-
1
-
-
0037329391
-
Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence
-
Alfaro ME, Zoller S, Lutzoni F, 2003. Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Mol Biol Evol 20: 255-266.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 255-266
-
-
Alfaro, M.E.1
Zoller, S.2
Lutzoni, F.3
-
2
-
-
33845381928
-
The posterior and the prior in Bayesian phylogenetics
-
Alfaro ME, Holder MT, 2006. The posterior and the prior in Bayesian phylogenetics Annu Rev Ecol Evol Syst 37:19-42.
-
(2006)
Annu Rev Ecol Evol Syst
, vol.37
, pp. 19-42
-
-
Alfaro, M.E.1
Holder, M.T.2
-
3
-
-
33745256005
-
Approximate likelihood-ratio test for branches: A fast, accurate and powerful alternative
-
Anisimova M, Gascuel O, 2006. Approximate likelihood-ratio test for branches: a fast, accurate and powerful alternative. Syst Biol 55: 539-552.
-
(2006)
Syst Biol
, vol.55
, pp. 539-552
-
-
Anisimova, M.1
Gascuel, O.2
-
4
-
-
0033117920
-
Distance measures in terms of substitution process
-
Bakke E, von Haeseler A, 1999. Distance measures in terms of substitution process. Theor Popul Biol 55: 166-175.
-
(1999)
Theor Popul Biol
, vol.55
, pp. 166-175
-
-
Bakke, E.1
von Haeseler, A.2
-
5
-
-
20444491634
-
A review of long-branch attraction
-
Bergsten J, 2005. A review of long-branch attraction. Cladistics 21: 163-193.
-
(2005)
Cladistics
, vol.21
, pp. 163-193
-
-
Bergsten, J.1
-
6
-
-
33644589951
-
Are unequal clade priors problematic for Bayesian phylogenetics?
-
Brandley MC, Leache AD, Warren DL, McGuire JA, 2006. Are unequal clade priors problematic for Bayesian phylogenetics? Syst Biol 55: 138-146.
-
(2006)
Syst Biol
, vol.55
, pp. 138-146
-
-
Brandley, M.C.1
Leache, A.D.2
Warren, D.L.3
McGuire, J.A.4
-
7
-
-
0029794480
-
On the interpretation of bootstrap trees: Appropriate threshold of clade selection and induced gain
-
Berry V, Gascuel O, 1996. On the interpretation of bootstrap trees: appropriate threshold of clade selection and induced gain. Mol Biol Evol 13: 999-1011.
-
(1996)
Mol Biol Evol
, vol.13
, pp. 999-1011
-
-
Berry, V.1
Gascuel, O.2
-
8
-
-
0036623259
-
Model misspecification and probabilistic tests of topology: Evidence from empirical data sets
-
Buckley TR, 2002. Model misspecification and probabilistic tests of topology: Evidence from empirical data sets. Syst Biol 51: 509-523.
-
(2002)
Syst Biol
, vol.51
, pp. 509-523
-
-
Buckley, T.R.1
-
9
-
-
0035527383
-
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
-
Buckley TR, Simon C, Chambers GK, 2001. 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. Syst Biol 50:67-86.
-
(2001)
Syst Biol
, vol.50
, pp. 67-86
-
-
Buckley, T.R.1
Simon, C.2
Chambers, G.K.3
-
10
-
-
0036213207
-
The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support
-
Buckley TR, Cunningham CW, 2002. The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support. Mol Biol Evol 19: 394-405.
-
(2002)
Mol Biol Evol
, vol.19
, pp. 394-405
-
-
Buckley, T.R.1
Cunningham, C.W.2
-
11
-
-
0036005521
-
Combined data, Bayesian phylogenetics, and the origin of the New Zealand cicada genera
-
Buckley TR, Arensburger P, Simon C, Chambers GK, 2002. Combined data, Bayesian phylogenetics, and the origin of the New Zealand cicada genera. Syst Biol 51: 4-18.
-
(2002)
Syst Biol
, vol.51
, pp. 4-18
-
-
Buckley, T.R.1
Arensburger, P.2
Simon, C.3
Chambers, G.K.4
-
12
-
-
0026005922
-
Use of the method of generalized least squares in reconstructing phylogenies from sequence data
-
Bulmer M, 1991. Use of the method of generalized least squares in reconstructing phylogenies from sequence data. Mol Biol Evol 8: 868-883.
-
(1991)
Mol Biol Evol
, vol.8
, pp. 868-883
-
-
Bulmer, M.1
-
13
-
-
0002077593
-
Comment on the quartet puzzling method for finding maximum-likelihood tree topologies
-
Cao Y, Adachi J, Hasegawa M, 1998. Comment on the quartet puzzling method for finding maximum-likelihood tree topologies. Mol Biol Evol 15: 87-89.
-
(1998)
Mol Biol Evol
, vol.15
, pp. 87-89
-
-
Cao, Y.1
Adachi, J.2
Hasegawa, M.3
-
14
-
-
0242487511
-
Phylogenetic relationships among calyptraeid gastropods and their implications for the biogeography of marine speciation
-
Collin R, 2003. Phylogenetic relationships among calyptraeid gastropods and their implications for the biogeography of marine speciation. Syst Biol 52: 618-640.
-
(2003)
Syst Biol
, vol.52
, pp. 618-640
-
-
Collin, R.1
-
15
-
-
0042069655
-
Comparing bootstrap and posterior probability values in the four-taxon case
-
Cummings MP, Handley SA, Myers DS, Reed DL, Rokas A, Winka K, 2003. Comparing bootstrap and posterior probability values in the four-taxon case. Syst Biol 52: 477-487.
-
(2003)
Syst Biol
, vol.52
, pp. 477-487
-
-
Cummings, M.P.1
Handley, S.A.2
Myers, D.S.3
Reed, D.L.4
Rokas, A.5
Winka, K.6
-
16
-
-
33845546228
-
Topology testing of phylogenies using least squares methods
-
Czarna A, Sanjuan R, Gonzalez-Candelas F, Wróbel B, 2006. Topology testing of phylogenies using least squares methods. BMC Evol Biol 6: 105.
