AIMC Topic: Transcriptome
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Deciphering the role of cuproptosis in the development of intimal hyperplasia in rat carotid arteries using single cell analysis and machine learning techniques.
Scientific reports
Feb 12, 2025
UNLABELLED: This study aims to explore the regulatory role of cuproptosis in carotid intimal hyperplasia (IH), providing new insights into its pathophysiological mechanisms and potential diagnostic and therapeutic strategies.
Interpretable deep learning of single-cell and epigenetic data reveals novel molecular insights in aging.
Scientific reports
Feb 11, 2025
Deep learning (DL) and explainable artificial intelligence (XAI) have emerged as powerful machine-learning tools to identify complex predictive data patterns in a spatial or temporal domain. Here, we consider the application of DL and XAI to large om...
Learning Phenotype Associated Signature in Spatial Transcriptomics with PASSAGE.
Small methods
Feb 4, 2025
Spatially resolved transcriptomics (SRT) is poised to advance the understanding of cellular organization within complex tissues under various physiological and pathological conditions at unprecedented resolution. Despite the development of numerous c...
Machine learning-random forest model was used to construct gene signature associated with cuproptosis to predict the prognosis of gastric cancer.
Scientific reports
Feb 4, 2025
Gastric cancer (GC) is one of the most common tumors; one of the reasons for its poor prognosis is that GC cells can resist normal cell death process and therefore develop distant metastasis. Cuproptosis is a novel type of cell death and a limited nu...
Identifying potential signatures of immune cells in hepatocellular carcinoma using integrative bioinformatics approaches and machine-learning strategies.
Immunologic research
Feb 4, 2025
Hepatocellular carcinoma (HCC) is a malignant tumor regulated by the immune system. Immunotherapy using checkpoint inhibitors has shown encouraging outcomes in a subset of HCC patients. The main challenges in checkpoint immunotherapy for HCC are to e...
Elucidating the Mechanism of VVTT Infection Through Machine Learning and Transcriptome Analysis.
International journal of molecular sciences
Jan 30, 2025
The vaccinia virus (VV) is extensively utilized as a vaccine vector in the treatment of various infectious diseases, cardiovascular diseases, immunodeficiencies, and cancers. The vaccinia virus Tiantan strain (VVTT) has been instrumental as an irrepl...
ExPDrug: Integration of an interpretable neural network and knowledge graph for pathway-based drug repurposing.
Computers in biology and medicine
Jan 29, 2025
Precision medicine aims to provide personalized therapies by analyzing patient molecular profiles, often focusing on gene expression data. However, effectively linking these data to actionable drug discovery for clinical application remains challengi...
Spatially resolved transcriptomics and graph-based deep learning improve accuracy of routine CNS tumor diagnostics.
Nature cancer
Jan 29, 2025
The diagnostic landscape of brain tumors integrates comprehensive molecular markers alongside traditional histopathological evaluation. DNA methylation and next-generation sequencing (NGS) have become a cornerstone in central nervous system (CNS) tum...
Exploring the role of oxidative stress in carotid atherosclerosis: insights from transcriptomic data and single-cell sequencing combined with machine learning.
Biology direct
Jan 29, 2025
BACKGROUND: Carotid atherosclerotic plaque is the primary cause of cardiovascular and cerebrovascular diseases. It is closely related to oxidative stress and immune inflammation. This bioinformatic study was conducted to identify key oxidative stress...
Unveiling the role of PANoptosis-related genes in breast cancer: an integrated study by multi-omics analysis and machine learning algorithms.
Breast cancer research and treatment
Jan 28, 2025
BACKGROUND: The heterogeneity of breast cancer (BC) necessitates the identification of novel subtypes and prognostic models to enhance patient stratification and treatment strategies. This study aims to identify novel BC subtypes based on PANoptosis-...
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