Genes with minimal phylogenetic information are problematic for coalescent analyses when gene tree estimation is biased (Q40792571)

23 September 2017

Genes with minimal phylogenetic information are problematic for coalescent analyses when gene tree estimation is biased (English)

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23 September 2017

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Charles Cavender Davis

series ordinal

3

object named as

Charles C Davis

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23 September 2017

Zhenxiang Xi

1

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PubMed ID

26115844

23 September 2017

Liang Liu

series ordinal

2

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23 September 2017

24 June 2015

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Molecular Phylogenetics and Evolution

23 September 2017

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23 September 2017

92

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23 September 2017

63-71

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Naive binning improves phylogenomic analyses

23 September 2017

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

A phylogenomics approach for selecting robust sets of phylogenetic markers

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria)

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

The supermatrix approach to systematics

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Gene tree discordance, phylogenetic inference and the multispecies coalescent

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Is a new and general theory of molecular systematics emerging?

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Confidence Limits on Phylogenies: an Approach using the Bootstrap

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Concatenation versus coalescence versus "concatalescence".

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Phylogenetic analysis at deep timescales: unreliable gene trees, bypassed hidden support, and the coalescence/concatalescence conundrum

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Bayesian inference of species trees from multilocus data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Application and accuracy of molecular phylogenies

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

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

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

The accuracy of species tree estimation under simulation: a comparison of methods

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

BEST: Bayesian estimation of species trees under the coalescent model.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Phybase: an R package for species tree analysis.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Estimating species trees from unrooted gene trees.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Estimating species trees using multiple-allele DNA sequence data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Coalescent methods for estimating phylogenetic trees

7 January 2021

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https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Estimating species phylogenies using coalescence times among sequences.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

A maximum pseudo-likelihood approach for estimating species trees under the coalescent model

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Coalescent methods are robust to the simultaneous effects of long branches and incomplete lineage sorting

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Impacts of the Cretaceous Terrestrial Revolution and KPg extinction on mammal diversification

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

ASTRAL: genome-scale coalescent-based species tree estimation

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Long identical multispecies elements in plant and animal genomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Calculating bootstrap probabilities of phylogeny using multilocus sequence data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Resolving conflict in eutherian mammal phylogeny using phylogenomics and the multispecies coalescent model

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Land plant origins and coalescence confusion

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

A rapid bootstrap algorithm for the RAxML Web servers

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Profiling phylogenetic informativeness

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Combining data in phylogenetic analysis

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Coalescent-based species tree inference from gene tree topologies under incomplete lineage sorting by maximum likelihood.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Reply to Gatesy and Springer: the multispecies coalescent model can effectively handle recombination and gene tree heterogeneity

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Phylogenomics and coalescent analyses resolve extant seed plant relationships

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Coalescent versus concatenation methods and the placement of Amborella as sister to water lilies

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

Origin of land plants using the multispecies coalescent model

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

The multispecies coalescent model and land plant origins: a reply to Springer and Gatesy

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2015.06.009

10.1016/J.YMPEV.2015.06.009

7 January 2021

Identifiers

DOI

1 reference

23 September 2017

1 reference

PubMed ID

26115844