AIMC Topic: Sequence Analysis, RNA

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COMPREHENSIVE CHARACTERIZATION OF CYTOKINES IN PATIENTS UNDER EXTRACORPOREAL MEMBRANE OXYGENATION: EVIDENCE FROM INTEGRATED BULK AND SINGLE-CELL RNA SEQUENCING DATA USING MULTIPLE MACHINE LEARNING APPROACHES.

Shock (Augusta, Ga.) Aug 23, 2024
Background : Extracorporeal membrane oxygenation (ECMO) is an effective technique for providing short-term mechanical support to the heart, lungs, or both. During ECMO treatment, the inflammatory response, particularly involving cytokines, plays a cr...
Machine Learning Cytokines Single-Cell Analysis Humans Sequence Analysis, RNA Extracorporeal Membrane Oxygenation
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Utilizing machine learning to integrate single-cell and bulk RNA sequencing data for constructing and validating a novel cell adhesion molecules related prognostic model in gastric cancer.

Computers in biology and medicine Aug 12, 2024
BACKGROUND: Cell adhesion molecules (CAMs) play a vital role in cell-cell interactions, immune response modulation, and tumor cell migration. However, the unique role of CAMs in gastric cancer (GC) remains largely unexplored.
Machine Learning Prognosis Female Humans Gene Expression Regulation, Neoplastic Antigens, CD34 Cell Adhesion Molecules Middle Aged Single-Cell Analysis Sequence Analysis, RNA Stomach Neoplasms Biomarkers, Tumor Male
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Single-cell and bulk RNA-sequence identified fibroblasts signature and CD8 + T-cell - fibroblast subtype predicting prognosis and immune therapeutic response of bladder cancer, based on machine learning: bioinformatics multi-omics study.

International journal of surgery (London, England) Aug 1, 2024
BACKGROUND: Cancer-associated fibroblasts (CAFs) are found in primary and advanced tumours. They are primarily involved in tumour progression through complex mechanisms with other types of cells in the tumour microenvironment. However, essential fibr...
Transcriptome Single-Cell Analysis Computational Biology Female Tumor Microenvironment Male Urinary Bladder Neoplasms Cancer-Associated Fibroblasts CD8-Positive T-Lymphocytes Immunotherapy Multiomics Sequence Analysis, RNA Humans Machine Learning Prognosis
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Detecting differentially expressed genes from RNA-seq data using fuzzy clustering.

The international journal of biostatistics Jul 29, 2024
A two-group comparison test is generally performed on RNA sequencing data to detect differentially expressed genes (DEGs). However, the accuracy of this method is low due to the small sample size. To address this, we propose a method using fuzzy clus...
Fuzzy Logic Cluster Analysis Sample Size Gene Expression Profiling RNA-Seq Sequence Analysis, RNA Humans Computer Simulation
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Single-cell RNA sequencing data analysis utilizing multi-type graph neural networks.

Computers in biology and medicine Jul 25, 2024
Single-cell RNA sequencing (scRNA-seq) is the sequencing technology of a single cell whose expression reflects the overall characteristics of the individual cell, facilitating the research of problems at the cellular level. However, the problems of s...
Single-Cell Analysis Sequence Analysis, RNA Humans Neural Networks, Computer Algorithms
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NNICE: a deep quantile neural network algorithm for expression deconvolution.

Scientific reports Jun 18, 2024
The composition of cell-type is a key indicator of health. Advancements in bulk gene expression data curation, single cell RNA-sequencing technologies, and computational deconvolution approaches offer a new perspective to learn about the composition ...
Transcriptome Deep Learning Single-Cell Analysis Neural Networks, Computer Algorithms Humans RNA-Seq Gene Expression Profiling Computational Biology Sequence Analysis, RNA
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Machine Learning-Assisted Direct RNA Sequencing with Epigenetic RNA Modification Detection via Quantum Tunneling.

Analytical chemistry Jun 14, 2024
RNA sequence information holds immense potential as a drug target for diagnosing various RNA-mediated diseases and viral/bacterial infections. Massively parallel complementary DNA (c-DNA) sequencing helps but results in a loss of valuable information...
High-Throughput Nucleotide Sequencing Humans Epigenesis, Genetic Machine Learning Quantum Theory Sequence Analysis, RNA RNA
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DCRELM: dual correlation reduction network-based extreme learning machine for single-cell RNA-seq data clustering.

Scientific reports Jun 12, 2024
Single-cell ribonucleic acid sequencing (scRNA-seq) is a high-throughput genomic technique that is utilized to investigate single-cell transcriptomes. Cluster analysis can effectively reveal the heterogeneity and diversity of cells in scRNA-seq data,...
Algorithms Single-Cell Analysis Single-Cell Gene Expression Analysis RNA-Seq Humans Sequence Analysis, RNA Machine Learning Cluster Analysis
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Machine learning algorithms integrate bulk and single-cell RNA data to unveil oxidative stress following intracerebral hemorrhage.

International immunopharmacology Jun 11, 2024
BACKGROUND: Increased oxidative stress (OS) activity following intracerebral hemorrhage (ICH) had significantly impacting patient prognosis. Identifying optimal genes associated with OS could enhance the understanding of OS after ICH.
Microglia Single-Cell Analysis Mice Monocytes Sequence Analysis, RNA Humans Animals Disease Models, Animal Machine Learning Cerebral Hemorrhage Male Algorithms Oxidative Stress
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SIMS: A deep-learning label transfer tool for single-cell RNA sequencing analysis.

Cell genomics May 31, 2024
Cell atlases serve as vital references for automating cell labeling in new samples, yet existing classification algorithms struggle with accuracy. Here we introduce SIMS (scalable, interpretable machine learning for single cell), a low-code data-effi...
Mice Sequence Analysis, RNA Cell Differentiation Animals Neurons Humans Deep Learning Brain Organoids Single-Cell Analysis
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