(Q33199482)

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Efficiently resolving the basal clades of a phylogenetic tree using Bayesian and parsimony approaches: a case study using mitogenomic data from 100 higher teleost fishes

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scholarly article

1 reference

Europe PubMed Central

23 July 2017

Efficiently resolving the basal clades of a phylogenetic tree using Bayesian and parsimony approaches: a case study using mitogenomic data from 100 higher teleost fishes (English)

1 reference

Europe PubMed Central

23 July 2017

1 reference

based on heuristic

inferred from title

phylogenetic tree

1 reference

based on heuristic

inferred from title

author name string

Mark P Simmons

1

1 reference

Europe PubMed Central

23 July 2017

Masaki Miya

2

1 reference

Europe PubMed Central

23 July 2017

publication date

1 April 2004

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Europe PubMed Central

23 July 2017

number of pages

12

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based on heuristic

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Molecular Phylogenetics and Evolution

1 reference

Europe PubMed Central

23 July 2017

31

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Europe PubMed Central

23 July 2017

351-362

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Europe PubMed Central

23 July 2017

1

1 reference

Europe PubMed Central

23 July 2017

A new look at the statistical model identification

1 reference

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7 January 2021

Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence

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7 January 2021

Phylogenetic utility of different types of molecular data used to infer evolutionary relationships among stalk-eyed flies (Diopsidae).

1 reference

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7 January 2021

Examining Basal Avian Divergences with Mitochondrial Sequences: Model Complexity, Taxon Sampling, and Sequence Length

1 reference

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7 January 2021

More characters or more taxa for a robust phylogeny--case study from the coffee family (Rubiaceae)

1 reference

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7 January 2021

Data decisiveness, data quality, and incongruence in phylogenetic analysis: an example from the monocotyledons using mitochondrial atp A sequences

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Bootstrap confidence levels for phylogenetic trees

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

THE RETENTION INDEX AND THE RESCALED CONSISTENCY INDEX

1 reference

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7 January 2021

Maximum Likelihood and Minimum-Steps Methods for Estimating Evolutionary Trees from Data on Discrete Characters

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Confidence Limits on Phylogenies: an Approach using the Bootstrap

1 reference

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7 January 2021

Linked branch support and tree stability

1 reference

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7 January 2021

Success of maximum likelihood phylogeny inference in the four-taxon case

1 reference

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7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Phylogenetic position of the order Lagomorpha (rabbits, hares and allies)

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Is it better to add taxa or characters to a difficult phylogenetic problem?

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Inferring complex phylogenies.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Taxonomic sampling, phylogenetic accuracy, and investigator bias

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Experimental Phylogenetics: Generation of a Known Phylogeny

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Application and accuracy of molecular phylogenies

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Is sparse taxon sampling a problem for phylogenetic inference?

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

PHYLOGENY ESTIMATION AND HYPOTHESIS TESTING USING MAXIMUM LIKELIHOOD

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

MRBAYES: Bayesian inference of phylogenetic trees

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Potential applications and pitfalls of Bayesian inference of phylogeny

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

A mitogenomic perspective on the basal teleostean phylogeny: resolving higher-level relationships with longer DNA sequences

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Taxon sampling and the phylogenetic position of Passeriformes: evidence from 916 avian cytochrome b sequences.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Simultaneous parsimony jackknife analysis of 2538rbcL DNA sequences reveals support for major clades of green plants, land plants, seed plants and flowering plants

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

A Concern for Evidence and a Phylogenetic Hypothesis of Relationships Among Epicrates (Boidae, Serpentes)

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Quantitative Phyletics and the Evolution of Anurans

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Markov Chasin Monte Carlo Algorithms for the Bayesian Analysis of Phylogenetic Trees

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Molecular systematics of the eastern fence lizard (Sceloporus undulatus): a comparison of parsimony, likelihood, and Bayesian approaches

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Species sampling has a major impact on phylogenetic inference

