AIMC Topic: Genetics, Population

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Hybrid autoencoder with orthogonal latent space for robust population structure inference.

Scientific reports Feb 14, 2023
Analysis of population structure and genomic ancestry remains an important topic in human genetics and bioinformatics. Commonly used methods require high-quality genotype data to ensure accurate inference. However, in practice, laboratory artifacts a...
Genotype Principal Component Analysis Genetics, Population Humans Neural Networks, Computer
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Haplotype and population structure inference using neural networks in whole-genome sequencing data.

Genome research Aug 25, 2022
Accurate inference of population structure is important in many studies of population genetics. Here we present HaploNet, a method for performing dimensionality reduction and clustering of genetic data. The method is based on local clustering of phas...
Haplotypes Genome, Human Genetics, Population Principal Component Analysis Whole Genome Sequencing Humans Neural Networks, Computer
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Evolution and dispersal of mitochondrial DNA haplogroup U5 in Northern Europe: insights from an unsupervised learning approach to phylogeography.

BMC genomics May 7, 2022
BACKGROUND: We combined an unsupervised learning methodology for analyzing mitogenome sequences with maximum likelihood (ML) phylogenetics to make detailed inferences about the evolution and diversification of mitochondrial DNA (mtDNA) haplogroup U5,...
Humans Phylogeny Haplotypes Phylogeography Genetics, Population Unsupervised Machine Learning Bayes Theorem DNA, Mitochondrial Europe Evolution, Molecular
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A new linear combination method of haplogroup distribution central vectors to model population admixtures.

Molecular genetics and genomics : MGG Apr 11, 2022
We introduce a novel population genetic approach suitable to model the origin and relationships of populations, using new computation methods analyzing Hg frequency distributions. Hgs were selected into groups which show correlated frequencies in sub...
Phylogeny DNA, Mitochondrial Mercury Artificial Intelligence Algorithms Genetics, Population Haplotypes Hungary
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Autosomal deletion/insertion polymorphisms for global stratification analyses and ancestry origin inferences of different continental populations by machine learning methods.

Electrophoresis May 19, 2021
A lot of population data of 30 deletion/insertion polymorphisms (DIPs) of the Investigator DIPplex kit in different continental populations have been reported. Here, we assessed genetic distributions of these 30 DIPs in different continental populati...
Asian People Gene Frequency Black People Genetics, Population Racial Groups Polymorphism, Single Nucleotide Genotype Bayes Theorem Humans Machine Learning
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A Hybrid Supervised Approach to Human Population Identification Using Genomics Data.

IEEE/ACM transactions on computational biology and bioinformatics Apr 6, 2021
Single nucleotide polymorphisms (SNPs) are one type of genetic variations and each SNP represents a difference in a single DNA building block, namely a nucleotide. Previous research demonstrated that SNPs can be used to identify the correct source po...
Genomics Polymorphism, Single Nucleotide Supervised Machine Learning Genetics, Population Principal Component Analysis Humans
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On the Unfounded Enthusiasm for Soft Selective Sweeps III: The Supervised Machine Learning Algorithm That Isn't.

Genes Apr 5, 2021
In the last 15 years or so, soft selective sweep mechanisms have been catapulted from a curiosity of little evolutionary importance to a ubiquitous mechanism claimed to explain most adaptive evolution and, in some cases, most evolution. This transfor...
Genome, Human Selection, Genetic Genetics, Population Machine Learning Humans Algorithms Genetic Drift Adaptation, Physiological Evolution, Molecular Artificial Intelligence
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Path Planning of Mobile Robots Based on a Multi-Population Migration Genetic Algorithm.

Sensors (Basel, Switzerland) Oct 17, 2020
In the field of robot path planning, aiming at the problems of the standard genetic algorithm, such as premature maturity, low convergence path quality, poor population diversity, and difficulty in breaking the local optimal solution, this paper prop...
Genetics, Population Algorithms Computer Simulation Robotics
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How Machine Learning Methods Helped Find Putative Rye Wax Genes Among GBS Data.

International journal of molecular sciences Oct 12, 2020
The standard approach to genetic mapping was supplemented by machine learning (ML) to establish the location of the rye gene associated with epicuticular wax formation (glaucous phenotype). Over 180 plants of the biparental F population were genotype...
Machine Learning Phenotype Genetic Markers Chromosome Mapping Secale Biomarkers Genetics, Population Waxes Quantitative Trait Loci Genotype Genes, Plant
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Deep learning for population size history inference: Design, comparison and combination with approximate Bayesian computation.

Molecular ecology resources Jul 25, 2020
For the past decades, simulation-based likelihood-free inference methods have enabled researchers to address numerous population genetics problems. As the richness and amount of simulated and real genetic data keep increasing, the field has a strong ...
Models, Genetic Bayes Theorem Population Density Deep Learning Computer Simulation Genetics, Population Cattle Animals
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