(Q45947473)

15 June 2018

title

Soft Sweeps Are the Dominant Mode of Adaptation in the Human Genome. (English)

1 reference

15 June 2018

author name string

Daniel R Schrider

series ordinal

1

1 reference

15 June 2018

Andrew D Kern

series ordinal

2

1 reference

15 June 2018

publication date

1 August 2017

1 reference

15 June 2018

Molecular Biology and Evolution

published in

1 reference

15 June 2018

volume

34

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15 June 2018

issue

8

1 reference

15 June 2018

page(s)

1863-1877

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15 June 2018

Creative Commons Attribution 4.0 International

copyright license

start time

8 May 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Effects of Linked Selective Sweeps on Demographic Inference and Model Selection

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S/HIC: Robust Identification of Soft and Hard Sweeps Using Machine Learning

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Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs

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16 June 2018

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Inferring Selective Constraint from Population Genomic Data Suggests Recent Regulatory Turnover in the Human Brain

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16 June 2018

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16 June 2018

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16 June 2018

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Hierarchical boosting: a machine-learning framework to detect and classify hard selective sweeps in human populations

16 June 2018

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A Coalescent Model for a Sweep of a Unique Standing Variant

16 June 2018

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Peto's paradox and the hallmarks of cancer: constructing an evolutionary framework for understanding the incidence of cancer

16 June 2018

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Soft shoulders ahead: spurious signatures of soft and partial selective sweeps result from linked hard sweeps

16 June 2018

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Recent selective sweeps in North American Drosophila melanogaster show signatures of soft sweeps

16 June 2018

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Recent coselection in human populations revealed by protein-protein interaction network

16 June 2018

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16 June 2018

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OMIM.org: Online Mendelian Inheritance in Man (OMIM®), an online catalog of human genes and genetic disorders

16 June 2018

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16 June 2018

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16 June 2018

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The population genetics of evolutionary rescue

16 June 2018

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A population genetic signal of polygenic adaptation

16 June 2018

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Soft selective sweeps in complex demographic scenarios.

16 June 2018

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Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA

16 June 2018

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16 June 2018

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Genome-wide signals of positive selection in human evolution

16 June 2018

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Neutral genomic regions refine models of recent rapid human population growth

16 June 2018

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Differential Strengths of Positive Selection Revealed by Hitchhiking Effects at Small Physical Scales in Drosophila melanogaster

16 June 2018

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16 June 2018

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1000 Genomes Selection Browser 1.0: a genome browser dedicated to signatures of natural selection in modern humans

16 June 2018

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dbPSHP: a database of recent positive selection across human populations

16 June 2018

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The evolution of lineage-specific regulatory activities in the human embryonic limb

16 June 2018

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Learning natural selection from the site frequency spectrum

16 June 2018

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The Genotype-Tissue Expression (GTEx) project

16 June 2018

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Distinguishing between selective sweeps from standing variation and from a de novo mutation

16 June 2018

1 reference

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Cadm1 is a metastasis susceptibility gene that suppresses metastasis by modifying tumor interaction with the cell-mediated immunity

16 June 2018

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16 June 2018

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An integrated encyclopedia of DNA elements in the human genome

16 June 2018

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The GENCODE pseudogene resource

16 June 2018

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Rate of de novo mutations and the importance of father's age to disease risk

16 June 2018

1 reference

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Genomic variation in natural populations of Drosophila melanogaster

16 June 2018

1 reference

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Extension of cortical synaptic development distinguishes humans from chimpanzees and macaques

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome.

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Evidence for hitchhiking of deleterious mutations within the human genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Crohn's disease and genetic hitchhiking at IBD5

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Inference of human population history from individual whole-genome sequences

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Demographic history and rare allele sharing among human populations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Autism spectrum disorder is related to endoplasmic reticulum stress induced by mutations in the synaptic cell adhesion molecule, CADM1.

16 June 2018

1 reference

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Pervasive adaptive protein evolution apparent in diversity patterns around amino acid substitutions in Drosophila simulans

16 June 2018

1 reference

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Classic selective sweeps were rare in recent human evolution

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Evidence that adaptation in Drosophila is not limited by mutation at single sites

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Searching for footprints of positive selection in whole-genome SNP data from nonequilibrium populations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Fast model-based estimation of ancestry in unrelated individuals

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Constructing genomic maps of positive selection in humans: where do we go from here?

