(Q28285762)

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

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

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

A rapid bootstrap algorithm for the RAxML Web servers

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

PANDIT: an evolution-centric database of protein and associated nucleotide domains with inferred trees

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Heterotachy, an important process of protein evolution

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

MRBAYES: Bayesian inference of phylogenetic trees

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

MODELTEST: testing the model of DNA substitution

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

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

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Likelihood-mapping: a simple method to visualize phylogenetic content of a sequence alignment

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Evolutionary trees from DNA sequences: A maximum likelihood approach

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

ProtTest 3: fast selection of best-fit models of protein evolution

20 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

An index of substitution saturation and its application

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

A new method for calculating evolutionary substitution rates

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Characterizing the phylogenetic tree-search problem

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

ImOSM: intermittent evolution and robustness of phylogenetic methods.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Survey of branch support methods demonstrates accuracy, power, and robustness of fast likelihood-based approximation schemes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Very fast algorithms for evaluating the stability of ML and Bayesian phylogenetic trees from sequence data

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Testing substitution models within a phylogenetic tree

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Dealing with saturation at the amino acid level: a case study based on anciently duplicated zebrafish genes

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

Bootstrap confidence levels for phylogenetic trees

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3670741

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

29 September 2017

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

Bootstrap Methods: Another Look at the Jackknife

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

Confidence Limits on Phylogenies: an Approach using the Bootstrap

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

Statistical tests of models of DNA substitution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

Polytomies and Bayesian phylogenetic inference

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

MISFITS: evaluating the goodness of fit between a phylogenetic model and an alignment.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

How many bootstrap replicates are necessary?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

IQPNNI: moving fast through tree space and stopping in time.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

The prevalence of multifurcations in tree-space and their implications for tree-search

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST024

Should we use model-based methods for phylogenetic inference when we know that assumptions about among-site rate variation and nucleotide substitution pattern are violated?

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23418397

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/MOLBEV/MST024

1 reference

1139878

1139878

1 reference

1 reference

1 reference