-
1
-
-
0001656793
-
The performance of neighbor-joining methods of phylogenetic reconstruction
-
K Arteson. The performance of neighbor-joining methods of phylogenetic reconstruction. Algorithmica, 25(2-3):251-278, 1999.
-
(1999)
Algorithmica
, vol.25
, Issue.2-3
, pp. 251-278
-
-
Arteson, K.1
-
2
-
-
84972510219
-
Statistical analysis of hominoid molecular evolution
-
With comments by Stephen Portnoy and Joseph Felsenstein and a reply by the authors
-
D. Barry and J. A. Hartigan. Statistical analysis of hominoid molecular evolution. Statist. Sci., 2(2): 191-210, 1987. With comments by Stephen Portnoy and Joseph Felsenstein and a reply by the authors.
-
(1987)
Statist. Sci
, vol.2
, Issue.2
, pp. 191-210
-
-
Barry, D.1
Hartigan, J.A.2
-
3
-
-
0030588055
-
Full reconstruction of Markov models on evolutionary trees: Identifiability and consistency
-
J. T. Chang. Full reconstruction of Markov models on evolutionary trees: identifiability and consistency. Math. Biosci., 137(1):51-73, 1996.
-
(1996)
Math. Biosci
, vol.137
, Issue.1
, pp. 51-73
-
-
Chang, J.T.1
-
5
-
-
33845335476
-
Finding a maximum likelihood tree is hard
-
B. Chor and T. Tuller. Finding a maximum likelihood tree is hard. J. ACM, 53(5):722-744, 2006.
-
(2006)
J. ACM
, vol.53
, Issue.5
, pp. 722-744
-
-
Chor, B.1
Tuller, T.2
-
6
-
-
0036253383
-
-
M. Cryan, L. A. Goldberg, and P. W. Goldberg. Evolutionary trees can be learned in polynomial time. SIAM J. Comput., 31(2):375-397, 2002. short version, Proceedings of the 39th Annual Symposium on Foundations of Computer Science (FOCS 98), pages 436-445, 1998.
-
M. Cryan, L. A. Goldberg, and P. W. Goldberg. Evolutionary trees can be learned in polynomial time. SIAM J. Comput., 31(2):375-397, 2002. short version, Proceedings of the 39th Annual Symposium on Foundations of Computer Science (FOCS 98), pages 436-445, 1998.
-
-
-
-
7
-
-
0036108575
-
Fast recovery of evolutionary trees with thousands of nodes
-
M. Csurös. Fast recovery of evolutionary trees with thousands of nodes. J. Comput Biol., 9(2):277-97, 2002.
-
(2002)
J. Comput Biol
, vol.9
, Issue.2
, pp. 277-297
-
-
Csurös, M.1
-
8
-
-
0036214723
-
Provably fast and accurate recovery of evolutionary trees through harmonic greedy triplets
-
M. Csurös and M.-Y. Kao. Provably fast and accurate recovery of evolutionary trees through harmonic greedy triplets. SIAM Journal on Computing, 31(1):306-322, 2001.
-
(2001)
SIAM Journal on Computing
, vol.31
, Issue.1
, pp. 306-322
-
-
Csurös, M.1
Kao, M.-Y.2
-
9
-
-
33745775198
-
Maximal accurate forests from distance matrices
-
C. Daskalakis, C. Hill, A. Jaffe, R. Mihaescu, E. Mossel, and S. Rao. Maximal accurate forests from distance matrices. In RECOMB, pages 281-295, 2006.
-
(2006)
RECOMB
, pp. 281-295
-
-
Daskalakis, C.1
Hill, C.2
Jaffe, A.3
Mihaescu, R.4
Mossel, E.5
Rao, S.6
-
10
-
-
33748097273
-
Optimal phylogenetic reconstruction
-
New York, ACM
-
C. Daskalakis, E. Mossel, and S. Roch. Optimal phylogenetic reconstruction. In STOC'06: Proceedings of the 38th Annual. ACM Symposium on Theory of Computing, pages 159-168, New York, 2006. ACM.
-
(2006)
STOC'06: Proceedings of the 38th Annual. ACM Symposium on Theory of Computing
, pp. 159-168
-
-
Daskalakis, C.1
Mossel, E.2
Roch, S.3
-
11
-
-
57949091019
-
Evolutionaty trees and the Ising model on the Bethe lattice: A proof of Steel's conjecture
-
Preprint
-
C. Daskalakis, E. Mossel, and S. Roch. Evolutionaty trees and the Ising model on the Bethe lattice: a proof of Steel's conjecture. Preprint, 2008.
-
(2008)
-
-
Daskalakis, C.1
Mossel, E.2
Roch, S.3
-
12
-
-
57949090519
-
Phylogenies without branch bounds: Contracting the short, pruning the deep
-
Preprint
-
C. Daskalakis, E. Mossel, and S. Roch. Phylogenies without branch bounds: Contracting the short, pruning the deep. Preprint, 2008.
-
(2008)
-
-
Daskalakis, C.1
Mossel, E.2
Roch, S.3
-
13
-
-
0023079987
-
Computational complexity of inferring phylogenies from dissimilarity matrices
-
W. H. E. Day. Computational complexity of inferring phylogenies from dissimilarity matrices. Bull. Math. Biol., 49(4):461-467, 1987.