-
(2006)
BMC Evol Biol
, vol.6
, pp. 105
-
-
Czarna, A.1
Sanjuan, R.2
Gonzalez-Candelas, F.3
Wróbel, B.4
-
17
-
-
0242487521
-
Identifying conflicting signal in a multigene analysis reveals a highly resolved tree: The phylogeny of Rodentia
-
DeBry RW, 2003. Identifying conflicting signal in a multigene analysis reveals a highly resolved tree: The phylogeny of Rodentia. Syst Biol 52: 604-617.
-
(2003)
Syst Biol
, vol.52
, pp. 604-617
-
-
DeBry, R.W.1
-
18
-
-
1542510099
-
Theoretical foundation of the balanced minimum evolution method of phylogenetic inference and its relationship to weighted least-squares tree fitting
-
Desper R, Gascuel O, 2004. Theoretical foundation of the balanced minimum evolution method of phylogenetic inference and its relationship to weighted least-squares tree fitting. Mol Biol Evol 21: 587-598.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 587-598
-
-
Desper, R.1
Gascuel, O.2
-
19
-
-
0028258693
-
Estimating errors and confidence intervals for branch lengths in phylogenetic trees by a bootstrap approach
-
Dopazo J, 1994. Estimating errors and confidence intervals for branch lengths in phylogenetic trees by a bootstrap approach. J Mol Evol 38: 300-304.
-
(1994)
J Mol Evol
, vol.38
, pp. 300-304
-
-
Dopazo, J.1
-
20
-
-
27844438226
-
Genome scale evidence for the nematode-arthropod clade
-
Dopazo H, Dopazo J, 2005. Genome scale evidence for the nematode-arthropod clade. Genome Biol 6: R41.
-
(2005)
Genome Biol
, vol.6
-
-
Dopazo, H.1
Dopazo, J.2
-
21
-
-
4944257028
-
Phylogenomics and the number of characters required for obtaining an accurate phylogeny of eukaryote model species
-
Dopazo H, Santoyo J, Dopazo J, 2004. Phylogenomics and the number of characters required for obtaining an accurate phylogeny of eukaryote model species. Bioinformatics 20: I116-I121.
-
(2004)
Bioinformatics
, vol.20
-
-
Dopazo, H.1
Santoyo, J.2
Dopazo, J.3
-
22
-
-
0037329108
-
Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability
-
Douady CJ, Delsuc F, Boucher Y, Doolittle WF, Douzery EJP, 2003. Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability. Mol Biol Evol 20: 248-254.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 248-254
-
-
Douady, C.J.1
Delsuc, F.2
Boucher, Y.3
Doolittle, W.F.4
Douzery, E.J.P.5
-
23
-
-
0003516147
-
-
Cambridge, UK: Cambridge Univ Press
-
Durbin R, Eddy S, Krogh A, Mitchison G, 1998. Biological sequence analysis: Probabilistic models of proteins and nucleic acids. Cambridge, UK: Cambridge Univ Press: 212.
-
(1998)
Biological sequence analysis: Probabilistic models of proteins and nucleic acids
, pp. 212
-
-
Durbin, R.1
Eddy, S.2
Krogh, A.3
Mitchison, G.4
-
25
-
-
34347256397
-
High resolution species trees without concatenation
-
Edwards SV, Liu L, Pearl DK, 2007. High resolution species trees without concatenation. Proc Natl Acad Sci USA 104: 5936-5941.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 5936-5941
-
-
Edwards, S.V.1
Liu, L.2
Pearl, D.K.3
-
26
-
-
0002344794
-
Bootstrap methods: Another look at the jackknife
-
Efron B, 1979. Bootstrap methods: another look at the jackknife. Ann Statist 7: 1-26.
-
(1979)
Ann Statist
, vol.7
, pp. 1-26
-
-
Efron, B.1
-
27
-
-
0346902084
-
Second thoughts on the bootstrap
-
Efron B, 2003. Second thoughts on the bootstrap. Stat Sci 18: 135-140.
-
(2003)
Stat Sci
, vol.18
, pp. 135-140
-
-
Efron, B.1
-
28
-
-
0030581603
-
Bootstrap confidence levels for phylogenetic trees
-
Efron B, Halloran E, Holmes S, 1996. Bootstrap confidence levels for phylogenetic trees. Proc Natl Acad Sci USA 93: 13429-13434.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 13429-13434
-
-
Efron, B.1
Halloran, E.2
Holmes, S.3
-
29
-
-
0242487486
-
Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics
-
Erixon P, Svennblad B, Britton T, Oxelman B, 2003. Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics. Syst Biol 52: 665-673.
-
(2003)
Syst Biol
, vol.52
, pp. 665-673
-
-
Erixon, P.1
Svennblad, B.2
Britton, T.3
Oxelman, B.4
-
30
-
-
0030417648
-
Parsimony jackknifing outperforms bootstrapping
-
Farris JS, Albert VA, Kallersjo M, Lipscomb D, Kluge AG, 1996. Parsimony jackknifing outperforms bootstrapping. Cladistics 12: 99-124.
-
(1996)
Cladistics
, vol.12
, pp. 99-124
-
-
Farris, J.S.1
Albert, V.A.2
Kallersjo, M.3
Lipscomb, D.4
Kluge, A.G.5
-
31
-
-
0001306645
-
A likelihood approach to character weighting and what it tells us about parsimony and compatibility
-
Felsenstein J, 1978. A likelihood approach to character weighting and what it tells us about parsimony and compatibility. Biol J Linn Soc 16: 183-196.
-
(1978)
Biol J Linn Soc
, vol.16
, pp. 183-196
-
-
Felsenstein, J.1
-
32
-
-
0000461280
-
Confidence limits on phylogenies: An approach using the bootstrap
-
Felsenstein J, 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
33
-
-
0024152983
-
Phylogenies from molecular sequences: Inference and reliability
-
Felsenstein J, 1988. Phylogenies from molecular sequences: inference and reliability. Ann Rev Genet 22: 521-565.
-
(1988)
Ann Rev Genet
, vol.22
, pp. 521-565
-
-
Felsenstein, J.1
-
36
-
-
12044259827
-
Is there something wrong with the bootstrap on phylogenies? A reply to Hillis and Bull
-
Felsenstein J, Kishino H, 1993. Is there something wrong with the bootstrap on phylogenies? 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
-
37
-
-
0030807655
-
BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
-
Gascuel O, 1997a. BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol 14: 685-695.
