AIMC Topic: Gene Expression Profiling
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Pathway Enrichment-Based Unsupervised Learning Identifies Novel Subtypes of Cancer-Associated Fibroblasts in Pancreatic Ductal Adenocarcinoma.
Interdisciplinary sciences, computational life sciences
Jun 1, 2025
Existing single-cell clustering methods are based on gene expressions that are susceptible to dropout events in single-cell RNA sequencing (scRNA-seq) data. To overcome this limitation, we proposed a pathway-based clustering method for single cells (...
Uncovering hepatic transcriptomic and circulating proteomic signatures in MASH: A meta-analysis and machine learning-based biomarker discovery.
Computers in biology and medicine
Jun 1, 2025
BACKGROUND: Metabolic-associated steatohepatitis (MASH), the progressive form of metabolic-associated steatotic liver disease (MASLD), poses significant risks for liver fibrosis and cardiovascular complications. Despite extensive research, reliable b...
A novel machine learning-based workflow to capture intra-patient heterogeneity through transcriptional multi-label characterization and clinically relevant classification.
Journal of biomedical informatics
Jun 1, 2025
OBJECTIVES: Patient classification into specific molecular subtypes is paramount in biomedical research and clinical practice to face complex, heterogeneous diseases. Existing methods, especially for gene expression-based cancer subtyping, often simp...
MORPSO_ECD+ELM: A Unified Framework for Gene Selection and Cancer Classification.
IEEE journal of biomedical and health informatics
Jun 1, 2025
Gene selection and cancer classification are inherently multi-objective tasks that require balancing competing objectives, such as maximizing classification accuracy while minimizing irrelevant or redundant genes. Existing methods often optimize a si...
Identification of biomarkers and immune infiltration associated with sexes in SSc: a bioinformatics and machine learning.
Rheumatology (Oxford, England)
Jun 1, 2025
OBJECTIVE: This study aimed to identify key candidate genes associated with the sexes of patients with SSc.
scDMSC: Deep Multi-View Subspace Clustering for Single-Cell Multi-Omics Data.
IEEE journal of biomedical and health informatics
Jun 1, 2025
Single-cell multi-omics sequencing technology comprehensively considers various molecular features to reveal the complexity of cells information. The clustering analysis of multi-omics data provides new insight into cellular heterogeneity. However, m...
Integrating bulk RNA-seq and scRNA-seq analyses with machine learning to predict platinum response and prognosis in ovarian cancer.
Scientific reports
May 31, 2025
Platinum-based therapy is an integral part of the standard treatment for ovarian cancer. However, despite extensive research spanning several decades, the identification of dependable predictive biomarkers for platinum response in clinical practice h...
An immunohistochemistry-based classification of colorectal cancer resembling the consensus molecular subtypes using convolutional neural networks.
Scientific reports
May 31, 2025
Colorectal cancer (CRC) represents a major global disease burden with nearly 1 million cancer-related deaths annually. TNM staging has served as the foundation for predicting patient prognosis, despite variation across staging groups. The consensus m...
Elucidating the role of KLRD1 in coronary atherosclerosis: harnessing bioinformatics and machine learning to advance understanding.
Journal of cardiothoracic surgery
May 30, 2025
BACKGROUND: Atherosclerosis (AS) is increasingly recognized as a chronic inflammatory disease that significantly compromises vascular health and serves as a major contributor to cardiovascular diseases. KLRD1 is a gene that encodes a protein involved...
Identification of key genes regulating colorectal cancer stem cell characteristics by bioinformatics analysis.
Medicine
May 30, 2025
Cancer stem cells (CSCs), distinguished by their abilities to differentiate and self-renew, play a pivotal role in the progression of colorectal cancer (CRC). However, the mechanisms that sustain CSCs in CRC remain unclear. This study aimed to identi...
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