(Q42044439)

15 October 2017

The genetic code can cause systematic bias in simple phylogenetic models (English)

1 reference

15 October 2017

1 reference

1 reference

Simon Whelan

1

1 reference

PMCID

2607415

15 October 2017

language of work or name

English

0 references

publication date

1 December 2008

1 reference

Philosophical Transactions of the Royal Society B

15 October 2017

1 reference

15 October 2017

363

1 reference

15 October 2017

4003-4011

1 reference

15 October 2017

1512

1 reference

PAML 4: phylogenetic analysis by maximum likelihood

15 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Bushes in the tree of life

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Phylogenomics and the reconstruction of the tree of life

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Exploring among-site rate variation models in a maximum likelihood framework using empirical data: effects of model assumptions on estimates of topology, branch lengths, and bootstrap support

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Molecular phylogenetics: state-of-the-art methods for looking into the past

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

A kingdom-level phylogeny of eukaryotes based on combined protein data

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Codon-substitution models for heterogeneous selection pressure at amino acid sites

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

AIDS as a zoonosis: scientific and public health implications

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

MODELTEST: testing the model of DNA substitution

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Modeling the covarion hypothesis of nucleotide substitution.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

The evolution of prokaryotic ferredoxins--with a general method correcting for unobserved substitutions in less branched lineages

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Phylogenetic mixtures on a single tree can mimic a tree of another topology.

5 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

New approaches to phylogenetic tree search and their application to large numbers of protein alignments.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

The identifiability of tree topology for phylogenetic models, including covarion and mixture models.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Is the Felsenstein zone a fly trap?

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Parsimony, likelihood, and the role of models in molecular phylogenetics.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Combining protein evolution and secondary structure

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2607415

Cases in which Parsimony or Compatibility Methods will be Positively Misleading

17 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1098%2FRSTB.2008.0171

Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1098%2FRSTB.2008.0171

A Stochastic Model for the Evolution of Autocorrelated DNA Sequences

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1098%2FRSTB.2008.0171

On the consistency of maximum likelihood estimation of phylogenetic trees from nucleotide sequences

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18852102

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Animal evolution and the molecular signature of radiations compressed in time

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18852102

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Spatial and temporal heterogeneity in nucleotide sequence evolution

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18852102

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1098/RSTB.2008.0171

1 reference

15 October 2017

1 reference

15 October 2017

1 reference

PMCID

2607415