-
(1997)
Mol Biol Evol
, vol.14
, pp. 685-695
-
-
Gascuel, O.1
-
38
-
-
0000194822
-
Concerning the NJ algorithm and its unweighted version, UNJ
-
Mirkin B, McMorris F, Roberts F, Rhetsky A, eds, Providence, RI: American Mathematical Society
-
Gascuel O, 1997b. Concerning the NJ algorithm and its unweighted version, UNJ. In: Mirkin B, McMorris F, Roberts F, Rhetsky A, eds. Mathematical hierarchies and biology. Providence, RI: American Mathematical Society: 149-170.
-
(1997)
Mathematical hierarchies and biology
, pp. 149-170
-
-
Gascuel, O.1
-
39
-
-
33749540417
-
Neighbor joining revealed
-
Gascuel O, Steel M, 2006. Neighbor joining revealed. Mol Biol Evol 23: 1997-2000.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1997-2000
-
-
Gascuel, O.1
Steel, M.2
-
40
-
-
0028887457
-
Success of maximum likelihood phylogeny inference in the four-taxon case
-
Gaut BS, Lewis PO, 1995. Success of maximum likelihood phylogeny inference in the four-taxon case. Mol Biol Evol 12: 152-162.
-
(1995)
Mol Biol Evol
, vol.12
, pp. 152-162
-
-
Gaut, B.S.1
Lewis, P.O.2
-
41
-
-
0034351387
-
Likelihood-based tests of topologies in phylogenetics
-
Goldman N, Anderson JP, Rodrigo AG, 2000. Likelihood-based tests of topologies in phylogenetics. Syst Biol 49: 652-670.
-
(2000)
Syst Biol
, vol.49
, pp. 652-670
-
-
Goldman, N.1
Anderson, J.P.2
Rodrigo, A.G.3
-
42
-
-
0034079389
-
Statistical tests of gamma distributed rate heterogeneity in models of sequence evolution in phylogenetics
-
Goldman N, Whelan S, 2000. Statistical tests of gamma distributed rate heterogeneity in models of sequence evolution in phylogenetics. Mol Biol Evol 17: 975-978.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 975-978
-
-
Goldman, N.1
Whelan, S.2
-
43
-
-
0027423606
-
-
Helm-Bychowski K, Crafcraft J, 1993. Recovering phylogenetic signal from DNA sequences: relationships within the corvine assemblage (class Aves) as inferred from complete sequences of the mitochondrial DNA cytochrome-b gene. Mol Biol Evol 10: 1196-1214.
-
Helm-Bychowski K, Crafcraft J, 1993. Recovering phylogenetic signal from DNA sequences: relationships within the corvine assemblage (class Aves) as inferred from complete sequences of the mitochondrial DNA cytochrome-b gene. Mol Biol Evol 10: 1196-1214.
-
-
-
-
44
-
-
0000084234
-
A framework for the quantitative study of evolutionary trees
-
Hendy MD, Penny D, 1989. A framework for the quantitative study of evolutionary trees. Syst Zool 38: 297-309.
-
(1989)
Syst Zool
, vol.38
, pp. 297-309
-
-
Hendy, M.D.1
Penny, D.2
-
45
-
-
12044253190
-
An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis
-
Hillis DM, Bull JJ, 1993. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst Biol 42: 182-192.
-
(1993)
Syst Biol
, vol.42
, pp. 182-192
-
-
Hillis, D.M.1
Bull, J.J.2
-
46
-
-
0037379673
-
Phylogeny estimation: Traditional and Bayesian approaches
-
Holder M, Lewis PO, 2003. Phylogeny estimation: traditional and Bayesian approaches. Nature Rev Genet 4: 275-284.
-
(2003)
Nature Rev Genet
, vol.4
, pp. 275-284
-
-
Holder, M.1
Lewis, P.O.2
-
47
-
-
0346271739
-
Bootstrapping phylogenetic trees: Theory and methods
-
Holmes S, 2003a. Bootstrapping phylogenetic trees: theory and methods. Stat Sci 18: 241-255.
-
(2003)
Stat Sci
, vol.18
, pp. 241-255
-
-
Holmes, S.1
-
48
-
-
0037289898
-
Statistics for phylogenetic trees
-
Holmes S, 2003b. Statistics for phylogenetic trees. Theor Popul Biol 63: 17-32.
-
(2003)
Theor Popul Biol
, vol.63
, pp. 17-32
-
-
Holmes, S.1
-
49
-
-
33745097839
-
Can taxon-sampling effects be minimized by using branch supports?
-
Hovenkamp P, 2006. Can taxon-sampling effects be minimized by using branch supports? Cladistics 22: 264-275.
-
(2006)
Cladistics
, vol.22
, pp. 264-275
-
-
Hovenkamp, P.1
-
51
-
-
0035861456
-
Bayesian inference of phylogeny and its impact on evolutionary biology
-
Huelsenbeck JP, Ronquist F, Nielsen R, Bollback JP, 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
-
52
-
-
0036806280
-
Potential applications and pitfalls of Bayesian inference of phylogeny
-
Huelsenbeck JP, Larget B, Miller RE, Ronquist F, 2002. Potential applications and pitfalls of Bayesian inference of phylogeny. Syst Biol 51: 673-688.
-
(2002)
Syst Biol
, vol.51
, pp. 673-688
-
-
Huelsenbeck, J.P.1
Larget, B.2
Miller, R.E.3
Ronquist, F.4
-
53
-
-
11144277878
-
Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models
-
Huelsenbeck JP, Rannala B, 2004. Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models. Syst Biol 53: 904-913.
-
(2004)
Syst Biol
, vol.53
, pp. 904-913
-
-
Huelsenbeck, J.P.1
Rannala, B.2
-
54
-
-
0034849408
-
MrBayes: Bayesian inference of phylogeny
-
Huelsenbeck JP, Ronquist, FR, 2001. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17: 754-755.
-
(2001)
Bioinformatics
, vol.17
, pp. 754-755
-
-
Huelsenbeck, J.P.1
Ronquist, F.R.2
-
55
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
Huelsenbeck JP, Ronquist, FR, 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Huelsenbeck, J.P.1
Ronquist, F.R.2
-
56
-
-
30744470609
-
Application of phylogenetic networks in evolutionary studies
-
Huson DH, Bryant D, 2006. Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23: 254-267.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 254-267
-
-
Huson, D.H.1
Bryant, D.2
-
57
-
-
0037291474
-
Molecular systematics and adaptive radiation of Hawaii's endemic damselfly genus Megalagrion
-
Jordan S, Simon C, Polhemus D, 2003. Molecular systematics and adaptive radiation of Hawaii's endemic damselfly genus Megalagrion. Syst Biol 52: 89-109.
