AIMC Topic: Polymorphism, Single Nucleotide

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Brain age prediction using deep learning uncovers associated sequence variants.

Nature communications Nov 27, 2019
Machine learning algorithms can be trained to estimate age from brain structural MRI. The difference between an individual's predicted and chronological age, predicted age difference (PAD), is a phenotype of relevance to aging and brain disease. Here...
Neural Networks, Computer Databases, Factual Brain Aged Aged, 80 and over Humans Deep Learning Adolescent Genome-Wide Association Study Polymorphism, Single Nucleotide Magnetic Resonance Imaging Young Adult Adult Aging Middle Aged United Kingdom Neuropsychological Tests Iceland
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DualWMDR: Detecting epistatic interaction with dual screening and multifactor dimensionality reduction.

Human mutation Nov 25, 2019
Detecting epistatic interaction is a typical way of identifying the genetic susceptibility of complex diseases. Multifactor dimensionality reduction (MDR) is a decent solution for epistasis detection. Existing MDR-based methods still suffer from high...
Algorithms Databases, Genetic Humans Genetic Predisposition to Disease Multifactor Dimensionality Reduction Genetic Loci Polymorphism, Single Nucleotide Macular Degeneration Computational Biology Epistasis, Genetic Models, Genetic
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Genetic Variation in Cytochrome P450 2R1 and Vitamin D Binding Protein Genes are associated with Vitamin D Deficiency in Adolescents.

International journal for vitamin and nutrition research. Internationale Zeitschrift fur Vitamin- und Ernahrungsforschung. Journal international de vitaminologie et de nutrition Nov 15, 2019
Genome Wide Association Studies (GWAS) have evaluated several genes related to vitamin D synthesis, metabolism and transport. They have proposed a genetic basis for low levels of vitamin D in the blood. The current study aims to investigate the rela...
Genotype Adolescent Cholestanetriol 26-Monooxygenase Vitamin D Humans Genome-Wide Association Study Vitamin D Deficiency Cytochrome P-450 Enzyme System Genetic Predisposition to Disease Female Iran Cytochrome P450 Family 2 Polymorphism, Single Nucleotide Vitamin D-Binding Protein Male Case-Control Studies
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Machine Learning to Predict Anti-Tumor Necrosis Factor Drug Responses of Rheumatoid Arthritis Patients by Integrating Clinical and Genetic Markers.

Arthritis & rheumatology (Hoboken, N.J.) Nov 4, 2019
OBJECTIVE: Accurate prediction of treatment responses in rheumatoid arthritis (RA) patients can provide valuable information on effective drug selection. Anti-tumor necrosis factor (anti-TNF) drugs are an important second-line treatment after methotr...
Arthritis, Rheumatoid Polymorphism, Single Nucleotide Treatment Outcome Regression Analysis Predictive Value of Tests Reproducibility of Results Male Middle Aged Severity of Illness Index Outcome Assessment, Health Care Antirheumatic Agents Normal Distribution Etanercept Certolizumab Pegol Infliximab Genetic Markers Methotrexate Adalimumab Humans Machine Learning Tumor Necrosis Factor-alpha Female
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A comparison of machine learning classifiers for dementia with Lewy bodies using miRNA expression data.

BMC medical genomics Oct 30, 2019
BACKGROUND: Dementia with Lewy bodies (DLB) is the second most common subtype of neurodegenerative dementia in humans following Alzheimer's disease (AD). Present clinical diagnosis of DLB has high specificity and low sensitivity and finding potential...
Risk bcl-X Protein Signal Transduction MicroRNAs Machine Learning Phosphatidylinositol 3-Kinases Biomarkers Lewy Body Disease Female Humans Aged Male Case-Control Studies Dementia Polymorphism, Single Nucleotide Genetic Association Studies
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A machine learning approach for the identification of population-informative markers from high-throughput genotyping data: application to several pig breeds.

Animal : an international journal of animal bioscience Oct 11, 2019
Single nucleotide polymorphisms (SNPs) able to describe population differences can be used for important applications in livestock, including breed assignment of individual animals, authentication of mono-breed products and parentage verification amo...
Genotyping Techniques Breeding Oligonucleotide Array Sequence Analysis Female Animals Male Swine Genomics Polymorphism, Single Nucleotide Genotype Italy Genetic Markers Machine Learning Phenotype
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Mechanistic interpretation of non-coding variants for discovering transcriptional regulators of drug response.

BMC biology Jul 30, 2019
BACKGROUND: Identification of functional non-coding variants and their mechanistic interpretation is a major challenge of modern genomics, especially for precision medicine. Transcription factor (TF) binding profiles and epigenomic landscapes in refe...
Humans Polymorphism, Single Nucleotide Models, Genetic Machine Learning Transcription Factors Female Gene Expression Regulation Male Protein Binding
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Comparative performances of machine learning methods for classifying Crohn Disease patients using genome-wide genotyping data.

Scientific reports Jul 17, 2019
Crohn Disease (CD) is a complex genetic disorder for which more than 140 genes have been identified using genome wide association studies (GWAS). However, the genetic architecture of the trait remains largely unknown. The recent development of machin...
Female Male Deep Learning Genome-Wide Association Study ROC Curve Genetic Predisposition to Disease Polymorphism, Single Nucleotide Genotype Logistic Models Humans Neural Networks, Computer Alleles Nonlinear Dynamics Models, Genetic Genotyping Techniques Decision Trees INDEL Mutation Area Under Curve Crohn Disease
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A demonstration of unsupervised machine learning in species delimitation.

Molecular phylogenetics and evolution Jul 16, 2019
One major challenge to delimiting species with genetic data is successfully differentiating population structure from species-level divergence, an issue exacerbated in taxa inhabiting naturally fragmented habitats. Many fields of science are now usin...
Principal Component Analysis Arachnida Phylogeny Polymorphism, Single Nucleotide Cluster Analysis Unsupervised Machine Learning Animals
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Multivariate Cluster-Based Multifactor Dimensionality Reduction to Identify Genetic Interactions for Multiple Quantitative Phenotypes.

BioMed research international Jul 11, 2019
To understand the pathophysiology of complex diseases, including hypertension, diabetes, and autism, deleterious phenotypes are unlikely due to the effects of single genes, but rather, gene-gene interactions (GGIs), which are widely analyzed by multi...
Cluster Analysis Epistasis, Genetic Quantitative Trait Loci Multifactor Dimensionality Reduction Software Humans Algorithms Genome-Wide Association Study Polymorphism, Single Nucleotide
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