AIMC Topic: Gene Expression Profiling

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Identification of feature risk pathways of smoking-induced lung cancer based on SVM.

PloS one Jun 4, 2020
OBJECTIVE: The present study aims to explore the role of smoking factors in the risk of lung cancer and screen the feature risk pathways of smoking-induced lung cancer.
Cluster Analysis Lung Neoplasms DNA, Neoplasm Area Under Curve Signal Transduction Gene Ontology High-Throughput Nucleotide Sequencing Support Vector Machine Protein Interaction Mapping Smoking Databases, Genetic Humans Risk Factors Gene Expression Profiling ROC Curve
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Prediction of breast cancer proteins involved in immunotherapy, metastasis, and RNA-binding using molecular descriptors and artificial neural networks.

Scientific reports May 22, 2020
Breast cancer (BC) is a heterogeneous disease where genomic alterations, protein expression deregulation, signaling pathway alterations, hormone disruption, ethnicity and environmental determinants are involved. Due to the complexity of BC, the predi...
Humans Biomarkers, Tumor Gene Expression Profiling Immunotherapy Gene Expression Regulation, Neoplastic Neural Networks, Computer Machine Learning Female Breast Neoplasms RNA Neoplasm Metastasis
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Combining gene expression profiling and machine learning to diagnose B-cell non-Hodgkin lymphoma.

Blood cancer journal May 22, 2020
Non-Hodgkin B-cell lymphomas (B-NHLs) are a highly heterogeneous group of mature B-cell malignancies. Their classification thus requires skillful evaluation by expert hematopathologists, but the risk of error remains higher in these tumors than in ma...
Diagnosis, Computer-Assisted Progression-Free Survival Lymphoma, B-Cell Tumor Microenvironment Biomarkers, Tumor Gene Expression Profiling Transcriptome Humans Machine Learning
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Single-cell transcriptome reveals the novel role of T-bet in suppressing the immature NK gene signature.

eLife May 14, 2020
The transcriptional activation and repression during NK cell ontology are poorly understood. Here, using single-cell RNA-sequencing, we reveal a novel role for T-bet in suppressing the immature gene signature during murine NK cell development. Based ...
Machine Learning Mice, Inbred C57BL Mice, Knockout Phenotype Proto-Oncogene Proteins c-akt Animals Bone Marrow Cells Gene Expression Profiling Transcriptome Single-Cell Analysis RNA-Seq Rapamycin-Insensitive Companion of mTOR Protein Genotype Cluster Analysis Regulatory-Associated Protein of mTOR Gene Expression Regulation T-Box Domain Proteins Killer Cells, Natural T-bet Transcription Factor Forkhead Box Protein O1 Mechanistic Target of Rapamycin Complex 2
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Analysis of gene expression profiles of lung cancer subtypes with machine learning algorithms.

Biochimica et biophysica acta. Molecular basis of disease Apr 28, 2020
Lung cancer is one of the most common cancer types worldwide and causes more than one million deaths annually. Lung adenocarcinoma (AC) and lung squamous cell cancer (SCC) are two major lung cancer subtypes and have different characteristics in sever...
Serpins Adenocarcinoma of Lung Lung Neoplasms Cystatin A Computational Biology Gene Expression Regulation, Neoplastic Transcription Factors Machine Learning Carcinoma, Squamous Cell Humans Diagnosis, Differential Gene Expression Profiling Adenosine Triphosphatases Cadherins Transcriptome Terminology as Topic Datasets as Topic Membrane Transport Proteins Tumor Suppressor Proteins Monte Carlo Method
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Age estimation using bloodstain miRNAs based on massive parallel sequencing and machine learning: A pilot study.

Forensic science international. Genetics Apr 22, 2020
Age estimation is one of the most important components in the practice of forensic science, especially for body fluids or stains at crime scenes. Recent studies have focused on the application of DNA methylation for chronological age determination in...
Young Adult Adult Male Aging Middle Aged Gene Expression Profiling Pilot Projects MicroRNAs Ethnicity Humans Machine Learning High-Throughput Nucleotide Sequencing Algorithms Polymerase Chain Reaction Female Blood Stains Aged
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Fold-Change-Specific Enrichment Analysis (FSEA): Quantification of Transcriptional Response Magnitude for Functional Gene Groups.

Genes Apr 17, 2020
Gene expression profiling data contains more information than is routinely extracted with standard approaches. Here we present Fold-Change-Specific Enrichment Analysis (FSEA), a new method for functional annotation of differentially expressed genes f...
Computational Biology Databases, Genetic Gene Ontology Algorithms Biomarkers Gene Expression Profiling Transcriptome Humans
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Weighted gene co-expression network analysis reveals specific modules and biomarkers in Parkinson's disease.

Neuroscience letters Apr 8, 2020
BACKGROUND: Parkinson's disease (PD) ranks as the second most frequently occurring neurodegenerative disease. The precise pathogenic mechanism of this disease remains unknown. The aim of the present study was to identify the biomarkers in PD and clas...
Signal Transduction Humans Gene Ontology Parkinson Disease Biomarkers Neurodegenerative Diseases Gene Expression Profiling Up-Regulation Computational Biology
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Convolutional neural network models for cancer type prediction based on gene expression.

BMC medical genomics Apr 3, 2020
BACKGROUND: Precise prediction of cancer types is vital for cancer diagnosis and therapy. Through a predictive model, important cancer marker genes can be inferred. Several studies have attempted to build machine learning models for this task however...
Gene Regulatory Networks Computational Biology Gene Expression Regulation, Neoplastic Biomarkers, Tumor Neoplasms Gene Expression Profiling Case-Control Studies Humans Neural Networks, Computer Prognosis
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Meta-Analysis Based on Nonconvex Regularization.

Scientific reports Apr 1, 2020
The widespread applications of high-throughput sequencing technology have produced a large number of publicly available gene expression datasets. However, due to the gene expression datasets have the characteristics of small sample size, high dimensi...
Machine Learning Algorithms Gene Expression Profiling Gene Regulatory Networks Genomics Databases, Genetic Datasets as Topic Humans
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