-
(2003)
Syst Biol
, vol.52
, pp. 89-109
-
-
Jordan, S.1
Simon, C.2
Polhemus, D.3
-
58
-
-
0035861514
-
The closest living relative of land plants
-
Karol KG, McCourt RM, Cimino MT, Delwiche CF, 2001. The closest living relative of land plants. Science 294: 2351-2353.
-
(2001)
Science
, vol.294
, pp. 2351-2353
-
-
Karol, K.G.1
McCourt, R.M.2
Cimino, M.T.3
Delwiche, C.F.4
-
59
-
-
0036395692
-
Phylogeny of the Gyalectales and Ostropales (Ascomycota, Fungi): Among and within order relationships based on nuclear ribosomal RNA small and large subunits
-
Kauff F, Lutzoni F, 2002. Phylogeny of the Gyalectales and Ostropales (Ascomycota, Fungi): among and within order relationships based on nuclear ribosomal RNA small and large subunits. Mol Phylogenet Evol 25: 138-156.
-
(2002)
Mol Phylogenet Evol
, vol.25
, pp. 138-156
-
-
Kauff, F.1
Lutzoni, F.2
-
60
-
-
0024307824
-
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
-
Kishino H, Hasegawa M, 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J Mol Evol 29: 170-179.
-
(1989)
J Mol Evol
, vol.29
, pp. 170-179
-
-
Kishino, H.1
Hasegawa, M.2
-
62
-
-
0242507502
-
Type I STS markers of more informative than cytochrome b in phylogenetic reconstruction of the Mustelidae (Mammalia: Carnivora)
-
Koepfli K-P, Wayne RK, 2003. Type I STS markers of more informative than cytochrome b in phylogenetic reconstruction of the Mustelidae (Mammalia: Carnivora). Syst Biol 52: 571-593.
-
(2003)
Syst Biol
, vol.52
, pp. 571-593
-
-
Koepfli, K.-P.1
Wayne, R.K.2
-
63
-
-
0000274336
-
Bootstrap analysis of phylogenetic trees derived from DNA hybridization distances
-
Krajewski C, Dickerman AW, 1990. Bootstrap analysis of phylogenetic trees derived from DNA hybridization distances. Syst Zool 39: 383-390.
-
(1990)
Syst Zool
, vol.39
, pp. 383-390
-
-
Krajewski, C.1
Dickerman, A.W.2
-
64
-
-
0000181737
-
The jackknife and the bootstrap for general stationary observations
-
Künsch H, 1989. The jackknife and the bootstrap for general stationary observations. Ann Statist 17: 1217-1241.
-
(1989)
Ann Statist
, vol.17
, pp. 1217-1241
-
-
Künsch, H.1
-
65
-
-
0000007888
-
Detecting internal inconsistencies in distance data
-
Lanyon SM, 1985. Detecting internal inconsistencies in distance data. Syst Zool 34, 397-403.
-
(1985)
Syst Zool
, vol.34
, pp. 397-403
-
-
Lanyon, S.M.1
-
66
-
-
0028510206
-
Jackknifing of weighted trees: Validation of phylogenies reconstructed from distance matrices
-
Lapointe F-J, Kirsch JAW, Bleiweiss R, 1994. Jackknifing of weighted trees: validation of phylogenies reconstructed from distance matrices. Mol Phylogenet Evol 3: 256-267.
-
(1994)
Mol Phylogenet Evol
, vol.3
, pp. 256-267
-
-
Lapointe, F.-J.1
Kirsch, J.A.W.2
Bleiweiss, R.3
-
67
-
-
0032976397
-
Markov chain Monte Carlo algorithms for the Bayesian analysis of phylogenetic trees
-
Larget B, Simon D, 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.2
-
68
-
-
0027662420
-
Species sampling has a major impact on phylogenetic inference
-
Lecointre G, Philippe H, Le HLV, Le Guyader H, 1993. Species sampling has a major impact on phylogenetic inference. Mol Phylogenet Evol 2: 205-224.
-
(1993)
Mol Phylogenet Evol
, vol.2
, pp. 205-224
-
-
Lecointre, G.1
Philippe, H.2
Le, H.L.V.3
Le Guyader, H.4
-
69
-
-
0036005516
-
Molecular systematics of the eastern fence lizard (Sceloporus undulatus): A comparison of parsimony, likelihood, and Bayesian approaches
-
Leache ADT, Reeder W, 2002. Molecular systematics of the eastern fence lizard (Sceloporus undulatus): A comparison of parsimony, likelihood, and Bayesian approaches. Syst Biol 51: 44-68.
-
(2002)
Syst Biol
, vol.51
, pp. 44-68
-
-
Leache, A.D.T.1
Reeder, W.2
-
70
-
-
0034351399
-
Tree robustness and clade significance
-
Lee MSY, 2000. Tree robustness and clade significance. Syst Biol 49: 829-836.
-
(2000)
Syst Biol
, vol.49
, pp. 829-836
-
-
Lee, M.S.Y.1
-
71
-
-
2442581218
-
The importance of proper model assumption in Bayesian phylogenetics
-
Lemmon AR, Moriarty EC, 2004. The importance of proper model assumption in Bayesian phylogenetics. Syst Biol 53: 265-277.
-
(2004)
Syst Biol
, vol.53
, pp. 265-277
-
-
Lemmon, A.R.1
Moriarty, E.C.2
-
72
-
-
19044373497
-
Polytomies and Bayesian phylogenetic inference
-
Lewis PO, Holder MT, Holsinger KE, 2005. Polytomies and Bayesian phylogenetic inference. Syst Biol 54: 241-53.
-
(2005)
Syst Biol
, vol.54
, pp. 241-253
-
-
Lewis, P.O.1
Holder, M.T.2
Holsinger, K.E.3
-
73
-
-
0024690185
-
A statistical test of phylogenies estimated from sequence data
-
Li W-H, 1989. A statistical test of phylogenies estimated from sequence data. Mol Biol Evol 6: 424-435.
-
(1989)
Mol Biol Evol
, vol.6
, pp. 424-435
-
-
Li, W.-H.1
-
74
-
-
0025317957
-
Statistical tests of molecular phylogenies
-
Li W-H, Gouy M, 1990. Statistical tests of molecular phylogenies. Methods Enzymol 183: 645-659.
