Expression Profiling Machine Learning Gene Expression Regulation Case-Control Studies Cytokines Molecular Targeted Therapy ROC Curve Biomarkers Ubiquitins
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Identification of novel markers for neuroblastoma immunoclustering using machine learning.

Frontiers in immunology Nov 4, 2024
BACKGROUND: Due to the unique heterogeneity of neuroblastoma, its treatment and prognosis are closely related to the biological behavior of the tumor. However, the effect of the tumor immune microenvironment on neuroblastoma needs to be investigated,...
Biomarkers, Tumor Male Infant Gene Expression Profiling Gene Expression Regulation, Neoplastic Humans Transcriptome Cluster Analysis Machine Learning Child, Preschool Female Neuroblastoma Child Tumor Microenvironment Computational Biology
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