AIMC Topic: Polymorphism, Single Nucleotide

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Multifactor dimensionality reduction analysis to elucidate the cross-talk between one-carbon and xenobiotic metabolic pathways in multi-disease models.

Molecular biology reports Feb 4, 2015
Putatively functional polymorphisms of one-carbon and xenobiotic metabolic pathways influence susceptibility for wide spectrum of diseases. The current study was aimed to explore gene-gene interactions among these two metabolic pathways in four disea...
Breast Neoplasms Male Case-Control Studies Genetic Predisposition to Disease Polymorphism, Single Nucleotide Carbon Parkinson Disease Metabolic Networks and Pathways Humans Female Oxidoreductases Transferases Multifactor Dimensionality Reduction Sex Factors Factor Analysis, Statistical Xenobiotics Datasets as Topic Lupus Erythematosus, Systemic Gene Expression Regulation Coronary Artery Disease Epistasis, Genetic
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Genome-wide association data classification and SNPs selection using two-stage quality-based Random Forests.

BMC genomics Jan 21, 2015
BACKGROUND: Single-nucleotide polymorphisms (SNPs) selection and identification are the most important tasks in Genome-wide association data analysis. The problem is difficult because genome-wide association data is very high dimensional and a large ...
Algorithms Reproducibility of Results Genome-Wide Association Study Genetic Predisposition to Disease Alzheimer Disease Polymorphism, Single Nucleotide Humans Computational Biology Machine Learning Models, Genetic Parkinson Disease
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RNA splicing. The human splicing code reveals new insights into the genetic determinants of disease.

Science (New York, N.Y.) Dec 18, 2014
To facilitate precision medicine and whole-genome annotation, we developed a machine-learning technique that scores how strongly genetic variants affect RNA splicing, whose alteration contributes to many diseases. Analysis of more than 650,000 intron...
Genetic Markers Genetic Variation Molecular Sequence Annotation Introns Mutation, Missense Quantitative Trait Loci RNA Splicing Child Development Disorders, Pervasive Models, Genetic Nuclear Proteins Adaptor Proteins, Signal Transducing DNA Genome-Wide Association Study Polymorphism, Single Nucleotide RNA-Binding Proteins MutL Protein Homolog 1 Colorectal Neoplasms, Hereditary Nonpolyposis RNA Splice Sites Humans Muscular Atrophy, Spinal Artificial Intelligence Exons Computer Simulation Genetic Code
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UGMDR: a unified conceptual framework for detection of multifactor interactions underlying complex traits.

Heredity Oct 22, 2014
Biological outcomes are governed by multiple genetic and environmental factors that act in concert. Determining multifactor interactions is the primary topic of interest in recent genetics studies but presents enormous statistical and mathematical ch...
Proportional Hazards Models Multifactor Dimensionality Reduction Multifactorial Inheritance Polymorphism, Single Nucleotide Logistic Models Models, Genetic Linear Models Humans Algorithms Phenotype Computer Simulation
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Kernel methods for large-scale genomic data analysis.

Briefings in bioinformatics Jul 22, 2014
Machine learning, particularly kernel methods, has been demonstrated as a promising new tool to tackle the challenges imposed by today's explosive data growth in genomics. They provide a practical and principled approach to learning how a large numbe...
Humans Computational Biology Logistic Models Support Vector Machine Models, Statistical Machine Learning Genome-Wide Association Study Genomics Polymorphism, Single Nucleotide Data Interpretation, Statistical
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Genome-wide association study revealed candidate genes associated with egg-laying time traits in layer chicken.

Poultry science Jul 1, 2025
In modern intensive caged laying hen production, variations in egg-laying time (ELT) among layers often increase the workload for egg collection, thereby raising the costs of labor or power and reducing overall efficiency. For management purpose, ear...
Polymorphism, Single Nucleotide Chickens Reproduction Female Animals Genome-Wide Association Study
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A flexible machine learning Mendelian randomization estimator applied to predict the safety and efficacy of sclerostin inhibition.

American journal of human genetics Jun 5, 2025
Mendelian randomization (MR) enables the estimation of causal effects while controlling for unmeasured confounding factors. However, traditional MR's reliance on strong parametric assumptions can introduce bias if these are violated. We describe a ma...
Polymorphism, Single Nucleotide Adaptor Proteins, Signal Transducing Mendelian Randomization Analysis Cholesterol, LDL Genetic Markers Osteoporosis Female Male Cardiovascular Diseases Humans Machine Learning Bone Density
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Environment ensemble models for genomic prediction in common bean (Phaseolus vulgaris L.).

The plant genome Jun 1, 2025
For important food crops such as the common bean (Phaseolus vulgaris, L.), global demand continues to outpace the rate of genetic gain for quantitative traits. In this study, we leveraged the multi-environment trial (MET) dataset from the cooperative...
Phenotype Genomics Genome, Plant Quantitative Trait Loci Gene-Environment Interaction Plant Breeding Polymorphism, Single Nucleotide Genotype Models, Genetic Phaseolus
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Methylomes Reveal Recent Evolutionary Changes in Populations of Two Plant Species.

Genome biology and evolution May 30, 2025
Plant DNA methylation changes occur hundreds to thousands of times faster than DNA mutations and can be transmitted transgenerationally, making them useful for studying population-scale patterns in clonal or selfing species. However, a state-of-the-a...
Arabidopsis Brachypodium Polymorphism, Single Nucleotide Epigenome DNA Methylation Gene Frequency Evolution, Molecular Genome, Plant Linkage Disequilibrium
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Endometrial tumorigenesis involves epigenetic plasticity demarcating non-coding somatic mutations and 3D-genome alterations.

Genome biology May 9, 2025
BACKGROUND: The incidence and mortality of endometrial cancer (EC) is on the rise. Eighty-five percent of ECs depend on estrogen receptor alpha (ERĪ±) for proliferation, but little is known about its transcriptional regulation in these tumors.
Estrogen Receptor alpha Enhancer Elements, Genetic Carcinogenesis Female Humans Polymorphism, Single Nucleotide Mutation Epigenesis, Genetic Genome, Human Gene Expression Regulation, Neoplastic Endometrial Neoplasms
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