Inferring heterogeneous evolutionary processes through time: from sequence substitution to phylogeography (Q33749440)

29 July 2017

Inferring heterogeneous evolutionary processes through time: from sequence substitution to phylogeography (English)

1 reference

29 July 2017

0 references

4

Andrew Rambaut

0 references

Philippe Lemey

2

Philippe Lemey

0 references

Filip Bielejec

1

Filip Bielejec

0 references

Guy Baele

3

Guy Baele

0 references

Marc A. Suchard

5

Marc A Suchard

1 reference

29 July 2017

12 March 2014

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29 July 2017

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29 July 2017

63

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29 July 2017

4

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29 July 2017

493-504

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Creative Commons Attribution 3.0 Unported

29 July 2017

start time

6 January 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

Distinguishable epidemics of multidrug-resistant Salmonella Typhimurium DT104 in different hosts

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Bayesian evolutionary model testing in the phylogenomics era: matching model complexity with computational efficiency

21 June 2018

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Graph hierarchies for phylogeography

21 June 2018

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Simultaneously reconstructing viral cross-species transmission history and identifying the underlying constraints

21 June 2018

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Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci

21 June 2018

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Accurate model selection of relaxed molecular clocks in bayesian phylogenetics

21 June 2018

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Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty

21 June 2018

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Bayesian phylogenetics with BEAUti and the BEAST 1.7

21 June 2018

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Temporally structured metapopulation dynamics and persistence of influenza A H3N2 virus in humans

21 June 2018

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BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics

21 June 2018

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SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics

21 June 2018

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Impact of CCR5delta32 host genetic background and disease progression on HIV-1 intrahost evolutionary processes: efficient hypothesis testing through hierarchical phylogenetic models

21 June 2018

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Bayesian random local clocks, or one rate to rule them all

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Bayesian phylogeography finds its roots

21 June 2018

1 reference

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The primary divisions of life: a phylogenomic approach employing composition-heterogeneous methods

21 June 2018

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Many-core algorithms for statistical phylogenetics

21 June 2018

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Dynamic correlation between intrahost HIV-1 quasispecies evolution and disease progression

21 June 2018

1 reference

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The perils of plenty: what are we going to do with all these genes?

21 June 2018

1 reference

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Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics

21 June 2018

1 reference

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A site- and time-heterogeneous model of amino acid replacement.

21 June 2018

1 reference

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Synonymous substitution rates predict HIV disease progression as a result of underlying replication dynamics

21 June 2018

1 reference

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A Bayesian compound stochastic process for modeling nonstationary and nonhomogeneous sequence evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Relaxed phylogenetics and dating with confidence

21 June 2018

1 reference

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Models for estimating bayes factors with applications to phylogeny and tests of monophyly

21 June 2018

1 reference

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Bayesian coalescent inference of past population dynamics from molecular sequences

21 June 2018

1 reference

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Modeling compositional heterogeneity

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Hierarchical Phylogenetic Models for Analyzing Multipartite Sequence Data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

A nonhyperthermophilic common ancestor to extant life forms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Variation in the pattern of nucleotide substitution across sites

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Inferring pattern and process: maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

A codon-based model of nucleotide substitution for protein-coding DNA sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

On the use of nucleic acid sequences to infer early branchings in the tree of life

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Evolutionary trees from DNA sequences: A maximum likelihood approach

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

Adaptation in the env gene of HIV-1 and evolutionary theories of disease progression.

21 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU015

A statistical characterization of consistent patterns of human immunodeficiency virus evolution within infected patients

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FSYSBIO%2FSYU015

Modelling the evolution of protein coding sequences sampled from Measurably Evolving Populations.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4055869

30 October 2018

Identifiers

DOI

10.1093/SYSBIO/SYU015

1 reference

29 July 2017

1 reference

1 reference

29 July 2017

1 reference

PubMed ID

24627184