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Unifying the Epidemiological and Evolutionary Dynamics of Pathogens -- Grenfell et al. 303 (5656): 327 -- Science
http://www.sciencemag.org/cgi/content/full/303/5656/327
http://www.sciencemag.org/cgi/content/full/303/5656/327
4 years and 11 months ago
by
peter.ralph
1
phylogenetics
viruses
phylogenetics
viruses
(0)
R-Phylo Wiki
http://www.r-phylo.org/wiki/Main_Page
http://www.r-phylo.org/wiki/Main_Page
5 years and 2 months ago
by
peter.ralph
1
R
phylogenetics
reference
R
phylogenetics
reference
(0)
R-sig-phylo Info Page
mailing list ·
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
mailing list ·
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
5 years and 2 months ago
by
peter.ralph
1
R
phylogenetics
reference
R
phylogenetics
reference
(0)
Insights from modeling protein evolution with context-dependent mutation and asymmetric amino acid selection
C T Saunders
, and
P Green
.
Mol Biol Evol
24(12):2632-2647
(
December 2007
)
C T Saunders
, and
P Green
.
Mol Biol Evol
24(12):2632-2647
(
December 2007
)
8 days ago
by
peter.ralph
1
Markov_chain
context-dependent-mutation
data_augmentation
phylogenetics
Markov_chain
context-dependent-mutation
data_augmentation
phylogenetics
(0)
URL
DOI
TeX
Correcting for Purifying Selection: An Improved Human Mitochondrial Molecular Clock
Pedro Soares
,
Luca Ermini
,
Noel Thomson
,
Maru Mormina
,
Teresa Rito
,
Arne Röhl
,
Antonio Salas
,
Stephen Oppenheimer
,
Vincent Macaulay
, and
Martin B. Richards
.
The American Journal of Human Genetics
84(6):740 - 759
(
2009
)
Pedro Soares
,
Luca Ermini
,
Noel Thomson
,
Maru Mormina
,
Teresa Rito
,
Arne Röhl
,
Antonio Salas
,
Stephen Oppenheimer
,
Vincent Macaulay
, and
Martin B. Richards
.
The American Journal of Human Genetics
84(6):740 - 759
(
2009
)
a year and a month ago
by
peter.ralph
1
mtDNA
phylogenetics
selection
mtDNA
phylogenetics
selection
(0)
URL
DOI
TeX
Genetic evidence for complex speciation of humans and chimpanzees
Nick Patterson
,
Daniel J. Richter
,
Sante Gnerre
,
Eric S. Lander
, and
David Reich
.
Nature
441(7097):1103--1108
(
June 2006
)
Nick Patterson
,
Daniel J. Richter
,
Sante Gnerre
,
Eric S. Lander
, and
David Reich
.
Nature
441(7097):1103--1108
(
June 2006
)
2 years and a month ago
by
peter.ralph
2
human_chimp
hybrids
lineage_sorting
phylogenetics
population_genomics
speciation
human_chimp
hybrids
lineage_sorting
phylogenetics
population_genomics
speciation
(0)
URL
DOI
TeX
Phylogenetic signal and linear regression on species data
Liam J. Revell
.
Methods in Ecology and Evolution
1(4):319--329
(
2010
)
Liam J. Revell
.
Methods in Ecology and Evolution
1(4):319--329
(
2010
)
2 years and 3 months ago
by
peter.ralph
1
least_squares
pagels_lambda
phylogenetic_signal
phylogenetics
regression
least_squares
pagels_lambda
phylogenetic_signal
phylogenetics
regression
(0)
URL
DOI
TeX
MODEL SELECTION IN PHYLOGENETICS
Jack Sullivan
, and
Paul Joyce
.
Annual Reviews Ecology, Evolution, and Systematics
(
2005
)
Jack Sullivan
, and
Paul Joyce
.
Annual Reviews Ecology, Evolution, and Systematics
(
2005
)
2 years and 4 months ago
by
peter.ralph
1
decision_theory
model_selection
phylogenetics
revidw
statistics
decision_theory
model_selection
phylogenetics
revidw
statistics
(0)
URL
DOI
TeX
A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns
Tomislav Domazet-Loso
, and
Diethard Tautz
.
Nature
468(7325):815--818
(
December 2010
)
Tomislav Domazet-Loso
, and
Diethard Tautz
.
Nature
468(7325):815--818
(
December 2010
)
2 years and 5 months ago
by
peter.ralph
1
developmental_hourglass
ontogeny_and_phylogeny
phylogenetics
transcriptome
zebrafish
developmental_hourglass
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phylogenetics
transcriptome
zebrafish
(0)
URL
DOI
TeX
Phylogenetic Comparative Analysis: A Modeling Approach for Adaptive Evolution
Marguerite A. Butler
, and
Aaron A. King
.
The American Naturalist
164(6):pp. 683-695
(
2004
)
Marguerite A. Butler
, and
Aaron A. King
.
The American Naturalist
164(6):pp. 683-695
(
2004
)
2 years and 7 months ago
by
peter.ralph
1
Ornstein-Uhlenbeck
phylogenetic_signal
phylogenetics
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phylogenetic_signal
phylogenetics
(0)
URL
DOI
TeX
Statistical tests of models of DNA substitution
N Goldman
.
J Mol Evol
36(2):182-198
(
February 1993
)
N Goldman
.
