AIMC Topic: Gene Expression Profiling

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Physics-informed deep learning characterizes morphodynamics of Asian soybean rust disease.

Nature communications Nov 5, 2021
Medicines and agricultural biocides are often discovered using large phenotypic screens across hundreds of compounds, where visible effects of whole organisms are compared to gauge efficacy and possible modes of action. However, such analysis is ofte...
Gene Expression Profiling Deep Learning Plant Diseases Glycine max Phakopsora pachyrhizi Humans
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Machine Learning-Based Single Cell and Integrative Analysis Reveals That Baseline mDC Predisposition Correlates With Hepatitis B Vaccine Antibody Response.

Frontiers in immunology Oct 29, 2021
Vaccination to prevent infectious disease is one of the most successful public health interventions ever developed. And yet, variability in individual vaccine effectiveness suggests that a better mechanistic understanding of vaccine-induced immune re...
Dendritic Cells Adult Hepatitis B Vaccines Vaccine Efficacy High-Throughput Nucleotide Sequencing Hepatitis B Humans Male Hepatitis B Antibodies Host-Pathogen Interactions Single-Cell Analysis Middle Aged Machine Learning Canonical Correlation Analysis Vaccination Gene Expression Profiling Female Aged
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Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.

Nature methods Oct 28, 2021
Charting an organs' biological atlas requires us to spatially resolve the entire single-cell transcriptome, and to relate such cellular features to the anatomical scale. Single-cell and single-nucleus RNA-seq (sc/snRNA-seq) can profile cells comprehe...
RNA-Seq Mice Mice, Inbred C57BL Gene Expression Regulation Regulatory Sequences, Nucleic Acid Chromatin Gene Expression Profiling Transcriptome Deep Learning Single-Cell Analysis Brain Female Animals Male Software
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Manipulating cellular microRNAs and analyzing high-dimensional gene expression data using machine learning workflows.

STAR protocols Oct 23, 2021
MicroRNAs (miRNAs) are elements of the gene regulatory network and manipulating their abundance is essential toward elucidating their role in patho-physiological conditions. We present a detailed workflow that identifies important miRNAs using a mach...
Gene Expression Profiling Transcriptome Gene Regulatory Networks MicroRNAs Gene Knockdown Techniques Humans Islets of Langerhans Machine Learning Workflow Algorithms Cell Culture Techniques Cells, Cultured
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The BrAID study protocol: integration of machine learning and transcriptomics for brugada syndrome recognition.

BMC cardiovascular disorders Oct 13, 2021
BACKGROUND: Type 1 Brugada syndrome (BrS) is a hereditary arrhythmogenic disease showing peculiar electrocardiographic (ECG) patterns, characterized by ST-segment elevation in the right precordial leads, and risk of Sudden Cardiac Death (SCD). Furthe...
Gene Expression Profiling Transcriptome Diagnosis, Computer-Assisted Electrocardiography Prospective Studies Prognosis Retrospective Studies Reproducibility of Results Workflow Heart Rate Brugada Syndrome Action Potentials Predictive Value of Tests Italy Signal Processing, Computer-Assisted Humans Machine Learning Research Design
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Improved prediction of smoking status via isoform-aware RNA-seq deep learning models.

PLoS computational biology Oct 11, 2021
Most predictive models based on gene expression data do not leverage information related to gene splicing, despite the fact that splicing is a fundamental feature of eukaryotic gene expression. Cigarette smoking is an important environmental risk fac...
ROC Curve RNA-Seq Computational Biology Models, Statistical Male Middle Aged Gene Expression Profiling Deep Learning Humans Smoking Female Protein Isoforms Aged Exons
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Integrating Statistical and Machine-Learning Approach for Meta-Analysis of Bisphenol A-Exposure Datasets Reveals Effects on Mouse Gene Expression within Pathways of Apoptosis and Cell Survival.

International journal of molecular sciences Oct 5, 2021
Bisphenols are important environmental pollutants that are extensively studied due to different detrimental effects, while the molecular mechanisms behind these effects are less well understood. Like other environmental pollutants, bisphenols are bei...
Machine Learning Biomarkers Phenols Meta-Analysis as Topic Benzhydryl Compounds Apoptosis Datasets as Topic Liver Cell Survival Gene Expression Regulation Models, Statistical Air Pollutants, Occupational Animals Male Gene Expression Profiling Mice
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Non-invasive diagnostic tool for Parkinson's disease by sebum RNA profile with machine learning.

Scientific reports Sep 20, 2021
Parkinson's disease (PD) is a progressive neurodegenerative disease presenting with motor and non-motor symptoms, including skin disorders (seborrheic dermatitis, bullous pemphigoid, and rosacea), skin pathological changes (decreased nerve endings an...
Female Sebum Gene Expression Profiling Humans Transcriptome Aged Machine Learning Parkinson Disease Male Biomarkers Phosphorylation Middle Aged
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Identification of clinical trait-related small RNA biomarkers with weighted gene co-expression network analysis for personalized medicine in endocervical adenocarcinoma.

Aging Sep 20, 2021
Endocervical adenocarcinoma (EAC) is an aggressive type of endocervical cancer. At present, molecular research on EAC mainly focuses on the genome and mRNA transcriptome, the investigation of small RNAs in EAC has not been fully described. Here, we s...
Humans MicroRNAs RNA, Transfer Precision Medicine Gene Ontology Female Middle Aged Uterine Cervical Neoplasms Gene Expression Profiling Sequence Analysis, RNA Adenocarcinoma
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HOX cluster and their cofactors showed an altered expression pattern in eutopic and ectopic endometriosis tissues.

Reproductive biology and endocrinology : RB&E Sep 1, 2021
Endometriosis is major gynecological disease that affects over 10% of women worldwide and 30%-50% of these women have pelvic pain, abnormal uterine bleeding and infertility. The cause of endometriosis is unknown and there is no definite cure mainly b...
Female Young Adult Adult Gene Expression Profiling Transcription Factors Endometrium Endometriosis Gene Regulatory Networks Signal Transduction Multigene Family Humans Gene Ontology Homeodomain Proteins Genes, Homeobox
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