-
(1990)
Methods Enzymol
, vol.183
, pp. 645-659
-
-
Li, W.-H.1
Gouy, M.2
-
75
-
-
25444443637
-
Bayesian coestimation of phylogeny and sequence alignment
-
Lunter GA, Miklós I, Drummond AJ, Jensen JL, Hein J, 2005. Bayesian coestimation of phylogeny and sequence alignment. BMC Bioinform 6: 83.
-
(2005)
BMC Bioinform
, vol.6
, pp. 83
-
-
Lunter, G.A.1
Miklós, I.2
Drummond, A.J.3
Jensen, J.L.4
Hein, J.5
-
76
-
-
15244352063
-
Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation
-
Mar JC, Harlow TJ, Ragan MA, 2005. Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation. BMC Evol Biol 5: 8.
-
(2005)
BMC Evol Biol
, vol.5
, pp. 8
-
-
Mar, J.C.1
Harlow, T.J.2
Ragan, M.A.3
-
78
-
-
0025853831
-
Statistical tests and bootstrapping: Assessing the reliability of phylogenies based on distance data
-
Marshall CR, 1991. Statistical tests and bootstrapping: assessing the reliability of phylogenies based on distance data. Mol Biol Evol 8: 386-391.
-
(1991)
Mol Biol Evol
, vol.8
, pp. 386-391
-
-
Marshall, C.R.1
-
79
-
-
5744249209
-
Equation of state calculations by fast computing machines
-
Metropolis N, Rosenbluth AE, Rosenbluth MN, Teller AH, Teller E, 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.E.2
Rosenbluth, M.N.3
Teller, A.H.4
Teller, E.5
-
80
-
-
0036804707
-
An examination of the monophyly of morning glory taxa using Bayesian phylogenetic inference
-
Miller RE, Buckley TR, Manos P, 2002. An examination of the monophyly of morning glory taxa using Bayesian phylogenetic inference. Syst Biol 51: 740-753.
-
(2002)
Syst Biol
, vol.51
, pp. 740-753
-
-
Miller, R.E.1
Buckley, T.R.2
Manos, P.3
-
81
-
-
0344243515
-
-
Misawa K, Nei M, 2003. Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees. J Mol Evol 57: S290-S296.
-
Misawa K, Nei M, 2003. Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees. J Mol Evol 57: S290-S296.
-
-
-
-
82
-
-
0034350373
-
Comparison of three methods for estimating internal support on phylogenetic trees
-
Mort ME, Soltis PS, Soltis DE, Mabry M, 2000. Comparison of three methods for estimating internal support on phylogenetic trees. Syst Biol 49: 160-171.
-
(2000)
Syst Biol
, vol.49
, pp. 160-171
-
-
Mort, M.E.1
Soltis, P.S.2
Soltis, D.E.3
Mabry, M.4
-
83
-
-
0035861441
-
Resolution of the early placental mammal radiation using Bayesian phylogenetics
-
Murphy WJ, Eizirik E, O'brien SJ, Madsen O, Scally M, Douady CJ, et al. 2001. Resolution of the early placental mammal radiation using Bayesian phylogenetics. Science 294: 2348-2351.
-
(2001)
Science
, vol.294
, pp. 2348-2351
-
-
Murphy, W.J.1
Eizirik, E.2
O'brien, S.J.3
Madsen, O.4
Scally, M.5
Douady, C.J.6
-
84
-
-
0021927430
-
Methods for computing the standard errors of branching points in an evolutionary tree and their application to molecular data from humans and apes
-
Nei M, Stephens JC, Saitou N, 1985. Methods for computing the standard errors of branching points in an evolutionary tree and their application to molecular data from humans and apes. Mol Biol Evol 2:66-85.
-
(1985)
Mol Biol Evol
, vol.2
, pp. 66-85
-
-
Nei, M.1
Stephens, J.C.2
Saitou, N.3
-
85
-
-
0034942558
-
Quartet-mapping, a generalization of the likelihood-mapping procedure
-
Nieselt-Struwe K, von Haeseler A 2001. Quartet-mapping, a generalization of the likelihood-mapping procedure. Mol Biol Evol 18: 1204-1219.
-
(2001)
Mol Biol Evol
, vol.18
, pp. 1204-1219
-
-
Nieselt-Struwe, K.1
von Haeseler, A.2
-
86
-
-
0034106726
-
Appropriate likelihood ratio tests and marginal distributions for evolutionary tree models with constraints on parameters
-
Ota R, Waddell PJ, Hasegawa M, Shimodaira H, Kishino H, 2000. Appropriate likelihood ratio tests and marginal distributions for evolutionary tree models with constraints on parameters. Mol Biol Evol 17: 798-803.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 798-803
-
-
Ota, R.1
Waddell, P.J.2
Hasegawa, M.3
Shimodaira, H.4
Kishino, H.5
-
87
-
-
0032855292
-
Relationships of the Buddlejaceae s. l. investigated using parsimony jackknife and branch support analysis of chloroplast ndhF and rbcL sequence data
-
Oxelman B, Backlund M, Bremer B, 1999. Relationships of the Buddlejaceae s. l. investigated using parsimony jackknife and branch support analysis of chloroplast ndhF and rbcL sequence data. Syst Bot 24: 164-182.
-
(1999)
Syst Bot
, vol.24
, pp. 164-182
-
-
Oxelman, B.1
Backlund, M.2
Bremer, B.3
-
88
-
-
0032023887
-
Sensitivity of phylogeny estimation to taxonomic sampling
-
Poe S, 1998. Sensitivity of phylogeny estimation to taxonomic sampling. Syst Biol 47: 18-31.
-
(1998)
Syst Biol
, vol.47
, pp. 18-31
-
-
Poe, S.1
-
89
-
-
0001610304
-
Note on bias and estimation
-
Quenouille MH, 1956. Note on bias and estimation. Biometrika 43: 353-360.
-
(1956)
Biometrika
, vol.43
, pp. 353-360
-
-
Quenouille, M.H.1
-
90
-
-
22844450838
-
Joint Bayesian estimation of alignment and phylogeny
-
Redelings BD, Suchard MA, 2005. Joint Bayesian estimation of alignment and phylogeny. Syst Biol 54: 401-418.
