A Bayesian phylogenetic method to estimate unknown sequence ages (Q35026062)

5 August 2017

title

A Bayesian phylogenetic method to estimate unknown sequence ages (English)

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5 August 2017

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5 August 2017

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5 August 2017

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Andrew Rambaut

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Oliver G. Pybus

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object named as

Oliver G Pybus

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Marc A. Suchard

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object named as

Marc A Suchard

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5 August 2017

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Simon Y W Ho

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5 August 2017

publication date

1 October 2010

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Molecular Biology and Evolution

5 August 2017

published in

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5 August 2017

volume

28

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5 August 2017

issue

2

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5 August 2017

page(s)

879-887

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Accounting for calibration uncertainty in phylogenetic estimation of evolutionary divergence times

5 August 2017

cites work

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Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics

8 July 2018

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The global spread of hepatitis C virus 1a and 1b: a phylodynamic and phylogeographic analysis

8 July 2018

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The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography

8 July 2018

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Evolutionary analysis of the dynamics of viral infectious disease

8 July 2018

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Phylogeography of lions (Panthera leo ssp.) reveals three distinct taxa and a late Pleistocene reduction in genetic diversity

8 July 2018

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Direct evidence of extensive diversity of HIV-1 in Kinshasa by 1960

8 July 2018

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Out of America: ancient DNA evidence for a new world origin of late quaternary woolly mammoths

8 July 2018

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

8 July 2018

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Surprising migration and population size dynamics in ancient Iberian brown bears (Ursus arctos)

8 July 2018

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Phylogenetic evidence against evolutionary stasis and natural abiotic reservoirs of influenza A virus

8 July 2018

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BEAST: Bayesian evolutionary analysis by sampling trees

8 July 2018

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Ancient biomolecules from deep ice cores reveal a forested southern Greenland

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

HIV evolutionary dynamics within and among hosts

8 July 2018

1 reference

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Assessing ancient DNA studies

8 July 2018

1 reference

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Relaxed phylogenetics and dating with confidence

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Bayesian estimation of the timing and severity of a population bottleneck from ancient DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Assessing the fidelity of ancient DNA sequences amplified from nuclear genes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Invasion and Maintenance of Dengue Virus Type 2 and Type 4 in the Americas

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Characterization of the 1918 influenza virus polymerase genes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Bayesian coalescent inference of past population dynamics from molecular sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Rise and fall of the Beringian steppe bison

8 July 2018

1 reference

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Pleistocene to Holocene extinction dynamics in giant deer and woolly mammoth

8 July 2018

1 reference

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Assessing the Causes of Late Pleistocene Extinctions on the Continents

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Genetic response to climatic change: insights from ancient DNA and phylochronology

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Lack of phylogeography in European mammals before the last glaciation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Inference of viral evolutionary rates from molecular sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Characterization of genetic miscoding lesions caused by postmortem damage

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Rates of evolution in ancient DNA from Adélie penguins.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Dynamics of Pleistocene population extinctions in Beringian brown bears

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

A multispecies overkill simulation of the end-Pleistocene megafaunal mass extinction

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Bayesian selection of continuous-time Markov chain evolutionary models

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Ancient HTLV type 1 provirus DNA of Andean mummy

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Coalescent estimates of HIV-1 generation time in vivo

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

A genetic record of population isolation in pocket gophers during Holocene climatic change

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

An African HIV-1 sequence from 1959 and implications for the origin of the epidemic

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Initial genetic characterization of the 1918 "Spanish" influenza virus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3108556

Improvements to the Pretreatment of Bone at Oxford

8 July 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

217 000-year-old DNA sequences of green sulfur bacteria in Mediterranean sapropels and their implications for the reconstruction of the paleoenvironment

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

Measurably evolving populations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

Limitations of a molecular clock applied to considerations of the origin of HIV-1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

Sudden expansion of a single brown bear maternal lineage across northern continental Eurasia after the last ice age: a general demographic model for mammals?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

Accommodating the effect of ancient DNA damage on inferences of demographic histories

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

Withering away--25,000 years of genetic decline preceded cave bear extinction

21 January 2018

1 reference

https://api.crossref.org/works/10.1093/MOLBEV/MSQ262

21 January 2018

Identifiers

DOI

10.1093/MOLBEV/MSQ262

1 reference

5 August 2017

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5 August 2017

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