(Q34115413)

31 July 2017

title

Estimating population divergence time and phylogeny from single-nucleotide polymorphisms data with outgroup ascertainment bias (English)

1 reference

single-nucleotide polymorphism

31 July 2017

main subject

1 reference

1 reference

1 reference

2

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31 July 2017

Yong Wang

1

1 reference

31 July 2017

publication date

29 December 2011

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31 July 2017

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31 July 2017

volume

21

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31 July 2017

issue

4

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31 July 2017

page(s)

974-986

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Inferring species trees directly from biallelic genetic markers: bypassing gene trees in a full coalescent analysis.

31 July 2017

cites work

1 reference

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Single nucleotide polymorphisms across a species' range: implications for conservation studies of Pacific salmon

5 July 2018

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Application of SNPs for population genetics of nonmodel organisms: new opportunities and challenges

5 July 2018

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Extent of linkage disequilibrium and effective population size in Finnish Landrace and Finnish Yorkshire pig breeds

5 July 2018

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Ascertainment biases in SNP chips affect measures of population divergence

5 July 2018

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Whole-genome SNP association in the horse: identification of a deletion in myosin Va responsible for Lavender Foal Syndrome

5 July 2018

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

5 July 2018

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Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication

5 July 2018

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Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags

5 July 2018

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Effects of ascertainment bias and marker number on estimations of barley diversity from high-throughput SNP genotype data

5 July 2018

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Population differentiation as a test for selective sweeps

5 July 2018

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The divergence of chimpanzee species and subspecies as revealed in multipopulation isolation-with-migration analyses

5 July 2018

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Estimating divergence parameters with small samples from a large number of loci

5 July 2018

1 reference

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Composite likelihood estimation of demographic parameters

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Bayesian inference of species trees from multilocus data

5 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data

5 July 2018

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Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics

5 July 2018

1 reference

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Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Joint estimation of gene conversion rates and mean conversion tract lengths from population SNP 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=3951478

Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Methods for human demographic inference using haplotype patterns from genomewide single-nucleotide 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=3951478

Analysis of East Asia genetic substructure using genome-wide SNP arrays

5 July 2018

1 reference

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A two-stage pruning algorithm for likelihood computation for a population tree

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Effects of spatially varying selection on nucleotide diversity and linkage disequilibrium: insights from deer mouse globin genes

5 July 2018

1 reference

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Worldwide human relationships inferred from genome-wide patterns of 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=3951478

Genotype, haplotype and copy-number variation in worldwide human populations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Ascertainment bias in spatially structured populations: a case study in the eastern fence lizard

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

A worldwide survey of haplotype variation and linkage disequilibrium 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=3951478

Estimating recombination rates from single-nucleotide polymorphisms using summary statistics

5 July 2018

1 reference

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Calibrating a coalescent simulation of human genome sequence 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=3951478

Ascertainment bias in studies of human genome-wide 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=3951478

Population genetic analysis of ascertained SNP 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=3951478

Reconstituting the frequency spectrum of ascertained single-nucleotide 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=3951478

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

THE NUMBER OF ALLELES THAT CAN BE MAINTAINED IN A FINITE POPULATION

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Correcting for ascertainment biases when analyzing SNP data: applications to the estimation of linkage disequilibrium

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

The discovery of single-nucleotide polymorphisms--and inferences about human demographic history

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

dbSNP: the NCBI database 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=3951478

Usefulness of single nucleotide polymorphism data for estimating population parameters

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Gene genealogies within mutant allelic classes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

Line-of-descent and genealogical processes, and their applications in population genetics models.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

The neighbor-joining method: a new method for reconstructing phylogenetic trees

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

The effect of single nucleotide polymorphism identification strategies on estimates of linkage disequilibrium

5 July 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

Evaluating SNP ascertainment bias and its impact on population assignment in Atlantic cod, Gadus morhua.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

SNP discovery in black cottonwood (Populus trichocarpa) by population transcriptome resequencing.

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

Correcting for ascertainment bias in the inference of population structure.

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

STEM: species tree estimation using maximum likelihood for gene trees under coalescence.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

Single nucleotide polymorphisms derived from ancestral populations show no evidence for biased diversity estimates in Drosophila melanogaster

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

Consistency of estimators of population scaled parameters using composite likelihood.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

High-resolution, high-throughput SNP mapping in Drosophila melanogaster

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3951478

SNPs in ecology, evolution and conservation

28 October 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05413.X

Extremely low genetic variability and highly structured local populations of Arabidopsis thaliana at higher latitudes

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22211450

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Jaatha: a fast composite-likelihood approach to estimate demographic parameters

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22211450

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

MAXIMUM-LIKELIHOOD ESTIMATION OF POPULATION DIVERGENCE TIMES AND POPULATION PHYLOGENY IN MODELS WITHOUT MUTATION.

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22211450

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1111/J.1365-294X.2011.05413.X

1 reference

31 July 2017

1 reference

31 July 2017

1 reference