-
(2005)
Syst Biol
, vol.54
, pp. 401-418
-
-
Redelings, B.D.1
Suchard, M.A.2
-
91
-
-
0036019715
-
Molecular systematics of the jacks (Perciformes: Carangidae) based on mitochondrial cytochrome b sequences using parsimony, likelihood, and Bayesian approaches
-
Reed DL, Carpenter KE, deGravelle MJ, 2002. Molecular systematics of the jacks (Perciformes: Carangidae) based on mitochondrial cytochrome b sequences using parsimony, likelihood, and Bayesian approaches. Mol Phylogenet Evol 23: 513-524.
-
(2002)
Mol Phylogenet Evol
, vol.23
, pp. 513-524
-
-
Reed, D.L.1
Carpenter, K.E.2
deGravelle, M.J.3
-
92
-
-
0027237771
-
Calibrating the bootstrap test of monophyly
-
Rodrigo AG, 1993. Calibrating the bootstrap test of monophyly. Int J Parasitol 23: 507-514.
-
(1993)
Int J Parasitol
, vol.23
, pp. 507-514
-
-
Rodrigo, A.G.1
-
93
-
-
0242365676
-
Genome-scale approaches to resolving incongruence in molecular phylogenies
-
Rokas A, Williams BL, King N, Carrol SB, 2003. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 425: 798-804.
-
(2003)
Nature
, vol.425
, pp. 798-804
-
-
Rokas, A.1
Williams, B.L.2
King, N.3
Carrol, S.B.4
-
94
-
-
0026660413
-
A simple method for estimating and testing minimum-evolution trees
-
Rzhetsky A, Nei M, 1992a. A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9: 945-967.
-
(1992)
Mol Biol Evol
, vol.9
, pp. 945-967
-
-
Rzhetsky, A.1
Nei, M.2
-
95
-
-
0026466041
-
Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference
-
Rzhetsky A, Nei M, 1992b. Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. J Mol Evol 35: 367-375.
-
(1992)
J Mol Evol
, vol.35
, pp. 367-375
-
-
Rzhetsky, A.1
Nei, M.2
-
96
-
-
0027185401
-
Theoretical foundation of the minimum evolution method of phylogenetic inference
-
Rzhetsky A, Nei M, 1993. Theoretical foundation of the minimum evolution method of phylogenetic inference. Mol Biol Evol 10: 1073-1095.
-
(1993)
Mol Biol Evol
, vol.10
, pp. 1073-1095
-
-
Rzhetsky, A.1
Nei, M.2
-
97
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
Saitou N, Nei M, 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
-
(1987)
Mol Biol Evol
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
98
-
-
0024568225
-
Confidence limits on phylogenies: The bootstrap revisited
-
Sanderson MJ, 1989. Confidence limits on phylogenies: the bootstrap revisited. Cladistics 5: 113-129.
-
(1989)
Cladistics
, vol.5
, pp. 113-129
-
-
Sanderson, M.J.1
-
99
-
-
0034351392
-
Improved bootstrap confidence limits in large-scale phylogenies, with an example from Neo-Astragalus (Leguminosae)
-
Sanderson MJ, Wojciechowski MF, 2000. Improved bootstrap confidence limits in large-scale phylogenies, with an example from Neo-Astragalus (Leguminosae). Syst Biol 49: 671-685.
-
(2000)
Syst Biol
, vol.49
, pp. 671-685
-
-
Sanderson, M.J.1
Wojciechowski, M.F.2
-
100
-
-
19044390448
-
Weighted least-squares likelihood ratio test for branch testing in phylogenies reconstructed from distance measures
-
Sanjuan R, Wróbel B, 2005. Weighted least-squares likelihood ratio test for branch testing in phylogenies reconstructed from distance measures. Syst Biol 54: 218-229.
-
(2005)
Syst Biol
, vol.54
, pp. 218-229
-
-
Sanjuan, R.1
Wróbel, B.2
-
101
-
-
26444466173
-
The comparison of the confidence regions in phylogeny
-
Shi X, Gu H, Susko E, Field C, 2005. The comparison of the confidence regions in phylogeny. Mol Biol Evol 22: 2285-2296.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2285-2296
-
-
Shi, X.1
Gu, H.2
Susko, E.3
Field, C.4
-
102
-
-
0032766857
-
Multiple comparisons of log-likelihoods with applications to phylogenetic inference
-
Shimodaira H, Hasegawa M, 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol Biol Evol 16: 1114-1116.
-
(1999)
Mol Biol Evol
, vol.16
, pp. 1114-1116
-
-
Shimodaira, H.1
Hasegawa, M.2
-
103
-
-
0041563979
-
Polyphyletic origin of parallel basal bodies in swimming cells of chlorophycean green algae (Chlorophyta)
-
Shoup S, Lewis L, 2003. Polyphyletic origin of parallel basal bodies in swimming cells of chlorophycean green algae (Chlorophyta). J Phycol 39: 789-796.
-
(2003)
J Phycol
, vol.39
, pp. 789-796
-
-
Shoup, S.1
Lewis, L.2
-
104
-
-
0029433162
-
Another monophyly index: Revisiting the jackknife
-
Siddall ME, 1995. Another monophyly index: revisiting the jackknife. Cladistics 11: 33-56.
-
(1995)
Cladistics
, vol.11
, pp. 33-56
-
-
Siddall, M.E.1
-
106
-
-
0028985519
-
Interior-branch and bootstrap tests of phylogenetic trees
-
Sitnikova T, Rzhetsky A, Nei M, 1995. Interior-branch and bootstrap tests of phylogenetic trees. Mol Biol Evol 12: 319-333.
-
(1995)
Mol Biol Evol
, vol.12
, pp. 319-333
-
-
Sitnikova, T.1
Rzhetsky, A.2
Nei, M.3
-
107
-
-
0029965168
-
Bootstrap method of interior-branch test for phylogenetic tress
-
Sitnikova T, 1996. Bootstrap method of interior-branch test for phylogenetic tress. Mol Biol Evol 13: 605-611.
-
(1996)
Mol Biol Evol
, vol.13
, pp. 605-611
-
-
Sitnikova, T.1
-
108
-
-
0347532847
-
Applying the bootstrap in phylogeny reconstruction
-
Soltis PS, Soltis DE, 2003. Applying the bootstrap in phylogeny reconstruction. Stat Sci 18: 256-267.
