AIMC Topic: Gene Expression Profiling

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Unique and shared transcriptomic signatures underlying localized scleroderma pathogenesis identified using interpretable machine learning.

JCI insight Apr 8, 2025
Using transcriptomic profiling at single-cell resolution, we investigated cell-intrinsic and cell-extrinsic signatures associated with pathogenesis and inflammation-driven fibrosis in both adult and pediatric patients with localized scleroderma (LS)....
Female Adult Single-Cell Analysis Humans Machine Learning RNA-Seq Scleroderma, Systemic Scleroderma, Localized Transcriptome Male Case-Control Studies Middle Aged Adolescent Gene Expression Profiling Child
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Combining multi-omics analysis with machine learning to uncover novel molecular subtypes, prognostic markers, and insights into immunotherapy for melanoma.

BMC cancer Apr 7, 2025
BACKGROUND: Melanoma (SKCM) is an extremely aggressive form of cancer, characterized by high mortality rates, frequent metastasis, and limited treatment options. Our study aims to identify key target genes and enhance the diagnostic accuracy of melan...
Multiomics Gene Expression Regulation, Neoplastic Mutation Prognosis Transcriptome Cell Line, Tumor Female Immunotherapy Melanoma Skin Neoplasms Humans Machine Learning Tumor Microenvironment Biomarkers, Tumor Gene Expression Profiling
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Machine learning of clinical phenotypes facilitates autism screening and identifies novel subgroups with distinct transcriptomic profiles.

Scientific reports Apr 5, 2025
Autism spectrum disorder (ASD) presents significant challenges in diagnosis and intervention due to its diverse clinical manifestations and underlying biological complexity. This study explored machine learning approaches to enhance ASD screening acc...
Cluster Analysis Autistic Disorder Gene Expression Profiling Transcriptome Child Autism Spectrum Disorder Female Male Machine Learning Phenotype Humans
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Identification of thyroid cancer biomarkers using WGCNA and machine learning.

European journal of medical research Apr 5, 2025
OBJECTIVE: The incidence of thyroid cancer (TC) is increasing in China, largely due to overdiagnosis from widespread screening and improved ultrasound technology. Identifying precise TC biomarkers is crucial for accurate diagnosis and effective treat...
Gene Regulatory Networks Gene Expression Regulation, Neoplastic Humans Gene Expression Profiling Thyroid Neoplasms Machine Learning Biomarkers, Tumor
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MIST: An interpretable and flexible deep learning framework for single-T cell transcriptome and receptor analysis.

Science advances Apr 4, 2025
Joint analysis of transcriptomic and T cell receptor (TCR) features at single-cell resolution provides a powerful approach for in-depth T cell immune function research. Here, we introduce a deep learning framework for single-T cell transcriptome and ...
COVID-19 SARS-CoV-2 T-Lymphocytes Gene Expression Profiling Humans Lung Neoplasms Receptors, Antigen, T-Cell Immunotherapy CD8-Positive T-Lymphocytes Transcriptome Deep Learning Single-Cell Analysis Chemokine CXCL13
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Identification and validation of HOXC6 as a diagnostic biomarker for Ewing sarcoma: insights from machine learning algorithms and experiments.

Frontiers in immunology Apr 4, 2025
INTRODUCTION: Early diagnosis of Ewing sarcoma (ES) is critical for improving patient prognosis. However, the accurate diagnosis of ES remains challenging, underscoring the need for novel diagnostic biomarkers to enhance diagnostic precision and reli...
Gene Expression Regulation, Neoplastic Biomarkers, Tumor Cell Proliferation Humans Bone Neoplasms Gene Expression Profiling Cell Movement Homeodomain Proteins Machine Learning Cell Line, Tumor Sarcoma, Ewing Reproducibility of Results
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Identification of Crohn's Disease-Related Biomarkers and Pan-Cancer Analysis Based on Machine Learning.

Mediators of inflammation Apr 4, 2025
: In recent years, the incidence of Crohn's disease (CD) has shown a significant global increase, with numerous studies demonstrating its correlation with various cancers. This study aims to identify novel biomarkers for diagnosing CD and explore the...
Neoplasms Gene Expression Profiling Support Vector Machine Humans Machine Learning Crohn Disease Biomarkers Biomarkers, Tumor
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Mitigating ambient RNA and doublets effects on single cell transcriptomics analysis in cancer research.

Cancer letters Apr 3, 2025
In cancer biology, where understanding the tumor microenvironment at high resolution is vital, ambient RNA contamination becomes a considerable problem. This hinders accurate delineation of intratumoral heterogeneity, complicates the identification o...
Humans Tumor Microenvironment Biomarkers, Tumor Neoplasms Single-Cell Analysis Computational Biology Gene Expression Profiling RNA-Seq Gene Expression Regulation, Neoplastic Transcriptome
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5-Repurposed Drug Candidates Identified in Motor Neurons and Muscle Tissues with Amyotrophic Lateral Sclerosis by Network Biology and Machine Learning Based on Gene Expression.

Neuromolecular medicine Apr 3, 2025
Amyotrophic lateral sclerosis (ALS) is a progressive neurodegenerative disorder that leads to motor neuron degeneration, muscle weakness, and respiratory failure. Despite ongoing research, effective treatments for ALS are limited. This study aimed to...
Muscle, Skeletal Drug Repositioning Amyotrophic Lateral Sclerosis Gene Expression Profiling Motor Neurons Humans Transcriptome Machine Learning Gene Regulatory Networks
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Integrating multiple spatial transcriptomics data using community-enhanced graph contrastive learning.

PLoS computational biology Apr 3, 2025
Due to the rapid development of spatial sequencing technologies, large amounts of spatial transcriptomic datasets have been generated across various technological platforms or different biological conditions (e.g., control vs. treatment). Spatial tra...
Databases, Genetic Machine Learning Gene Expression Profiling Algorithms Humans Transcriptome Computational Biology
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