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Signals of recent positive selection in a worldwide sample of human populations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

An approximate bayesian estimator suggests strong, recurrent selective sweeps in Drosophila

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The influence of gene conversion on linkage disequilibrium around a selective sweep

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Assessing the evolutionary impact of amino acid mutations in the human genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Positive selection in East Asians for an EDAR allele that enhances NF-kappaB activation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Genomewide spatial correspondence between nonsynonymous divergence and neutral polymorphism reveals extensive adaptation in Drosophila

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

ORegAnno: an open-access community-driven resource for regulatory annotation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Statistical evaluation of alternative models of human evolution

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Genome-wide detection and characterization of positive selection in human populations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Localizing recent adaptive evolution in the human genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Soft sweeps III: the signature of positive selection from recurrent mutation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Convergent adaptation of human lactase persistence in Africa and Europe

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Loss of TSLC1 causes male infertility due to a defect at the spermatid stage of spermatogenesis

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Soft sweeps II--molecular population genetics of adaptation from recurrent mutation or migration

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

A map of recent positive selection in the human genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Genomic scans for selective sweeps using SNP data

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

A scan for positively selected genes in the genomes of humans and chimpanzees

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Soft sweeps: molecular population genetics of adaptation from standing genetic variation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Glutamate and GABA receptor signalling in the developing brain.

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Linkage disequilibrium as a signature of selective sweeps

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Pattern of polymorphism after strong artificial selection in a domestication event

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The allele frequency spectrum in genome-wide human variation data reveals signals of differential demographic history in three large world populations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The UCSC Table Browser data retrieval tool

16 June 2018

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Heteromer formation of delta2 glutamate receptors with AMPA or kainate receptors

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Genomic effects of nucleotide substitutions in Drosophila simulans.

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Detecting recent positive selection in the human genome from haplotype structure

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Analysis of 11q21-24 loss of heterozygosity candidate target genes in breast cancer: indications of TSLC1 promoter hypermethylation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Promoter methylation of TSLC1 and tumor suppression by its gene product in human prostate cancer

16 June 2018

1 reference

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The human genome browser at UCSC

16 June 2018

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16 June 2018

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Detecting a local signature of genetic hitchhiking along a recombining chromosome.

16 June 2018

1 reference

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The rapid evolution of reproductive proteins

16 June 2018

1 reference

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TSLC1 is a tumor-suppressor gene in human non-small-cell lung cancer

16 June 2018

1 reference

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Initial sequencing and analysis of the human genome

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Haldane's sieve and adaptation from the standing genetic variation.

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Hitchhiking under positive Darwinian selection

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Genetic drift in an infinite population. The pseudohitchhiking model

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Dating the origin of the CCR5-Delta32 AIDS-resistance allele by the coalescence of haplotypes

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

A test of neutrality based on interlocus associations

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The effect of deleterious mutations on neutral molecular variation

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Analysis of a genetic hitchhiking model, and its application to DNA polymorphism data from Drosophila melanogaster

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Natural selection of hemi- and heterozygotes for G6PD deficiency in Africa by resistance to severe malaria

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The hitch-hiking effect of a favourable gene

16 June 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

16 June 2018

https://pubmed.ncbi.nlm.nih.gov/28482049

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Effects of linkage on rates of molecular evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

The "hitchhiking effect" revisited

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Statistical method for testing the neutral mutation hypothesis by DNA polymorphism

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

On the number of segregating sites in genetical models without recombination

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Mathematical model for studying genetic variation in terms of restriction endonucleases

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Targeted disruption of the spermatid-specific gene Spata31 causes male infertility.

16 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

A complex of synaptic adhesion molecule CADM1, a molecule related to autism spectrum disorder, with MUPP1 in the cerebellum.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Recombination and hitchhiking of deleterious alleles

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Distinguishing positive selection from neutral evolution: boosting the performance of summary statistics.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Fine-scale recombination rate differences between sexes, populations and individuals

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Mutations in the gene encoding CADM1 are associated with autism spectrum disorder.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5850737

Extremely randomized trees

15 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSX154

Refining the impact of TCF7L2 gene variants on type 2 diabetes and adaptive evolution

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSX154

A direct approach to false discovery rates

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSX154

The signature of positive selection on standing genetic variation

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28482049

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A new test for detecting recent positive selection that is free from the confounding impacts of demography

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28482049

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/MOLBEV/MSX154

1 reference

15 June 2018

PMC publication ID

5850737

1 reference

15 June 2018

PubMed publication ID

28482049

1 reference

15 June 2018