-
1
-
-
0033442555
-
Some limitations of ancestral character-state reconstruction when testing evolutionary hypotheses
-
Cunningham, C. 1999. Some limitations of ancestral character-state reconstruction when testing evolutionary hypotheses. Syst. Biol. 48:665-674.
-
(1999)
Syst. Biol.
, vol.48
, pp. 665-674
-
-
Cunningham, C.1
-
2
-
-
0004128472
-
-
The Johns Hopkins University Press
-
Edwards, A. W. F. 1972. Likelihood. The Johns Hopkins University Press.
-
(1972)
Likelihood
-
-
Edwards, A.W.F.1
-
4
-
-
12044259827
-
Is there something wrong with the bootstrap? A reply to Hillis and Bull
-
Felsenstein, J., and H. Kishino. 1993. Is there something wrong with the bootstrap? A reply to Hillis and Bull. Syst. Biol. 42:193-200.
-
(1993)
Syst. Biol.
, vol.42
, pp. 193-200
-
-
Felsenstein, J.1
Kishino, H.2
-
5
-
-
0033534584
-
A nonhyperthermophilic common ancestor to extant life forms
-
Galtier, N., N. Tourasse, and M. Gouy. 1999. A nonhyperthermophilic common ancestor to extant life forms. Science 283:220-221.
-
(1999)
Science
, vol.283
, pp. 220-221
-
-
Galtier, N.1
Tourasse, N.2
Gouy, M.3
-
6
-
-
84972511893
-
Practical Markov chain Monte Carlo
-
Geyer, C. J. 1992. Practical Markov chain Monte Carlo. Stat. Sci. 7:473-511.
-
(1992)
Stat. Sci.
, vol.7
, pp. 473-511
-
-
Geyer, C.J.1
-
7
-
-
0002517089
-
Introducing Markov chain Monte Carlo
-
(W. R. Gilks, S. Richardson, and D. J. Spiegelhalter, eds.). Chapman and Hall, London
-
Gilks, W. R., S. Richardson, and D. J. Spiegelhalter. 1996. Introducing Markov chain Monte Carlo. Pages 1-19 in Markov Chain Monte Carlo in Practice (W. R. Gilks, S. Richardson, and D. J. Spiegelhalter, eds.). Chapman and Hall, London.
-
(1996)
Markov Chain Monte Carlo in Practice
, pp. 1-19
-
-
Gilks, W.R.1
Richardson, S.2
Spiegelhalter, D.J.3
-
8
-
-
0037955994
-
Molecular and morphological phylogenies of Ruminantia, and the alternative position of the Moschidae
-
Hassanin, A., and E. J. P. Douzery 2003. Molecular and morphological phylogenies of Ruminantia, and the alternative position of the Moschidae. Syst. Biol. 52:206-228.
-
(2003)
Syst. Biol.
, vol.52
, pp. 206-228
-
-
Hassanin, A.1
Douzery, E.J.P.2
-
9
-
-
77956890234
-
Monte Carlo sampling methods using Markov chains and their applications
-
Hastings, W. 1970. Monte Carlo sampling methods using Markov chains and their applications. Biometrika 57:97-109.
-
(1970)
Biometrika
, vol.57
, pp. 97-109
-
-
Hastings, W.1
-
10
-
-
0034727081
-
Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes
-
Hibbett D. S., L. B. Gilbert, and M. J. Donoghue. 2000. Evolutionary instability of ectomycorrhizal symbioses in basidiomycetes. Nature 407:506-508.
-
(2000)
Nature
, vol.407
, pp. 506-508
-
-
Hibbett, D.S.1
Gilbert, L.B.2
Donoghue, M.J.3
-
11
-
-
53149118259
-
Bantu language trees reflect the spread of farming across sub-Saharan Africa: A maximum-parsimony analysis
-
Holden, C. J. 2002. Bantu language trees reflect the spread of farming across sub-Saharan Africa: A maximum-parsimony analysis. Proc. R. Soc. Lond. B 269:793-799.
-
(2002)
Proc. R. Soc. Lond. B
, vol.269
, pp. 793-799
-
-
Holden, C.J.1
-
12
-
-
0035527347
-
Empirical and hierarchical Bayesian estimation of ancestral states
-
Huelsenbeck, J. P., and J. P. Bollback. 2001. Empirical and hierarchical Bayesian estimation of ancestral states. Syst. Biol. 50:351-366.
-
(2001)
Syst. Biol.
, vol.50
, pp. 351-366
-
-
Huelsenbeck, J.P.1
Bollback, J.P.2
-
13
-
-
0035861456
-
Bayesian inference of phylogeny and its impact on evolutionary biology
-
Huelsenbeck, J. P., F. Ronquist, R. Nielsen, and J. P. Bollback. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294:2310-2314.
