AIMC Topic: Transcriptome

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Exploring tumor microenvironment interactions and apoptosis pathways in NSCLC through spatial transcriptomics and machine learning.

Cellular oncology (Dordrecht, Netherlands)
BACKGROUND: The most common type of lung cancer is non-small cell lung cancer (NSCLC), accounting for 85% of all cases. Programmed cell death (PCD), an important regulatory mechanism for cell survival and homeostasis, has become increasingly prominen...

Identification and validation of the diagnostic biomarker MFAP5 for CAVD with type 2 diabetes by bioinformatics analysis.

Frontiers in immunology
INTRODUCTION: Calcific aortic valve disease (CAVD) is increasingly prevalent among the aging population, and there is a notable lack of drug therapies. Consequently, identifying novel drug targets will be of utmost importance. Given that type 2 diabe...

Recognizing SARS-CoV-2 infection of nasopharyngeal tissue at the single-cell level by machine learning method.

Molecular immunology
SARS-CoV-2 has posed serious global health challenges not only because of the high degree of virus transmissibility but also due to its severe effects on the respiratory system, such as inducing changes in multiple organs through the ACE2 receptor. T...

Deep profiling of gene expression across 18 human cancers.

Nature biomedical engineering
Clinical and biological information in large datasets of gene expression across cancers could be tapped with unsupervised deep learning. However, difficulties associated with biological interpretability and methodological robustness have made this im...

Identification and validation of the nicotine metabolism-related signature of bladder cancer by bioinformatics and machine learning.

Frontiers in immunology
BACKGROUND: Several studies indicate that smoking is one of the major risk factors for bladder cancer. Nicotine and its metabolites, the main components of tobacco, have been found to be strongly linked to the occurrence and progression of bladder ca...

SpatialCVGAE: Consensus Clustering Improves Spatial Domain Identification of Spatial Transcriptomics Using VGAE.

Interdisciplinary sciences, computational life sciences
The advent of spatially resolved transcriptomics (SRT) has provided critical insights into the spatial context of tissue microenvironments. Spatial clustering is a fundamental aspect of analyzing spatial transcriptomics data. However, spatial cluster...

Potential shared mechanisms in atopic dermatitis and type 2 diabetes identified via transcriptomic and machine learning approaches.

Scientific reports
Although atopic dermatitis (AD) and type 2 diabetes mellitus (T2DM) may appear clinically and pathophysiologically unrelated, AD is a common skin disease characterized by chronic inflammation and skin barrier dysfunction, whereas T2DM is a metabolic ...

Fuzzy-Based Identification of Transition Cells to Infer Cell Trajectory for Single-Cell Transcriptomics.

Journal of computational biology : a journal of computational molecular cell biology
With the continuous evolution of single-cell RNA sequencing technology, it has become feasible to reconstruct cell development processes using computational methods. Trajectory inference is a crucial downstream analytical task that provides valuable ...

Identification and verification of the optimal feature genes of ferroptosis in thyroid-associated orbitopathy.

Frontiers in immunology
BACKGROUND: Thyroid-associated orbitopathy (TAO) is an autoimmune inflammatory disorder of the orbital adipose tissue, primarily causing oxidative stress injury and tissue remodeling in the orbital connective tissue. Ferroptosis is a form of programm...

The significance of long chain non-coding RNA signature genes in the diagnosis and management of sepsis patients, and the development of a prediction model.

Frontiers in immunology
BACKGROUND: Sepsis is a life-threatening organ dysfunction condition produced by dysregulation of the host response to infection. It is now characterized by a high clinical morbidity and mortality rate, endangering patients' lives and health. The pur...