Predicting the landscape of recombination using deep learning

scientific article published on 20 February 2020

Predicting the landscape of recombination using deep learning is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1093/MOLBEV/MSAA038
P932PMC publication ID7253213
P698PubMed publication ID32077950

P2093author name stringAndrew D Kern
Jeffrey R Adrion
Jared G Galloway
P2860cites workSensitive detection of chromosomal segments of distinct ancestry in admixed populationsQ21563344
Chromosomal inversions and the reproductive isolation of speciesQ24555146
Sequencing of 50 human exomes reveals adaptation to high altitudeQ24599025
A global reference for human genetic variationQ25909434
Intensely punctate meiotic recombination in the class II region of the major histocompatibility complexQ28190352
The hitch-hiking effect of a favourable geneQ28241578
Recombination, Pairing, and Synapsis of Homologs during MeiosisQ28262099
Generating samples under a Wright-Fisher neutral model of genetic variationQ29547168
A fine-scale map of recombination rates and hotspots across the human genomeQ29614885
Statistical properties of the number of recombination events in the history of a sample of DNA sequencesQ29617408
Evolution and functional impact of rare coding variation from deep sequencing of human exomesQ29617587
The landscape of recombination in African AmericansQ30428393
LDx: estimation of linkage disequilibrium from high-throughput pooled resequencing dataQ30577510
Modeling linkage disequilibrium and identifying recombination hotspots using single-nucleotide polymorphism dataQ30887013
Estimating meiotic gene conversion rates from population genetic dataQ31120086
The genomics of speciation in Drosophila: diversity, divergence, and introgression estimated using low-coverage genome sequencing.Q33478384
The Suppression of Crossing Over in Inversion Heterozygotes of Drosophila PseudoobscuraQ33709474
A Case of Rearrangement of Genes in DrosophilaQ33760658
Chromosomal rearrangements and speciationQ33951087
Linkage disequilibrium in growing and stable populationsQ33962938
Meiotic gene conversion tract length distribution within the rosy locus of Drosophila melanogaster.Q33963278
The evolution of recombination: removing the limits to natural selection.Q33971025
An Analysis of Crossing over within a Heterozygous Inversion in Drosophila MelanogasterQ33975788
Demographic history and rare allele sharing among human populationsQ34197613
Intense and highly localized gene conversion activity in human meiotic crossover hot spotsQ34287628
Population genomics of inversion polymorphisms in Drosophila melanogasterQ34531209
Population Genomics of sub-saharan Drosophila melanogaster: African diversity and non-African admixtureQ34531227
Genome-wide fine-scale recombination rate variation in Drosophila melanogasterQ34531234
Chromosome inversions, local adaptation and speciationQ34611508
Patterns of DNA sequence variation suggest the recent action of positive selection in the janus-ocnus region of Drosophila simulansQ34613484
A coalescent-based method for detecting and estimating recombination from gene sequencesQ34614575
Linkage disequilibrium as a signature of selective sweepsQ34645314
Speciation and introgression between Mimulus nasutus and Mimulus guttatusQ35195390
On the minimum number of topologies explaining a sample of DNA sequences.Q52028639
diploS/HIC: An Updated Approach to Classifying Selective Sweeps.Q52329556
Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia.Q52570069
Natural selection interacts with recombination to shape the evolution of hybrid genomes.Q52576603
Comparison of fine-scale recombination rates in humans and chimpanzees.Q52841523
Chromosomal inversion polymorphism in Afrotropical populations of Drosophila melanogasterQ57110863
Meiotic recombination: Breaking the genome to save itQ58486284
Estimating the recombination parameter of a finite population model without selectionQ68687847
Development of associative overdominance through linkage disequilibrium in finite populationsQ71692315
A general model for the evolution of recombinationQ71859154
The effect of linkage on limits to artificial selectionQ72951099
Using the variance of pairwise differences to estimate the recombination rateQ73368590
A comparison of estimators of the population recombination rateQ73428061
Why is there so little intragenic linkage disequilibrium in humans?Q73886329
Interchromosomal effects on crossing over in DrosophilaQ76199547
The Unreasonable Effectiveness of Convolutional Neural Networks in Population Genetic InferenceQ90280655
ImaGene: a convolutional neural network to quantify natural selection from genomic dataQ91401082
The Drosophila genome nexus: a population genomic resource of 623 Drosophila melanogaster genomes, including 197 from a single ancestral range populationQ35342526
Exploring population size changes using SNP frequency spectraQ35554423
Soft shoulders ahead: spurious signatures of soft and partial selective sweeps result from linked hard sweepsQ35579812
LD Score regression distinguishes confounding from polygenicity in genome-wide association studiesQ35831121
Efficient Coalescent Simulation and Genealogical Analysis for Large Sample SizesQ36008382
A Genomic Map of the Effects of Linked Selection in DrosophilaQ36106724
Genomic variation in natural populations of Drosophila melanogasterQ36268123
The many landscapes of recombination in Drosophila melanogasterQ36312128
Confounding between recombination and selection, and the Ped/Pop method for detecting selectionQ36804859
Fine-scale heterogeneity in crossover rate in the garnet-scalloped region of the Drosophila melanogaster X chromosomeQ36878590
A fast estimate for the population recombination rate based on regression.Q36878634
New Software for the Fast Estimation of Population Recombination Rates (FastEPRR) in the Genomic Era.Q36958136
Third Chromosome Balancer Inversions Disrupt Protein-Coding Genes and Influence Distal Recombination Events in Drosophila melanogaster.Q37079555
Double-strand break repair assays determine pathway choice and structure of gene conversion events in Drosophila melanogasterQ38400007
Variation in Recombination Rate: Adaptive or Not?Q38866641
Robust and scalable inference of population history from hundreds of unphased whole genomesQ39064218
Discoal: flexible coalescent simulations with selectionQ39455460
How population growth affects linkage disequilibriumQ42009763
Chromosome segregation mechanismsQ42126003
Bounds on the minimum number of recombination events in a sample history.Q42261142
Inferring human population size and separation history from multiple genome sequencesQ42757914
Recombination modification in a flucturating environmentQ42974040
Reproductive isolation and local adaptation quantified for a chromosome inversion in a malaria mosquitoQ44169260
Fine-scale recombination rate differences between sexes, populations and individualsQ46584231
Recombination rate variation in mice from an isolated islandQ47141782
Supervised Machine Learning for Population Genetics: A New ParadigmQ47733861
P275copyright licenseCreative Commons Attribution-NonCommercial 4.0 InternationalQ34179348
P6216copyright statuscopyrightedQ50423863
P4510describes a project that usesdeep learningQ197536
P921main subjectdeep learningQ197536
P577publication date2020-02-20
P1433published inMolecular Biology and EvolutionQ1992656
P1476titlePredicting the landscape of recombination using deep learning

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Q97587047rdmc: An Open Source R Package Implementing Convergent Adaptation Models of Lee and Coop (2017)cites workP2860

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