-
(2001)
Science
, vol.294
, pp. 2310-2314
-
-
Huelsenbeck, J.P.1
Ronquist, F.2
Nielsen, R.3
Bollback, J.P.4
-
14
-
-
0028895702
-
Reconstructing the evolutionary history of the artiodactyl ribonulcease superfamily
-
Jermann, T. M., J. G. Opitz, J. Stackhouse, and S. A. Benner. 1995. Reconstructing the evolutionary history of the artiodactyl ribonulcease superfamily. Nature 374:57-59.
-
(1995)
Nature
, vol.374
, pp. 57-59
-
-
Jermann, T.M.1
Opitz, J.G.2
Stackhouse, J.3
Benner, S.A.4
-
15
-
-
0032976397
-
Markov chain monte carlo algorithms for the Bayesian analysis of phylogenetic trees
-
Larget, B., and D. L. Simon. 1999. Markov chain monte carlo algorithms for the Bayesian analysis of phylogenetic trees. Mol. Biol. Evol. 16:750-759.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 750-759
-
-
Larget, B.1
Simon, D.L.2
-
16
-
-
0035527396
-
A likelihood approach to estimating phylogeny from discrete morphological character data
-
Lewis, P. O. 2001. A likelihood approach to estimating phylogeny from discrete morphological character data. Syst. Biol. 50:913-925.
-
(2001)
Syst. Biol.
, vol.50
, pp. 913-925
-
-
Lewis, P.O.1
-
17
-
-
0035927638
-
Major fungal lineages derived from lichen-symbiotic ancestors
-
Lutzoni, F., M. Pagel, and V. Reeb. 2001. Major fungal lineages derived from lichen-symbiotic ancestors. Nature 411:937-940.
-
(2001)
Nature
, vol.411
, pp. 937-940
-
-
Lutzoni, F.1
Pagel, M.2
Reeb, V.3
-
18
-
-
0032906031
-
Bayesian phylogenetic inference via Markov chain Monte Carlo methods
-
Mau, B., M. Newton, and B. Larget. 1999. Bayesian phylogenetic inference via Markov chain Monte Carlo methods. Biometrics 55:1-12.
-
(1999)
Biometrics
, vol.55
, pp. 1-12
-
-
Mau, B.1
Newton, M.2
Larget, B.3
-
19
-
-
5744249209
-
Equation of state calculations by fast computing machines
-
Metropolis, N., A. W. Rosenbluth, M. N. Rosenbluth, A. H. Teller, and E. Teller. 1953. Equation of state calculations by fast computing machines. J. Chem. Phys. 21:1087-1092.
-
(1953)
J. Chem. Phys.
, vol.21
, pp. 1087-1092
-
-
Metropolis, N.1
Rosenbluth, A.W.2
Rosenbluth, M.N.3
Teller, A.H.4
Teller, E.5
-
20
-
-
0033422612
-
Support for one and two rate models of discrete trait evolution
-
Mooers, A. Ø., and D. Schluter. 1999. Support for one and two rate models of discrete trait evolution. Syst. Biol. 48:623-633.
-
(1999)
Syst. Biol.
, vol.48
, pp. 623-633
-
-
Mooers, A.Ø.1
Schluter, D.2
-
21
-
-
33746439442
-
Bootstrapping phylogenies: Large deviations and dispersion effects
-
Newton, M. 1996. Bootstrapping phylogenies: Large deviations and dispersion effects. Biometrika 83:315-328.
-
(1996)
Biometrika
, vol.83
, pp. 315-328
-
-
Newton, M.1
-
22
-
-
0001021240
-
Markov chain Monte Carlo for the Bayesian analysis of evolutionary trees from aligned molecular sequences
-
(F. Seillier-Moseiwitch, T. P. Speed, and M. Waterman, eds.). Institute of Mathematical Statistics, Cambridge, UK
-
Newton, M., B. Mau, and B. Larget. 1999. Markov chain Monte Carlo for the Bayesian analysis of evolutionary trees from aligned molecular sequences. Pages 143-162 in Statistics in molecular biology (F. Seillier-Moseiwitch, T. P. Speed, and M. Waterman, eds.). Institute of Mathematical Statistics, Cambridge, UK.
-
(1999)
Statistics in Molecular Biology
, pp. 143-162
-
-
Newton, M.1
Mau, B.2
Larget, B.3
-
23
-
-
0036804625
-
Mapping mutations on phylogenies
-
Nielsen, R. 2002. Mapping mutations on phylogenies. Syst. Biol. 51:729-739.
-
(2002)
Syst. Biol.
, vol.51
, pp. 729-739
-
-
Nielsen, R.1
-
24
-
-
0028097770
-
Detecting correlated evolution on phylogenies: A general method for the comparative analysis of discrete characters
-
Pagel, M. 1994. Detecting correlated evolution on phylogenies: A general method for the comparative analysis of discrete characters. Proc. R. Soc. B 255:37-45.
-
(1994)
Proc. R. Soc. B
, vol.255
, pp. 37-45
-
-
Pagel, M.1
-
25
-
-
0031421806
-
Inferring evolutionary processes from phylogenies
-
Pagel, M. 1997. Inferring evolutionary processes from phylogenies. Zool. Scripta 26:331-348.
