-
1
-
-
0037022379
-
The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium, Entamoeba, and Mastigamoeba
-
Bapteste E., Brinkmann H., Lee A.J., Moore D.V., Sensen C.W., Gordon P., Durufle L., Gaasterland T., Lopez P.M., Muller, and Philippe H. The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium, Entamoeba, and Mastigamoeba. Proc. Natl. Acad. Sci. U.S.A. 99 (2002) 1414-1419
-
(2002)
Proc. Natl. Acad. Sci. U.S.A.
, vol.99
, pp. 1414-1419
-
-
Bapteste, E.1
Brinkmann, H.2
Lee, A.J.3
Moore, D.V.4
Sensen, C.W.5
Gordon, P.6
Durufle, L.7
Gaasterland, T.8
Lopez, P.M.9
Muller10
Philippe, H.11
-
2
-
-
12044257391
-
Partitioning and combining data in phylogenetic analysis
-
Bull J.J., Huelsenbeck J.P., Cunningham C.W., Swofford D.L., and Waddell P.J. Partitioning and combining data in phylogenetic analysis. Syst. Biol. 42 (1993) 384-397
-
(1993)
Syst. Biol.
, vol.42
, pp. 384-397
-
-
Bull, J.J.1
Huelsenbeck, J.P.2
Cunningham, C.W.3
Swofford, D.L.4
Waddell, P.J.5
-
3
-
-
28944454501
-
DNA assembly with gaps (Dawg): simulating sequence evolution
-
Cartwright R.A. DNA assembly with gaps (Dawg): simulating sequence evolution. Bioinformatics 21 (2005) iii31-iii38
-
(2005)
Bioinformatics
, vol.21
-
-
Cartwright, R.A.1
-
4
-
-
84959798530
-
Cases in which parsimony or compatibility methods will be positively misleading
-
Felsenstein J. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27 (1978) 401-410
-
(1978)
Syst. Zool.
, vol.27
, pp. 401-410
-
-
Felsenstein, J.1
-
5
-
-
0000461280
-
Confidence limits on phylogenies: an approach using the bootstrap
-
Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 (1985) 783-791
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
Felsenstein, J.1
-
6
-
-
0003991673
-
-
Singular Associates, Sunderland, Massachusetts
-
Felsenstein J. Inferring Phylogenies (2004), Singular Associates, Sunderland, Massachusetts
-
(2004)
Inferring Phylogenies
-
-
Felsenstein, J.1
-
7
-
-
14844313275
-
Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree
-
Gadagkar S.R., Rosenberg M.S., and Kumar S. Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree. J. Exp. Zool. (MOL DEV EVOL) 304B (2005) 64-74
-
(2005)
J. Exp. Zool. (MOL DEV EVOL)
, vol.304 B
, pp. 64-74
-
-
Gadagkar, S.R.1
Rosenberg, M.S.2
Kumar, S.3
-
8
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon S., and Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 52 5 (2003) 696-704
-
(2003)
Syst. Biol.
, vol.52
, Issue.5
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
9
-
-
23144433822
-
PHYML online-a web server for fast maximum likelihood-based phylogenetic inference
-
(Web Server issue)
-
Guindon S., Lethiec F., Duroux P., and Gascuel O. PHYML online-a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 33 (2005) W557-W559 (Web Server issue)
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Guindon, S.1
Lethiec, F.2
Duroux, P.3
Gascuel, O.4
-
10
-
-
0025061094
-
Limitations of the evolutionary parsimony method of phylogenetic analysis
-
Jin L., and Nei M. Limitations of the evolutionary parsimony method of phylogenetic analysis. Mol. Biol. Evol. 7 (1990) 82-102
-
(1990)
Mol. Biol. Evol.
, vol.7
, pp. 82-102
-
-
Jin, L.1
Nei, M.2
-
11
-
-
0034548435
-
Efficiency of the neighbor-joining method in reconstructing deep and shallow evolutionary relationships in large phylogenies
-
Kumar S., and Gadagkar S.R. Efficiency of the neighbor-joining method in reconstructing deep and shallow evolutionary relationships in large phylogenies. J. Mol. Evol. 51 (2000) 544-553
-
(2000)
J. Mol. Evol.
, vol.51
, pp. 544-553
-
-
Kumar, S.1
Gadagkar, S.R.2
-
12
-
-
45949109669
-
MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences
-
Kumar S., Dudley J., Nei M., and Tamura K. MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief. Bioinform. 9 (2008) 299-306
-
(2008)
Brief. Bioinform.
, vol.9
, pp. 299-306
-
-
Kumar, S.1
Dudley, J.2
Nei, M.3
Tamura, K.4
-
13
-
-
0035252080
-
Molecular phylogenetics and the origins of placental mammals
-
Murphy W.J., Eizirik E., Johnson W.E., Zhang Y.P., Ryder O.A., and O'Brien S.J. Molecular phylogenetics and the origins of placental mammals. Nature 409 (2001) 614-618
-
(2001)
Nature
, vol.409
, pp. 614-618
-
-
Murphy, W.J.1
Eizirik, E.2
Johnson, W.E.3
Zhang, Y.P.4
Ryder, O.A.5
O'Brien, S.J.6
-
14
-
-
39749188544
-
Rooting the eutherian tree: the power and pitfalls of phylogenomics
-
Nishihara H., Okada N., and Hasegawa M. Rooting the eutherian tree: the power and pitfalls of phylogenomics. Genome Biol. 8 (2007) R199
-
(2007)
Genome Biol.
