Genome-scale phylogenetics: inferring the plant tree of life from 18,896 gene trees (Q28742821)

3

Oliver Eulenstein

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Mukul S. Bansal

2

Mukul S Bansal

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André Wehe

5

André Wehe

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J. Gordon Burleigh

1

J Gordon Burleigh

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author name string

Stefanie Hartmann

Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots

4

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language of work or name

English

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publication date

March 2011

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published in

Systematic Biology

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volume

60

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issue

2

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page(s)

117-25

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cites work

1 reference

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Rosid radiation and the rapid rise of angiosperm-dominated forests

17 March 2017

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17 March 2017

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Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms

17 March 2017

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Analysis of 81 genes from 64 plastid genomes resolves relationships in angiosperms and identifies genome-scale evolutionary patterns

17 March 2017

1 reference

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17 March 2017

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ESTimating plant phylogeny: lessons from partitioning

17 March 2017

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Phytome: a platform for plant comparative genomics

17 March 2017

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The cobweb of life revealed by genome-scale estimates of horizontal gene transfer

17 March 2017

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Polyploidy and genome evolution in plants

17 March 2017

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MAFFT version 5: improvement in accuracy of multiple sequence alignment

17 March 2017

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Long branch attraction, taxon sampling, and the earliest angiosperms: Amborella or monocots?

17 March 2017

1 reference

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Genome-scale phylogeny and the detection of systematic biases

17 March 2017

1 reference

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Going nuclear: gene family evolution and vertebrate phylogeny reconciled

17 March 2017

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An efficient algorithm for large-scale detection of protein families

17 March 2017

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Profile hidden Markov models

17 March 2017

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Inferring species trees from gene trees: a phylogenetic analysis of the Elapidae (Serpentes) based on the amino acid sequences of venom proteins

17 March 2017

1 reference

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From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem

17 March 2017

1 reference

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

17 March 2017

1 reference

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The rapid generation of mutation data matrices from protein sequences

17 March 2017

1 reference

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Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments

17 March 2017

1 reference

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Inferring phylogeny despite incomplete lineage sorting

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Efficient genome-scale phylogenetic analysis under the duplication-loss and deep coalescence cost models

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Supertrees join the mainstream of phylogenetics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

The vestigial olfactory receptor subgenome of odontocete whales: phylogenetic congruence between gene-tree reconciliation and supermatrix methods

3 June 2018

1 reference

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DupTree: a program for large-scale phylogenetic analyses using gene tree parsimony

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Estimating species trees using multiple-allele DNA sequence data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

How many genes are there in plants (... and why are they there)?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Inferring angiosperm phylogeny from EST data with widespread gene duplication

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

The evolution of supertrees.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Prospects for building the tree of life from large sequence databases

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

The evolutionary demography of duplicate genes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

How should species phylogenies be inferred from sequence data?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Reconstruction of ancient molecular phylogeny

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Majority-rule reduced consensus trees and their use in bootstrapping

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Angiosperm phylogeny based on matK sequence information

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

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

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

URec: a system for unrooted reconciliation.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

QDist--quartet distance between evolutionary trees.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Vertebrate phylogenomics: reconciled trees and gene duplications

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

NOTUNG: a program for dating gene duplications and optimizing gene family trees

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Extracting Species Trees From Complex Gene Trees: Reconciled Trees And Vertebrate Phylogeny

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3038350

Perils of paralogy: using HSP70 genes for inferring organismal phylogenies

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21186249

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Confidence Limits on Phylogenies: an Approach using the Bootstrap

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21186249