-
(1997)
Zool. Scripta
, vol.26
, pp. 331-348
-
-
Pagel, M.1
-
26
-
-
0033613376
-
Inferring the historical patterns of biological evolution
-
Pagel, M. 1999a. Inferring the historical patterns of biological evolution. Nature 401:877-884.
-
(1999)
Nature
, vol.401
, pp. 877-884
-
-
Pagel, M.1
-
27
-
-
0033422611
-
The maximum likelihood approach to reconstructing ancestral character states on phylogenies
-
Pagel, M. 1999b. The maximum likelihood approach to reconstructing ancestral character states on phylogenies. Syst. Biol. 48:612-622.
-
(1999)
Syst. Biol.
, vol.48
, pp. 612-622
-
-
Pagel, M.1
-
28
-
-
0000176247
-
Accounting for phylogenetic uncertainty in comparative studies of evolution and adaptation
-
(M. Lässig and A. Valleriani, eds.). Springer-Verlag, Berlin
-
Pagel, M., and F. Lutzoni. 2002. Accounting for phylogenetic uncertainty in comparative studies of evolution and adaptation. Pages 148-161 in Biological evolution and statistical physics (M. Lässig and A. Valleriani, eds.). Springer-Verlag, Berlin.
-
(2002)
Biological Evolution and Statistical Physics
, pp. 148-161
-
-
Pagel, M.1
Lutzoni, F.2
-
29
-
-
4243140058
-
A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data
-
Pagel, M., and A. Meade. 2004. A phylogenetic mixture model for detecting pattern-heterogeneity in gene sequence or character-state data. Syst. Biol. 53:571-581.
-
(2004)
Syst. Biol.
, vol.53
, pp. 571-581
-
-
Pagel, M.1
Meade, A.2
-
30
-
-
33745729042
-
Bayesian estimation of correlated evolution across cultures: A case study of marriage systems and wealth transfer at marriage
-
In press. To appear (R. Mace, C.J. Holden, and S. Shennan, eds.). University College London Press, London
-
Pagel, M., and A. Meade. In press. Bayesian estimation of correlated evolution across cultures: A case study of marriage systems and wealth transfer at marriage. To appear in The evolution of cultural diversity: A phylogenetic approach (R. Mace, C.J. Holden, and S. Shennan, eds.). University College London Press, London.
-
The Evolution of Cultural Diversity: A Phylogenetic Approach
-
-
Pagel, M.1
Meade, A.2
-
31
-
-
0029818407
-
Probability distributions of molecular evolutionary trees: A new method of phylogenetic inference
-
Rannala, B., and Z. Yang. 1996. Probability distributions of molecular evolutionary trees: A new method of phylogenetic inference. J. Mol. Evol. 43:304-311.
-
(1996)
J. Mol. Evol.
, vol.43
, pp. 304-311
-
-
Rannala, B.1
Yang, Z.2
-
32
-
-
0029149610
-
Uncertainty in ancient phylogenies
-
Schluter, D. 1995. Uncertainty in ancient phylogenies. Nature 377:108-109.
-
(1995)
Nature
, vol.377
, pp. 108-109
-
-
Schluter, D.1
-
33
-
-
0031417707
-
Likelihood of ancestor states in adaptive radiation
-
Schluter, D., T. Price, A. Ø. Mooers, and D. Ludwig. 1997. Likelihood of ancestor states in adaptive radiation. Evolution 51:1699-1711.
-
(1997)
Evolution
, vol.51
, pp. 1699-1711
-
-
Schluter, D.1
Price, T.2
Mooers, A.Ø.3
Ludwig, D.4
-
34
-
-
0001336205
-
Phylogenetic inference
-
(D. M. Hillis, C. Moritz, and B. K. Mable, eds.). Sinauer, Sunderland, Massachusetts
-
Swofford, D. L., G. J. Olsen, P. J. Waddell, and D. M. Hillis. 1996. Phylogenetic inference. Pages 407-514 in Molecular systematics, 2nd edition (D. M. Hillis, C. Moritz, and B. K. Mable, eds.). Sinauer, Sunderland, Massachusetts.
-
(1996)
Molecular Systematics, 2nd Edition
, pp. 407-514
-
-
Swofford, D.L.1
Olsen, G.J.2
Waddell, P.J.3
Hillis, D.M.4
-
35
-
-
0031574072
-
The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-4882.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
36
-
-
0031669749
-
Genealogical inference from microsatellite data
-
Wilson, I., and D. Balding. 1998. Genealogical inference from microsatellite data. Genetics 150:499-510.
-
(1998)
Genetics
, vol.150
, pp. 499-510
-
-
Wilson, I.1
Balding, D.2
-
37
-
-
0028064845
-
Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
-
Yang, Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39:306-314.
-
(1994)
J. Mol. Evol.
, vol.39
, pp. 306-314
-
-
Yang, Z.1
|