Natural selection affects multiple aspects of genetic variation at putatively neutral sites across the human genome. (Q34055381)

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title

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

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Torben Jørgensen

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Jun Wang

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Anders Albrechtsen

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Thorfinn Korneliussen

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Alison F Feder

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Daniel R. Witte

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Torben Hansen

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Oluf Borbye Pedersen

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Jun Wang

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Rasmus Nielsen

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Torsten Lauritzen

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Ines Hellmann

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Annelli Sandbæk

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Nicolas Vinckenbosch

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Kirk E Lohmueller

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author name string

Yingrui Li

3

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Su Yeon Kim

4

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Geng Tian

7

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Emilia Huerta-Sanchez

8

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Tao Jiang

12

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publication date

13 October 2011

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volume

7

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issue

10

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15 January 2020

page(s)

e1002326

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Creative Commons Attribution 4.0 International

15 January 2020

copyright license

start time

13 October 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

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5 July 2018

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5 July 2018

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

5 July 2018

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5 July 2018

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Recent and ongoing selection in the human genome

5 July 2018

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

5 July 2018

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The Hill-Robertson effect: evolutionary consequences of weak selection and linkage in finite populations

5 July 2018

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Measurement of the human allele frequency spectrum demonstrates greater genetic drift in East Asians than in Europeans

5 July 2018

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5 July 2018

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Widely distributed noncoding purifying selection in the human genome

5 July 2018

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The distribution of fitness effects of new mutations

5 July 2018

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A new approach for using genome scans to detect recent positive selection in the human genome

5 July 2018

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5 July 2018

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Adaptation or biased gene conversion? Extending the null hypothesis of molecular evolution

5 July 2018

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Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model

5 July 2018

1 reference

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Adaptive genic evolution in the Drosophila genomes

5 July 2018

1 reference

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Reduced variation in the yellow-achaete-scute region in natural populations of Drosophila melanogaster.

5 July 2018

1 reference

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Genomic signatures of positive selection in humans and the limits of outlier approaches

5 July 2018

1 reference

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The distribution of fitness effects of new deleterious amino acid mutations in humans

5 July 2018

1 reference

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A map of recent positive selection in the human genome

5 July 2018

1 reference

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Global landscape of recent inferred Darwinian selection for Homo sapiens

5 July 2018

1 reference

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Interrogating multiple aspects of variation in a full resequencing data set to infer human population size changes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Genomic regions exhibiting positive selection identified from dense genotype data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

A fine-scale map of recombination rates and hotspots across the human genome

5 July 2018

1 reference

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

5 July 2018

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Recombination and the properties of Tajima's D in the context of approximate-likelihood calculation

5 July 2018

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DNA sequence polymorphism and divergence at the erect wing and suppressor of sable loci of Drosophila melanogaster and D. simulans

5 July 2018

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Simultaneous inference of selection and population growth from patterns of variation in the human genome

5 July 2018

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Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms

5 July 2018

1 reference

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Population history and natural selection shape patterns of genetic variation in 132 genes

5 July 2018

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Disentangling the effects of demography and selection in human history

5 July 2018

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Genome scans of DNA variability in humans reveal evidence for selective sweeps outside of Africa

5 July 2018

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

5 July 2018

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Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci

5 July 2018

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Estimating ancestral population sizes and divergence times

5 July 2018

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Natural selection at linked sites in humans

5 July 2018

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Interrogating a high-density SNP map for signatures of natural selection

5 July 2018

1 reference

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Human SNP variability and mutation rate are higher in regions of high recombination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Muller's ratchet and the pattern of variation at a neutral locus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Population, evolutionary and genomic consequences of interference selection

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Generating samples under a Wright-Fisher neutral model of genetic variation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Adaptive hitchhiking effects on genome variability.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Single nucleotide polymorphisms and recombination rate in humans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Regions of lower crossing over harbor more rare variants in African populations of Drosophila melanogaster.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Linkage disequilibria and the site frequency spectra in the su(s) and su(w(a)) regions of the Drosophila melanogaster X chromosome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Microsatellite variation and recombination rate in the human genome.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

DNA variability and recombination rates at X-linked loci in humans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Effective size and polymorphism of linked neutral loci in populations under directional selection.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

A test of the background selection hypothesis based on nucleotide data from Drosophila ananassae.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

The pattern of neutral molecular variation under the background selection model

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Deleterious background selection with recombination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Properties of statistical tests of neutrality for DNA polymorphism data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

The effect of deleterious mutations on neutral molecular variation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

The hitchhiking effect on the site frequency spectrum of DNA polymorphisms.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Divergence time and population size in the lineage leading to modern humans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

The hitch-hiking effect of a favourable gene

5 July 2018

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

5 July 2018

12 December 2020

Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

The "hitchhiking effect" revisited

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Statistical method for testing the neutral mutation hypothesis by DNA polymorphism

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Relationship between DNA polymorphism and fixation time.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3192825

Searching for evidence of positive selection in the human genome using patterns of microsatellite variability.

5 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Conserved noncoding sequences are selectively constrained and not mutation cold spots

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Joint inference of the distribution of fitness effects of deleterious mutations and population demography based on nucleotide polymorphism frequencies

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

The coalescent process and background selection

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

A Neutral Explanation for the Correlation of Diversity with Recombination Rates in Humans

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Why do human diversity levels vary at a megabase scale?

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Gene density and human nucleotide polymorphism.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Patterns of divergence among conifer ESTs and polymorphism in Pinus sylvestris identify putative selective sweeps

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Natural selection on synonymous and nonsynonymous mutations shapes patterns of polymorphism in Populus tremula.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Determinants of synonymous and nonsynonymous variability in three species of Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Evolution of protein-coding genes in Drosophila.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Resequencing of 200 human exomes identifies an excess of low-frequency non-synonymous coding variants

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Adaptations to new environments in humans: the role of subtle allele frequency shifts

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

A randomized non-pharmacological intervention study for prevention of ischaemic heart disease: baseline results Inter99.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1002326

Understanding relationship between sequence and functional evolution in yeast proteins

21 January 2018

1 reference

12 December 2020

The effect of recombination on background selection

1 reference

12 December 2020

The ratio of human X chromosome to autosome diversity is positively correlated with genetic distance from genes

1 reference

12 December 2020

Molecular evolution in a multisite nearly neutral mutation model

1 reference

12 December 2020

The ADDITION study: proposed trial of the cost-effectiveness of an intensive multifactorial intervention on morbidity and mortality among people with Type 2 diabetes detected by screening

1 reference

12 December 2020

10.1371/JOURNAL.PGEN.1002326

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22022285%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22022285%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

PubMed publication ID

22022285

1 reference