, vol.8
-
-
Nishihara, H.1
Okada, N.2
Hasegawa, M.3
-
15
-
-
0003677357
-
-
Blackwell, Osney Mead, Oxford, UK
-
Page R., and Holmes E. Molecular Evolution: A Phylogenetic Approach (1998), Blackwell, Osney Mead, Oxford, UK
-
(1998)
Molecular Evolution: A Phylogenetic Approach
-
-
Page, R.1
Holmes, E.2
-
16
-
-
0019424782
-
Comparison of phylogenetic trees
-
Robinson D.F., and Foulds L.R. Comparison of phylogenetic trees. Math. Biosci. 53 1-2 (1981) 131-147
-
(1981)
Math. Biosci.
, vol.53
, Issue.1-2
, pp. 131-147
-
-
Robinson, D.F.1
Foulds, L.R.2
-
17
-
-
0242365676
-
Genome-scale approaches to resolving incongruence in molecular phylogenies
-
Rokas A., Williams B.L., King N., and Carroll S.B. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 425 (2003) 798-804
-
(2003)
Nature
, vol.425
, pp. 798-804
-
-
Rokas, A.1
Williams, B.L.2
King, N.3
Carroll, S.B.4
-
18
-
-
0023375195
-
The neighbor-joining method: a new method for reconstructing phylogenetic trees
-
Saitou N., and Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4 (1987) 406-425
-
(1987)
Mol. Biol. Evol.
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
19
-
-
0038158155
-
Obtaining maximal concatenated phylogenetic data sets from large sequence databases
-
Sanderson M.J., Driskell A.C., Ree R.H., Eulenstein O., and Langley S. Obtaining maximal concatenated phylogenetic data sets from large sequence databases. Mol. Biol. Evol. 20 (2003) 1036-1042
-
(2003)
Mol. Biol. Evol.
, vol.20
, pp. 1036-1042
-
-
Sanderson, M.J.1
Driskell, A.C.2
Ree, R.H.3
Eulenstein, O.4
Langley, S.5
-
20
-
-
0037417891
-
Placental mammal diversification and the Cretaceous-Tertiary boundary
-
Springer M.S., Murphy W.J., Eizirik E., and O'Brien S.J. Placental mammal diversification and the Cretaceous-Tertiary boundary. Proc. Natl. Acad. Sci. U.S.A. 100 3 (2003) 1056-1061
-
(2003)
Proc. Natl. Acad. Sci. U.S.A.
, vol.100
, Issue.3
, pp. 1056-1061
-
-
Springer, M.S.1
Murphy, W.J.2
Eizirik, E.3
O'Brien, S.J.4
-
21
-
-
0033604619
-
Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology
-
Soltis P.S., Soltis D.E., and Chase M.W. Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology. Nature 402 (1999) 402-404
-
(1999)
Nature
, vol.402
, pp. 402-404
-
-
Soltis, P.S.1
Soltis, D.E.2
Chase, M.W.3
-
22
-
-
67649649922
-
The effect of heterotachy in multigene analysis using the neighbor joining method
-
Som A., and Fuellen G. The effect of heterotachy in multigene analysis using the neighbor joining method. Mol. Phylogenet. Evol. 52 (2009) 846-851
-
(2009)
Mol. Phylogenet. Evol.
, vol.52
, pp. 846-851
-
-
Som, A.1
Fuellen, G.2
-
23
-
-
0001336205
-
Phylogenetic inference
-
Hillis D.M., Moritz C., and Mable B.K. (Eds), Sinauer, Sunderland, Massachusetts
-
Swofford D.L., Olsen G., Waddel P., and Hillis D.M. Phylogenetic inference. In: Hillis D.M., Moritz C., and Mable B.K. (Eds). Pages in Molecular systematics. second ed. (1996), Sinauer, Sunderland, Massachusetts
-
(1996)
Pages in Molecular systematics. second ed.
-
-
Swofford, D.L.1
Olsen, G.2
Waddel, P.3
Hillis, D.M.4
-
24
-
-
0027157960
-
Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
-
Tamura K., and Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10 (1993) 512-526
-
(1993)
Mol. Biol. Evol.
, vol.10
, pp. 512-526
-
-
Tamura, K.1
Nei, M.2
-
25
-
-
3342920601
-
Prospects for inferring very large phylogenies by using the Neighbor-Joining method
-
Tamura K., Nei M., and Kumar S. Prospects for inferring very large phylogenies by using the Neighbor-Joining method. Proc. Natl. Acad. Sci. U.S.A. 101 (2004) 11030-11035
-
(2004)
Proc. Natl. Acad. Sci. U.S.A.
, vol.101
, pp. 11030-11035
-
-
Tamura, K.1
Nei, M.2
Kumar, S.3
-
26
-
-
34547781750
-
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
-
Tamura K., Dudley J., Nei M., and Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24 (2007) 1596-1599
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
27
-
-
0015219691
-
Fitting discrete probability distributions to evolutionary events
-
Uzzell T., and Corbin K. Fitting discrete probability distributions to evolutionary events. Science 172 (1971) 1089-1096
-
(1971)
Science
, vol.172
, pp. 1089-1096
-
-
Uzzell, T.1
Corbin, K.2
-
28
-
-
0030451420
-
Among-site rate variation and its impact on phylogenetic analyses
-
Yang Z. Among-site rate variation and its impact on phylogenetic analyses. Trends Ecol. Evol. 11 (1996) 367-372
-
(1996)
Trends Ecol. Evol.
, vol.11
, pp. 367-372
-
-
Yang, Z.1
|