-
2
-
-
0036790011
-
Genetic algorithms and parallel processing in maximum-likelihood phytogeny inference
-
M.J. Brauer, Holder M.T., Dries L.A., Zwickl D.J., Lewis P.O., and Hillis D.M. Genetic algorithms and parallel processing in maximum-likelihood phytogeny inference. Molecular Biology and Evolution, 19:1717-1726, 2002.
-
(2002)
Molecular Biology and Evolution
, vol.19
, pp. 1717-1726
-
-
Brauer, M.J.1
Holder, M.T.2
Dries, L.A.3
Zwickl, D.J.4
Lewis, P.O.5
Hillis, D.M.6
-
3
-
-
27144471045
-
Maximum likelihood of evolutionary trees is hard
-
B. Chor and T. Tuller. Maximum likelihood of evolutionary trees is hard. In Proc. of RECOMB05, 2005.
-
(2005)
Proc. of RECOMB05
-
-
Chor, B.1
Tuller, T.2
-
4
-
-
33646421502
-
Prec-idcm3: A parallel framework for fast and accurate large scale phytogeny reconstruction
-
to be published
-
C. Coarfa, Y. Dotsenko, J. Mellor-Crummey, L. Nakhleh, and U. Roshan. Prec-idcm3: A parallel framework for fast and accurate large scale phytogeny reconstruction. Proc. of HiPCoMP 2005, to be published.
-
Proc. of HiPCoMP 2005
-
-
Coarfa, C.1
Dotsenko, Y.2
Mellor-Crummey, J.3
Nakhleh, L.4
Roshan, U.5
-
5
-
-
3042666256
-
Muscle: Multiple sequence alignment with high accuracy and high throughput
-
Robert C. Edgar. Muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32(5):1792-1797, 2004.
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.5
, pp. 1792-1797
-
-
Edgar, R.C.1
-
6
-
-
0019797407
-
Evolutionary trees from DNA sequences: A maximum likelihood approach
-
J. Felsenstein. Evolutionary trees from DNA sequences: A maximum likelihood approach. Journal of Molecular Evolution, 17:368-376, 1981.
-
(1981)
Journal of Molecular Evolution
, vol.17
, pp. 368-376
-
-
Felsenstein, J.1
-
7
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phytogenies by maximum likelihood
-
S. Guindon and Gascuel O. A simple, fast, and accurate algorithm to estimate large phytogenies by maximum likelihood. Syst. Biol., 52(5):696-704, 2003.
-
(2003)
Syst. Biol.
, vol.52
, Issue.5
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
8
-
-
0032746022
-
Disk-covering, a fast-converging method for phylogenetic tree reconstruction
-
D. Huson, S. Nettles, and T. Warnow. Disk-covering, a fast-converging method for phylogenetic tree reconstruction. J. Comp. Biol., 6:369-386, 1999.
-
(1999)
J. Comp. Biol.
, vol.6
, pp. 369-386
-
-
Huson, D.1
Nettles, S.2
Warnow, T.3
-
9
-
-
0000116740
-
A method for deducing branching sequences in phytogeny
-
Camin J. and Sokal R. A method for deducing branching sequences in phytogeny. Evolution, 19:311-326, 1965.
-
(1965)
Evolution
, vol.19
, pp. 311-326
-
-
Camin, J.1
Sokal, R.2
-
10
-
-
0032420129
-
Simultaneous parsimony jackknife analysis of 2538 rbcL DNA sequences reveals support for major clades of green plants, land plants, seed plants, and flowering plants
-
M. Kallerjo, J. S. Farris, M. W. Chase, B. Bremer, and M. F. Fay. Simultaneous parsimony jackknife analysis of 2538 rbcL DNA sequences reveals support for major clades of green plants, land plants, seed plants, and flowering plants. Plant. Syst. Evol., 213:259-287, 1998.
-
(1998)
Plant. Syst. Evol.
, vol.213
, pp. 259-287
-
-
Kallerjo, M.1
Farris, J.S.2
Chase, M.W.3
Bremer, B.4
Fay, M.F.5
-
11
-
-
16344387501
-
Dprml: Distributed phytogeny reconstruction by maximum likelihood
-
T.M. Keane, Naughton T.J., Travers S.A.A., Mclnerney J.O., and McCormack G.P. Dprml: Distributed phytogeny reconstruction by maximum likelihood. Bioinformatics, 21(7):969-974, 2005.
-
(2005)
Bioinformatics
, vol.21
, Issue.7
, pp. 969-974
-
-
Keane, T.M.1
Naughton, T.J.2
Travers, S.A.A.3
Mclnerney, J.O.4
McCormack, G.P.5
-
12
-
-
11344278220
-
Predicting protein functional sites with phylogenetic motifs
-
D. La, B. Sutch, and D. R. Livesay. Predicting protein functional sites with phylogenetic motifs. Prot.: Struct., Funct., and Bioinf., 58(2):309-320, 2005.
-
(2005)
Prot.: Struct., Funct., and Bioinf.
