AIMC Topic: Gene Expression

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Universal method for robust detection of circadian state from gene expression.

Proceedings of the National Academy of Sciences of the United States of America Sep 10, 2018
Circadian clocks play a key role in regulating a vast array of biological processes, with significant implications for human health. Accurate assessment of physiological time using transcriptional biomarkers found in human blood can significantly imp...
Humans Machine Learning Biomarkers Gene Expression Circadian Rhythm Sleep Reproducibility of Results Circadian Clocks Gene Expression Profiling Genes Transcriptome Models, Statistical
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An Efficient Feature Selection Strategy Based on Multiple Support Vector Machine Technology with Gene Expression Data.

BioMed research international Aug 30, 2018
The application of gene expression data to the diagnosis and classification of cancer has become a hot issue in the field of cancer classification. Gene expression data usually contains a large number of tumor-free data and has the characteristics of...
Humans Algorithms Gene Expression Profiling Gene Expression Support Vector Machine Area Under Curve
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Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk.

Nature genetics Jul 16, 2018
Key challenges for human genetics, precision medicine and evolutionary biology include deciphering the regulatory code of gene expression and understanding the transcriptional effects of genome variation. However, this is extremely difficult because ...
Promoter Regions, Genetic Quantitative Trait Loci Polymorphism, Single Nucleotide Models, Genetic Gene Expression Mutation Humans Algorithms Computer Simulation Deep Learning Genome-Wide Association Study Genetic Predisposition to Disease
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Computational design of thermostabilizing point mutations for G protein-coupled receptors.

eLife Jun 21, 2018
Engineering of GPCR constructs with improved thermostability is a key for successful structural and biochemical studies of this transmembrane protein family, targeted by 40% of all therapeutic drugs. Here we introduce a comprehensive computational ap...
Kinetics Amino Acid Sequence Protein Stability Receptor, Serotonin, 5-HT2C Animals Protein Binding Models, Molecular Gene Expression Sequence Alignment Sequence Homology, Amino Acid Protein Interaction Domains and Motifs Protein Conformation, alpha-Helical Protein Conformation, beta-Strand Crystallography, X-Ray Binding Sites Protein Engineering Thermodynamics Humans Machine Learning Point Mutation Serotonin 5-HT2 Receptor Agonists Serotonin 5-HT2 Receptor Antagonists
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Learning a single-hidden layer feedforward neural network using a rank correlation-based strategy with application to high dimensional gene expression and proteomic spectra datasets in cancer detection.

Journal of biomedical informatics Jun 15, 2018
Methods based on microarrays (MA), mass spectrometry (MS), and machine learning (ML) algorithms have evolved rapidly in recent years, allowing for early detection of several types of cancer. A pitfall of these approaches, however, is the overfitting ...
Support Vector Machine Gene Expression Oligonucleotide Array Sequence Analysis Humans Neural Networks, Computer Algorithms Neoplasms Proteomics
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Predicting lithium treatment response in bipolar patients using gender-specific gene expression biomarkers and machine learning.

F1000Research Apr 18, 2018
We sought to test the hypothesis that transcriptome-level gene signatures are differentially expressed between male and female bipolar patients, prior to lithium treatment, in a patient cohort who later were clinically classified as lithium treatmen...
Lithium Compounds Adult Humans Cohort Studies Machine Learning Male Gene Expression Biomarkers Middle Aged Female Bipolar Disorder
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Effect of nano-silver, nano-copper, deconex and benzalkonium chloride on biofilm formation and expression of transcription regulatory quorum sensing gene (rh1R) in drug-resistance Pseudomonas aeruginosa burn isolates.

Burns : journal of the International Society for Burn Injuries Dec 28, 2017
BACKGROUND: Biofilm forming drug-resistant Pseudomonas aeruginosa are responsible for major death in burn center of different hospitals across the globe.
Polymerase Chain Reaction Anti-Infective Agents, Local Burns Pseudomonas aeruginosa Disinfectants Benzalkonium Compounds Gene Expression Bacterial Proteins Copper Anti-Infective Agents Silver Biofilms Humans Drug Resistance, Bacterial Microbial Sensitivity Tests RNA, Messenger Metal Nanoparticles
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ALE: automated label extraction from GEO metadata.

BMC bioinformatics Dec 28, 2017
BACKGROUND: NCBI's Gene Expression Omnibus (GEO) is a rich community resource containing millions of gene expression experiments from human, mouse, rat, and other model organisms. However, information about each experiment (metadata) is in the format...
Gene Expression Humans Metadata Molecular Sequence Annotation Middle Aged Automation Machine Learning Gene Ontology Rats Reference Standards Algorithms Female Databases, Genetic Age Factors Animals Male
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Key Clinical Factors Predicting Adipokine and Oxidative Stress Marker Concentrations among Normal, Overweight and Obese Pregnant Women Using Artificial Neural Networks.

International journal of molecular sciences Dec 28, 2017
Maternal obesity has been related to adverse neonatal outcomes and fetal programming. Oxidative stress and adipokines are potential biomarkers in such pregnancies; thus, the measurement of these molecules has been considered critical. Therefore, we d...
Deoxyguanosine Adult Severity of Illness Index Case-Control Studies Oxidative Stress Adiponectin Age Factors Gestational Age Gene Expression Obesity Resistin 8-Hydroxy-2'-Deoxyguanosine DNA Pregnancy Trimester, Third Protein Carbonylation Neural Networks, Computer Malondialdehyde Humans Body Mass Index Leptin Biomarkers Pregnancy Female
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Effect of 17β-estradiol on milk production, hormone secretion, and mammary gland gene expression in dairy cows.

Journal of dairy science Dec 21, 2017
Estradiol inhibits milk production in dairy cows. The present study evaluated the effect of 17β-estradiol (E2) injections on prolactin (PRL) secretion and the mammary gland response to this hormone. Eight mid-lactation cows were used in a crossover d...
Female Animals Estrogens Gene Expression Lactation Cattle Estradiol Milk Prolactin Mammary Glands, Animal
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