-
(2003)
Stat Sci
, vol.18
, pp. 256-267
-
-
Soltis, P.S.1
Soltis, D.E.2
-
109
-
-
34047232697
-
The Bayesian "star paradox" persists for long fine sequences
-
Steel M, Matsen FA, 2007. The Bayesian "star paradox" persists for long fine sequences. Mol Biol Evol 24:1075-1079.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1075-1079
-
-
Steel, M.1
Matsen, F.A.2
-
110
-
-
4344665270
-
Phylogeny and divergence-date estimates of rapid radiations in muroid rodents based on multiple nuclear genes
-
Steppan SJ, Adkins RM, Anderson J, 2004. Phylogeny and divergence-date estimates of rapid radiations in muroid rodents based on multiple nuclear genes. Syst Biol 53: 533-553.
-
(2004)
Syst Biol
, vol.53
, pp. 533-553
-
-
Steppan, S.J.1
Adkins, R.M.2
Anderson, J.3
-
111
-
-
0035987385
-
Evolutionary history of the parrotfishes: Biogeography, ecomorphology, and comparative diversity
-
Streelman JT, Alfaro ME, Westneat MW, Bellwood DR, Karl SA, 2002. Evolutionary history of the parrotfishes: biogeography, ecomorphology, and comparative diversity. Evolution 56: 961-971.
-
(2002)
Evolution
, vol.56
, pp. 961-971
-
-
Streelman, J.T.1
Alfaro, M.E.2
Westneat, M.W.3
Bellwood, D.R.4
Karl, S.A.5
-
112
-
-
0029836454
-
Quartet Puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
-
Strimmer K, von Haeseler A, 1996. Quartet Puzzling: a quartet maximum-likelihood method for reconstructing tree topologies. Mol Biol Evol 13: 964-969.
-
(1996)
Mol Biol Evol
, vol.13
, pp. 964-969
-
-
Strimmer, K.1
von Haeseler, A.2
-
113
-
-
0031002417
-
Likelihood-mapping: A simple method to visualize phylogenetic content of a sequence alignment
-
Strimmer K, von Haeseler A, 1997. Likelihood-mapping: A simple method to visualize phylogenetic content of a sequence alignment. Proc Natl Acad Sci USA 94: 6815-6819.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 6815-6819
-
-
Strimmer, K.1
von Haeseler, A.2
-
114
-
-
41049111540
-
Inferring confidence sets of possibly misspecified gene trees
-
Strimmer K, Rambaut A, 2002. Inferring confidence sets of possibly misspecified gene trees. Proc R Soc Lond Ser B 269: 137-142.
-
(2002)
Proc R Soc Lond Ser B
, vol.269
, pp. 137-142
-
-
Strimmer, K.1
Rambaut, A.2
-
115
-
-
0031224772
-
Phylogeography and molecular systematics of the Peromyscus aztecus species group (Rodentia: Muridae) inferred using parsimony and likelihood
-
Sullivan J, Markert JA, Kilpatrick CW, 1997. Phylogeography and molecular systematics of the Peromyscus aztecus species group (Rodentia: Muridae) inferred using parsimony and likelihood. Syst Biol 46: 426-440.
-
(1997)
Syst Biol
, vol.46
, pp. 426-440
-
-
Sullivan, J.1
Markert, J.A.2
Kilpatrick, C.W.3
-
116
-
-
0038586502
-
Confidence regions and hypothesis tests for topologies using generalized least squares
-
Susko E, 2003. Confidence regions and hypothesis tests for topologies using generalized least squares. Mol Biol Evol 20: 862-868.
-
(2003)
Mol Biol Evol
, vol.20
, pp. 862-868
-
-
Susko, E.1
-
117
-
-
0037058983
-
Overcredibility of molecular phylogenetics obtained by Bayesian phylogenetics
-
Suzuki Y, Glazko GV, Nei M, 2002. Overcredibility of molecular phylogenetics obtained by Bayesian phylogenetics. Proc Natl Acad Sci USA 99: 16138-16143.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 16138-16143
-
-
Suzuki, Y.1
Glazko, G.V.2
Nei, M.3
-
118
-
-
33644593859
-
Fundamental differences between the methods of maximum likelihood and maximum posterior probability in phylogenetics
-
Svennblad B, Erixon P, Oxelman B, Britton T, 2006. Fundamental differences between the methods of maximum likelihood and maximum posterior probability in phylogenetics. Syst Biol 55L: 116-121.
-
(2006)
Syst Biol
, vol.55 L
, pp. 116-121
-
-
Svennblad, B.1
Erixon, P.2
Oxelman, B.3
Britton, T.4
-
119
-
-
85036928013
-
-
Swofford DL, 2002. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Sunderland, MA: Sinauer Associates.
-
Swofford DL, 2002. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Sunderland, MA: Sinauer Associates.
-
-
-
-
120
-
-
0001336205
-
Phylogenetic inference
-
Hillis DM, Moritz C, Mable BK, eds, Sunderland, MA: Sinauer Associates
-
Swofford DL, Olsen GJ, Waddell PJ, Hillis DM, 1996. Phylogenetic inference. In: Hillis DM, Moritz C, Mable BK, eds. Molecular systematics, Sunderland, MA: Sinauer Associates: 407-514.
-
(1996)
Molecular systematics
, pp. 407-514
-
-
Swofford, D.L.1
Olsen, G.J.2
Waddell, P.J.3
Hillis, D.M.4
-
121
-
-
0026543389
-
Statistical method for estimating the standard errors of branch lengths in a phylogenetic tree reconstructed without assuming equal rates of nucleotide substitution among different lineages
-
Tajima F, 1992. Statistical method for estimating the standard errors of branch lengths in a phylogenetic tree reconstructed without assuming equal rates of nucleotide substitution among different lineages. Mol Biol Evol 9: 168-181.
-
(1992)
Mol Biol Evol
, vol.9
, pp. 168-181
-
-
Tajima, F.1
-
122
-
-
3242795999
-
An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data
-
Taylor DJ, Piel WH, 2003. An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data. Mol Biol Evol 21: 1534-1537.
-
(2003)
Mol Biol Evol
, vol.21
, pp. 1534-1537
-
-
Taylor, D.J.1
Piel, W.H.2
-
123
-
-
0031149251
-
Links between maximum likelihood and maximum parsimony under a simple model of site substitution
-
Tuffley C, Steel M, 1997. Links between maximum likelihood and maximum parsimony under a simple model of site substitution. Bull Math Biol 59: 581-607.