J Mol Evol
36(2):182-198
(
February 1993
)
2 years and 9 months ago
by
peter.ralph
2
bootstrap
likelihood_ratio
phylogenetics
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likelihood_ratio
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URL
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A Likelihood Ratio Test to Detect Conflicting Phylogenetic Signal
John P. Huelsenbeck
, and
J. J. Bull
.
Syst Biol
45(1):92-98
(
1996
)
John P. Huelsenbeck
, and
J. J. Bull
.
Syst Biol
45(1):92-98
(
1996
)
2 years and 9 months ago
by
peter.ralph
1
bootstrap
likelihood_ratio
phylogenetics
bootstrap
likelihood_ratio
phylogenetics
(0)
URL
DOI
TeX
Bayesian Analysis of Correlated Evolution of Discrete Characters by Reversible‐Jump Markov Chain Monte Carlo.
Mark Pagel
, and
Andrew Meade
.
The American Naturalist
167(6):808-825
(
2006
)
Mark Pagel
, and
Andrew Meade
.
The American Naturalist
167(6):808-825
(
2006
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3 years and 3 months ago
by
peter.ralph
1
Bayesian
character_reconstruction
phylogenetics
Bayesian
character_reconstruction
phylogenetics
(0)
URL
DOI
TeX
Bayesian Estimation of Ancestral Character States on Phylogenies
?
.
Systematic Biology
(
Number 5/October 2004
)
?
.
Systematic Biology
(
Number 5/October 2004
)
3 years and 6 months ago
by
peter.ralph
1
Bayesian
MCMC
ancestral_states
fitness_landscapes
peak_shifts
phylogenetics
Bayesian
MCMC
ancestral_states
fitness_landscapes
peak_shifts
phylogenetics
(0)
URL
DOI
TeX
On the Genealogy of a Rare Allele
Bruce Rannala
.
Theoretical Population Biology
52(3):216-223
(
1997
)
Bruce Rannala
.
Theoretical Population Biology
52(3):216-223
(
1997
)
4 years and 4 months ago
by
peter.ralph
1
branching_process_approximation
branching_processes
phylogenetics
rare_allele
genealogies
branching_process_approximation
branching_processes
phylogenetics
rare_allele
genealogies
(0)
URL
DOI
TeX
Timing and Reconstruction of the Most Recent Common Ancestor of the Subtype C Clade of Human Immunodeficiency Virus Type 1
Simon A. A. Travers
,
Jonathan P. Clewley
,
Judith R. Glynn
,
Paul E. M. Fine
,
Amelia C. Crampin
,
Felix Sibande
,
Dominic Mulawa
,
James O. McInerney
, and
Grace P. McCormack
.
J. Virol.
78(19):10501-10506
(
2004
)
Simon A. A. Travers
,
Jonathan P. Clewley
,
Judith R. Glynn
,
Paul E. M. Fine
,
Amelia C. Crampin
,
Felix Sibande
,
Dominic Mulawa
,
James O. McInerney
, and
Grace P. McCormack
.
J. Virol.
78(19):10501-10506
(
2004
)
4 years and 8 months ago
by
peter.ralph
1
HIV
MRCA
organisms
phylogenetics
viruses
HIV
MRCA
organisms
phylogenetics
viruses
(0)
URL
DOI
TeX
Recent Origin of Plasmodium falciparum from a Single Progenitor
Sarah K. Volkman
,
Alyssa E. Barry
,
Emily J. Lyons
,
Kaare M. Nielsen
,
Susan M. Thomas
,
Mehee Choi
,
Seema S. Thakore
,
Karen P. Day
,
Dyann F. Wirth
, and
Daniel L. Hartl1
.
Science
293(5529):482 - 484
(
2001
)
Sarah K. Volkman
,
Alyssa E. Barry
,
Emily J. Lyons
,
Kaare M. Nielsen
,
Susan M. Thomas
,
Mehee Choi
,
Seema S. Thakore
,
Karen P. Day
,
Dyann F. Wirth
, and
Daniel L. Hartl1
.
Science
293(5529):482 - 484
(
2001
)
4 years and 8 months ago
by
peter.ralph
1
MRCA
Plasmodium
mtDNA
organisms
phylogenetics
viruses
MRCA
Plasmodium
mtDNA
organisms
phylogenetics
viruses
(0)
URL
DOI
TeX
An Integrated Framework for the Inference of Viral Population History From Reconstructed Genealogies
Oliver G. Pybus
,
Andrew Rambaut
, and
Paul H. Harvey
.
Genetics
155(3):1429-1437
(
2000
)
Oliver G. Pybus
,
Andrew Rambaut
, and
Paul H. Harvey
.
Genetics
155(3):1429-1437
(
2000
)
4 years and 11 months ago
by
peter.ralph
1
phylogenetics
viruses
phylogenetics
viruses
(0)
URL
DOI
TeX
Shaping the phylogenetic tree of influenza by cross-immunity
Viggo Andreasen
, and
Akira Sasaki
.
Theoretical Population Biology
70(2):164--173
(
September 2006
)
Viggo Andreasen
, and
Akira Sasaki
.
Theoretical Population Biology
70(2):164--173
(
September 2006
)
4 years and 11 months ago
by
peter.ralph
1
influenza
phylogenetics
viruses
influenza
phylogenetics
viruses
(0)
URL
DOI
TeX
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