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

How many nucleotides are required to resolve a phylogenetic problem? The use of a new statistical method applicable to available sequences

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Phylogenetic relationships of the liverworts (Hepaticae), a basal embryophyte lineage, inferred from nucleotide sequence data of the chloroplast gene rbcL.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Bayesian phylogenetic inference via Markov chain Monte Carlo methods.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Assessing progress in systematics with continuous jackknife function analysis

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Use of mitogenomic information in teleostean molecular phylogenetics: a tree-based exploration under the maximum-parsimony optimality criterion

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Mitogenomic exploration of higher teleostean phylogenies: a case study for moderate-scale evolutionary genomics with 38 newly determined complete mitochondrial DNA sequences

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Major patterns of higher teleostean phylogenies: a new perspective based on 100 complete mitochondrial DNA sequences.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

A Combined Cladistic Analysis of Angiosperms Using rbcL and Non-Molecular Data Sets

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Progress with methods for constructing evolutionary trees.

1 reference

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7 January 2021

Sensitivity of phylogeny estimation to taxonomic sampling

1 reference

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7 January 2021

Taxon sampling revisited

1 reference

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7 January 2021

Assessing an unknown evolutionary process: effect of increasing site-specific knowledge through taxon addition.

1 reference

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7 January 2021

Increased taxon sampling is advantageous for phylogenetic inference

1 reference

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7 January 2021

MODELTEST: testing the model of DNA substitution

1 reference

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7 January 2021

Selecting models of nucleotide substitution: an application to human immunodeficiency virus 1 (HIV-1).

1 reference

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7 January 2021

Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference

1 reference

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7 January 2021

Taxon sampling and the accuracy of large phylogenies

1 reference

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7 January 2021

Calibrating the bootstrap test of monophyly.

1 reference

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7 January 2021

Incomplete taxon sampling is not a problem for phylogenetic inference

1 reference

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7 January 2021

Taxon sampling, bioinformatics, and phylogenomics

1 reference

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7 January 2021

Parametric phylogenetics?

1 reference

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7 January 2021

Improved bootstrap confidence limits in large-scale phylogenies, with an example from Neo-Astragalus (Leguminosae).

1 reference

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7 January 2021

Sources of incongruence among mammalian mitochondrial sequences: COII, COIII, and ND6 genes are main contributors.

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

The effects of increasing genetic distance on alignment of, and tree construction from, rDNA internal transcribed spacer sequences

1 reference

https://api.crossref.org/works/10.1016%2FJ.YMPEV.2003.08.004

7 January 2021

Incorporation, relative homoplasy, and effect of gap characters in sequence-based phylogenetic analyses

1 reference

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7 January 2021

Amino acid vs. nucleotide characters: challenging preconceived notions

1 reference

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7 January 2021

Phylogenetic analysis of GBV-C/hepatitis G virus.

1 reference

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7 January 2021

Inferring complex phylogenies using parsimony: an empirical approach using three large DNA data sets for angiosperms

1 reference

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7 January 2021

Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics

1 reference

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7 January 2021

Complete nucleotide sequence of an Indian strain of Japanese encephalitis virus: sequence comparison with other strains and phylogenetic analysis.

1 reference

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7 January 2021

Phylogeny of the tree swallow genus, Tachycineta (Aves: Hirundinidae), by Bayesian analysis of mitochondrial DNA sequences

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Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support.

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7 January 2021

Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs

1 reference

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7 January 2021

On the best evolutionary rate for phylogenetic analysis.

1 reference

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7 January 2021

Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo Method

1 reference

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Phylogeny of the Lemuridae: Effects of Character and Taxon Sampling on Resolution of Species Relationships within Eulemur

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Increased taxon sampling greatly reduces phylogenetic error

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10.1016/J.YMPEV.2003.08.004

1 reference

Europe PubMed Central

23 July 2017

1 reference

Europe PubMed Central

23 July 2017

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