-
(1997)
Bull Math Biol
, vol.59
, pp. 581-607
-
-
Tuffley, C.1
Steel, M.2
-
124
-
-
0001617782
-
Bias and confidence in no quite large samples
-
Tukey JW, 1958. Bias and confidence in no quite large samples. Ann Math Stat 29: 614.
-
(1958)
Ann Math Stat
, vol.29
, pp. 614
-
-
Tukey, J.W.1
-
125
-
-
0142089657
-
Very fast algorithms for evaluating the stability of ML and Bayesian phylogenetic trees from sequence data
-
Waddell PJ, Kishino H, Ota R, 2002. Very fast algorithms for evaluating the stability of ML and Bayesian phylogenetic trees from sequence data. Genome Inform 13: 82-92.
-
(2002)
Genome Inform
, vol.13
, pp. 82-92
-
-
Waddell, P.J.1
Kishino, H.2
Ota, R.3
-
126
-
-
0031297695
-
General timereversible distances with unequal rates across sites: Mixing G and inverse Gaussian distributions with invariant sites
-
Waddell PJ, Steel MA, 1997. General timereversible distances with unequal rates across sites: Mixing G and inverse Gaussian distributions with invariant sites. Mol Phylogenet Evol 8: 398-414.
-
(1997)
Mol Phylogenet Evol
, vol.8
, pp. 398-414
-
-
Waddell, P.J.1
Steel, M.A.2
-
127
-
-
0002750510
-
Nucleic acids I: DNA-DNA hybridization
-
Hillis DM, Moritz C, Mable BK, eds, Sunderland, MA: Sinauer Associates
-
Werman SD, Springer MS, Britten RJ, 1996. Nucleic acids I: DNA-DNA hybridization. In: Hillis DM, Moritz C, Mable BK, eds. Molecular systematics, Sunderland, MA: Sinauer Associates: 169-203.
-
(1996)
Molecular systematics
, pp. 169-203
-
-
Werman, S.D.1
Springer, M.S.2
Britten, R.J.3
-
128
-
-
0036368188
-
Phylogeny of the tree swallow genus, Tachycineta (Aves: Hirundinidae), by Bayesian analysis of mitochondrial DNA sequences
-
Whittingham LA, Slikas B, Winkler DW, Sheldon FH, 2002. Phylogeny of the tree swallow genus, Tachycineta (Aves: Hirundinidae), by Bayesian analysis of mitochondrial DNA sequences. Mol Phylogenet Evol 22: 430-441.
-
(2002)
Mol Phylogenet Evol
, vol.22
, pp. 430-441
-
-
Whittingham, L.A.1
Slikas, B.2
Winkler, D.W.3
Sheldon, F.H.4
-
129
-
-
0036431235
-
Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support
-
Wilcox TP, Zwickl DJ, Heath TA, Hillis DM, 2002. Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Mol Phylogenet Evol 25: 361-371.
-
(2002)
Mol Phylogenet Evol
, vol.25
, pp. 361-371
-
-
Wilcox, T.P.1
Zwickl, D.J.2
Heath, T.A.3
Hillis, D.M.4
-
130
-
-
33646857240
-
Analysis of the overdispersed clock in the short-term evolution of Hepatitis C Virus: Using the E1/E2 gene sequences to infer infection dates in a single source outbreak
-
Wróbel B, Torres-Puente M, Jimenez N, Bracho M, Garcia-Robles I, Moya A, Gonzalez-Candelas F, 2006. Analysis of the overdispersed clock in the short-term evolution of Hepatitis C Virus: Using the E1/E2 gene sequences to infer infection dates in a single source outbreak. Mol Biol Evol 23: 1242-1251.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1242-1251
-
-
Wróbel, B.1
Torres-Puente, M.2
Jimenez, N.3
Bracho, M.4
Garcia-Robles, I.5
Moya, A.6
Gonzalez-Candelas, F.7
-
131
-
-
0036116401
-
Evolution of lambdoid replication modules
-
Wróbel B, Wegrzyn G, 2002. Evolution of lambdoid replication modules. Virus Genes 24: 163-171.
-
(2002)
Virus Genes
, vol.24
, pp. 163-171
-
-
Wróbel, B.1
Wegrzyn, G.2
-
132
-
-
33846340723
-
Genomic DNA hybridization as an attempt to evaluate phylogenetic relationships of Ostracoda
-
Wysocka A, Konopa G, Wegrzyn G, Wróbel B, 2006. Genomic DNA hybridization as an attempt to evaluate phylogenetic relationships of Ostracoda. Crustaceana 79: 1309-1322.
-
(2006)
Crustaceana
, vol.79
, pp. 1309-1322
-
-
Wysocka, A.1
Konopa, G.2
Wegrzyn, G.3
Wróbel, B.4
-
133
-
-
22844452772
-
Branch-length prior influences Bayesian posterior probability of phylogeny
-
Yang Z, Rannala B, 2005. Branch-length prior influences Bayesian posterior probability of phylogeny. Syst Biol 54: 455-470.
-
(2005)
Syst Biol
, vol.54
, pp. 455-470
-
-
Yang, Z.1
Rannala, B.2
-
134
-
-
0026443498
-
Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. I. Four taxa with a molecular clock
-
Zharkikh A, Li W-H, 1992a. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. I. Four taxa with a molecular clock. Mol Biol Evol 9: 1119-1147.
-
(1992)
Mol Biol Evol
, vol.9
, pp. 1119-1147
-
-
Zharkikh, A.1
Li, W.-H.2
-
135
-
-
0026484750
-
Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. II. Four taxa without a molecular clock
-
Zharkikh A, Li W-H, 1992b. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. II. Four taxa without a molecular clock. J Mol Evol 35: 356-366.
-
(1992)
J Mol Evol
, vol.35
, pp. 356-366
-
-
Zharkikh, A.1
Li, W.-H.2
-
136
-
-
0029261787
-
Estimation of confidence in phylogeny: The complete-and-partial bootstrap technique
-
Zharkikh A, Li W-H, 1995. Estimation of confidence in phylogeny: the complete-and-partial bootstrap technique. Mol Phyl Evol 4: 44-63.
-
(1995)
Mol Phyl Evol
, vol.4
, pp. 44-63
-
-
Zharkikh, A.1
Li, W.-H.2
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