, vol.58
, Issue.2
, pp. 309-320
-
-
La, D.1
Sutch, B.2
Livesay, D.R.3
-
14
-
-
0033954255
-
The RDP (ribosomal database project) continues
-
B. Maidak. The RDP (ribosomal database project) continues. Nucleic Acids Research, 28:173-174, 2000.
-
(2000)
Nucleic Acids Research
, vol.28
, pp. 173-174
-
-
Maidak, B.1
-
15
-
-
84889959894
-
Sequence length requirements for phylogenetic methods
-
B.M.E. Moret, U. Roshan, and T. Warnow. Sequence length requirements for phylogenetic methods. In Proc. of WABI'02, pages 343-356, 2002.
-
(2002)
Proc. of WABI'02
, pp. 343-356
-
-
Moret, B.M.E.1
Roshan, U.2
Warnow, T.3
-
16
-
-
0031224822
-
Analyzing large datasets: RbcL 500 revisited
-
K. Rice, M. Donoghue, and R. Olmstead. Analyzing large datasets: rbcL 500 revisited. Systematic Biology, 46(3):554-563, 1997.
-
(1997)
Systematic Biology
, vol.46
, Issue.3
, pp. 554-563
-
-
Rice, K.1
Donoghue, M.2
Olmstead, R.3
-
17
-
-
14044251530
-
Rec-i-dcm3: A fast algorithmic technique for reconstructing large phylogenetic trees
-
Stanford, California, USA
-
U. Roshan, B. M. E. Moret, T. Warnow, and T. L. Williams. Rec-i-dcm3: a fast algorithmic technique for reconstructing large phylogenetic trees. In Proc. of CSB04, Stanford, California, USA, 2004.
-
(2004)
Proc. of CSB04
-
-
Roshan, U.1
Moret, B.M.E.2
Warnow, T.3
Williams, T.L.4
-
18
-
-
0023375195
-
The neighbor-joining method: A new method for reconstructing phylogenetic trees
-
N. Saitou and M. Nei. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4:406-425, 1987.
-
(1987)
Molecular Biology and Evolution
, vol.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
19
-
-
0028084754
-
Can three-dimensional contacts in protein structures be predicted by analysis of correlated mutations?
-
I.N. Shindyalov, Kolchanov N.A., and Sander C. Can three-dimensional contacts in protein structures be predicted by analysis of correlated mutations? Prot. Engng., 7:349-358, 1994.
-
(1994)
Prot. Engng.
, vol.7
, pp. 349-358
-
-
Shindyalov, I.N.1
Kolchanov, N.A.2
Sander, C.3
-
20
-
-
14644397888
-
Raxml-iii: A fast program for maximum likelihood-based inference of large phylogenetic trees
-
A. Stamatakis, Ludwig, T., Meier, and H. Raxml-iii: A fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics, 21(4):456-463, 2005.
-
(2005)
Bioinformatics
, vol.21
, Issue.4
, pp. 456-463
-
-
Stamatakis, A.1
Ludwig, T.2
Meier, H.3
-
21
-
-
35048835879
-
Parallel inference of a 10.000-taxon phylogeny with maximum likelihood
-
A. Stamatakis, Ludwig T., and Meier H. Parallel inference of a 10.000-taxon phylogeny with maximum likelihood. In Proc. of Euro-Par2004, pages 997-1004, 2004.
-
(2004)
Proc. of Euro-Par2004
, pp. 997-1004
-
-
Stamatakis, A.1
Ludwig, T.2
Meier, H.3
-
22
-
-
2442574511
-
Parallel implementation and performance of fastdnaml - A program for maximum likelihood phylogenetic inference
-
C. Stewart, Hart D., Berry D., Olsen G., Wernert E., and Fischer W. Parallel implementation and performance of fastdnaml - a program for maximum likelihood phylogenetic inference. In Proc. of SC2001, 2001.
-
(2001)
Proc. of SC2001
-
-
Stewart, C.1
Hart, D.2
Berry, D.3
Olsen, G.4
Wernert, E.5
Fischer, W.6
-
23
-
-
14044253059
-
The relationship between maximum parsimony scores and phylogenetic tree topologies
-
Department of Computer Science, The University of New Mexico
-
T.L. Williams. The relationship between maximum parsimony scores and phylogenetic tree topologies. In Tech. Report, TR-CS-2004-04,. Department of Computer Science, The University of New Mexico, 2004.
-
(2004)
Tech. Report
, vol.TR-CS-2004-04
-
-
Williams, T.L.1
-
24
-
-
0036081020
-
The European database on small subunit ribosomal RNA
-
J. Wuyts, Y. Van de Peer, T. Winkelmans, and R. De Wachter. The European database on small subunit ribosomal RNA. Nucl. Acids Res., 30:183-185, 2002.
-
(2002)
Nucl. Acids Res.
, vol.30
, pp. 183-185
-
-
Wuyts, J.1
Van De Peer, Y.2
Winkelmans, T.3
De Wachter, R.4
|