AIMC Topic: Single-Cell Analysis

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WISP2/CCN5 revealed as a potential diagnostic biomarker for endometriosis based on machine learning and single-cell transcriptomic analysis.

Functional & integrative genomics Jun 19, 2025
OBJECTIVE: Endometriosis is a prevalent gynecological disease characterized by the ectopic growth of functional endometrial tissue outside the uterine cavity, affecting millions of women worldwide. Currently, the definitive diagnosis relies on invasi...
Repressor Proteins CCN Intercellular Signaling Proteins Endometrium Endometriosis Wnt Signaling Pathway Humans Machine Learning Biomarkers Female Transcriptome Single-Cell Analysis
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Neurodegeneration Promotes Tumorigenesis in Colorectal Cancer: Insights From Single-Cell and Spatial Multiomics.

JCO precision oncology Jun 6, 2025
PURPOSE: Colorectal cancer (CRC) ranks third in global incidence and second in mortality, with rates increasing among younger populations. The enteric nervous system (ENS) is crucial for gastrointestinal function, and its dysfunction is associated wi...
Humans Multiomics Carcinogenesis Colorectal Neoplasms Enteric Nervous System Transcriptome Single-Cell Analysis
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scGANSL: Graph Attention Network with Subspace Learning for scRNA-seq Data Clustering.

Journal of chemical information and modeling Jun 5, 2025
Single-cell RNA sequencing (scRNA-seq) has become a crucial technology for analyzing cellular diversity at the single-cell level. Cell clustering is crucial in scRNA-seq data analysis as it accurately identifies distinct cell types and uncovers poten...
Humans Single-Cell Gene Expression Analysis Sequence Analysis, RNA Cluster Analysis Principal Component Analysis Machine Learning Single-Cell Analysis RNA-Seq
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SC2Spa: a deep learning based approach to map transcriptome to spatial origins at cellular resolution.

BMC bioinformatics Jun 2, 2025
BACKGROUND: Understanding cellular heterogeneity within tissues hinges on knowledge of their spatial context. However, it is still challenging to accurately map cells to their spatial coordinates.
RNA-Seq Transcriptome Sequence Analysis, RNA Humans Deep Learning Single-Cell Analysis Animals Gene Expression Profiling
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TRAF3 as a potential diagnostic biomarker for recurrent pregnancy loss: insights from single-cell transcriptomics and machine learning.

BMC pregnancy and childbirth May 31, 2025
BACKGROUND: Recurrent pregnancy loss (RPL), characterized by multiple miscarriages, remains a condition with unclear etiology, posing significant challenges for affected women and couples. This study aims to explore the underlying mechanisms of RPL, ...
Gene Expression Profiling Transcriptome Case-Control Studies Pregnancy Female Adult Abortion, Habitual TNF Receptor-Associated Factor 3 Decidua Single-Cell Analysis Killer Cells, Natural Macrophage Migration-Inhibitory Factors Humans Machine Learning Biomarkers
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Disulfide bond-related gene signature development for bladder cancer prognosis prediction and immune microenvironment characterization.

Scientific reports May 29, 2025
Bladder cancer is the fourth most common malignant tumor in men, with limited therapeutic biomarkers and heterogeneous responses to immunotherapy. Disulfide bond-driven cell death has emerged as a critical regulator of tumor progression and immune mi...
Gene Expression Regulation, Neoplastic Urinary Bladder Neoplasms Disulfides Cell Line, Tumor Single-Cell Analysis Immunotherapy Male Gene Expression Profiling Transcriptome Humans Tumor Microenvironment Biomarkers, Tumor Prognosis Female
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Single-cell data combined with phenotypes improves variant interpretation.

BMC genomics May 28, 2025
BACKGROUND: Whole genome sequencing offers significant potential to improve the diagnosis and treatment of rare diseases by enabling the identification of thousands of rare, potentially pathogenic variants. Existing variant prioritisation tools can b...
Single-Cell Analysis Genetic Variation Humans Phenotype Gene Expression Profiling
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Identification of mitophagy-related biomarkers in severe acute pancreatitis: integration of WGCNA, machine learning algorithms and scRNA-seq.

Frontiers in immunology May 28, 2025
BACKGROUND: Mitophagy is a highly conserved cellular process in eukaryotic cells that selectively clears dysfunctional or damaged mitochondria through autophagy mechanisms to maintain mitochondrial homeostasis. However, the role of mitophagy in the p...
Single-Cell Analysis RNA-Seq Gene Regulatory Networks Single-Cell Gene Expression Analysis Mice Computational Biology Biomarkers Animals Gene Expression Profiling Humans Machine Learning Algorithms Disease Models, Animal Pancreatitis Mitophagy
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scE2EGAE: enhancing single-cell RNA-Seq data analysis through an end-to-end cell-graph-learnable graph autoencoder with differentiable edge sampling.

Biology direct May 27, 2025
BACKGROUND: Single-cell RNA sequencing (scRNA-Seq) technology reveals biological processes and molecular-level genomic information among individual cells. Numerous computational methods, including methods based on graph neural networks (GNNs), have b...
Humans RNA-Seq Neural Networks, Computer Software Sequence Analysis, RNA Single-Cell Gene Expression Analysis Algorithms Autoencoder Single-Cell Analysis
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Single-cell multimodal analysis reveals tumor microenvironment predictive of treatment response in non-small cell lung cancer.

Science advances May 23, 2025
Non-small cell lung cancer (NSCLC) constitutes over 80% of lung cancer cases and remains a leading cause of cancer-related mortality worldwide. Despite the advent of immune checkpoint inhibitors, their efficacy is limited to 27 to 45% of patients. Id...
Carcinoma, Non-Small-Cell Lung Lung Neoplasms Immunotherapy Treatment Outcome Humans Tumor Microenvironment Biomarkers, Tumor Single-Cell Analysis
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