-
(1987)
Bull. Math. Biol
, vol.49
, Issue.4
, pp. 461-467
-
-
Day, W.H.E.1
-
14
-
-
0004485904
-
Computational complexity of inferring phylogenies by compatibility
-
W. H. E. Day and D. Sankoff. Computational complexity of inferring phylogenies by compatibility. Syst. Zool., 35(2):224-229, 1986.
-
(1986)
Syst. Zool
, vol.35
, Issue.2
, pp. 224-229
-
-
Day, W.H.E.1
Sankoff, D.2
-
15
-
-
0033480324
-
A few logs suffice to build (almost) all trees (part 1)
-
P. L. Erdös, M. A. Steel, L. A. Székely, and T. A. Warnow. A few logs suffice to build (almost) all trees (part 1). Random Struct. Algor., 14(2): 153-184, 1999.
-
(1999)
Random Struct. Algor
, vol.14
, Issue.2
, pp. 153-184
-
-
Erdös, P.L.1
Steel, M.A.2
Székely, L.A.3
Warnow, T.A.4
-
16
-
-
0001860411
-
-
P. L. Erdös, M. A. Steel, L. A. Székely, and T. A. Warnow. A. few logs suffice to build (almost) all trees (part 2). Theor. Comput Sci., 221:77-118, 1999.
-
P. L. Erdös, M. A. Steel, L. A. Székely, and T. A. Warnow. A. few logs suffice to build (almost) all trees (part 2). Theor. Comput Sci., 221:77-118, 1999.
-
-
-
-
17
-
-
0034408816
-
Broadcasting on trees and the Ising model
-
W. S. Evans, C. Kenyon, Y. Peres, and L. J. Schulman. Broadcasting on trees and the Ising model. Ann. Appl. Probah., 10(2):410-433, 2000.
-
(2000)
Ann. Appl. Probah
, vol.10
, Issue.2
, pp. 410-433
-
-
Evans, W.S.1
Kenyon, C.2
Peres, Y.3
Schulman, L.J.4
-
18
-
-
0000161374
-
Efficient algorithms for inverting evolution
-
M. Farach and S. Kannan. Efficient algorithms for inverting evolution. J. ACM, 46(4):437-449, 1999.
-
(1999)
J. ACM
, vol.46
, Issue.4
, pp. 437-449
-
-
Farach, M.1
Kannan, S.2
-
20
-
-
0030807655
-
BIO-NJ: An improved version of the NJ algorithm based on a simple model of sequence data
-
O. Gascuel. BIO-NJ: An improved version of the NJ algorithm based on a simple model of sequence data. Mol. Biol. Evol., 14(7): 685-695, 1997.
-
(1997)
Mol. Biol. Evol
, vol.14
, Issue.7
, pp. 685-695
-
-
Gascuel, O.1
-
22
-
-
0020308198
-
Unlikelihood that minimal phylogenies for a realistic biological study can be constructed in reasonable computational time
-
R. L. Graham., and L. R. Foulds. Unlikelihood that minimal phylogenies for a realistic biological study can be constructed in reasonable computational time. Math. Biosci., 60:133-142, 1982.
-
(1982)
Math. Biosci
, vol.60
, pp. 133-142
-
-
Graham, R.L.1
Foulds, L.R.2
-
23
-
-
57949110804
-
-
I. Gronau, S. Moran, and S. Snir. Fast and reliable reconstruction of phylogenetic trees with very short edges. To appear in SODA, 2008.
-
I. Gronau, S. Moran, and S. Snir. Fast and reliable reconstruction of phylogenetic trees with very short edges. To appear in SODA, 2008.
-
-
-
-
24
-
-
0038077526
-
On the complexity of distance-based evolutionary tree reconstruction
-
Philadelphia, PA, USA, Society for Industrial and Applied Mathematics
-
V. King, L. Zhang, and Y Zhou. On the complexity of distance-based evolutionary tree reconstruction. In SODA '03: Proceedings of the fourteenth annual ACM-SIAM symposium on Discrete algorithms, pages 444-453, Philadelphia, PA, USA, 2003. Society for Industrial and Applied Mathematics.
-
(2003)
SODA '03: Proceedings of the fourteenth annual ACM-SIAM symposium on Discrete algorithms
, pp. 444-453
-
-
King, V.1
Zhang, L.2
Zhou, Y.3
-
25
-
-
32044432604
-
A signal-to-noise analysis of phylogeny estimation by neighbor-joining: Insufficiency of polynomial length sequences
-
M. R. Lacey and J. T. Chang. A signal-to-noise analysis of phylogeny estimation by neighbor-joining: insufficiency of polynomial length sequences. Math. Biosci., 199(2):188-215, 2006.
-
(2006)
Math. Biosci
, vol.199
, Issue.2
, pp. 188-215
-
-
Lacey, M.R.1
Chang, J.T.2
-
26
-
-
0028181246
-
Reconstructing Evolutionary Trees from DNA and Protein Sequences: Paralinear Distances
-
J. Lake. Reconstructing Evolutionary Trees from DNA and Protein Sequences: Paralinear Distances. Proceedings of the National Academy of Sciences, 91(4):1455-1459, 1994.
-
(1994)
Proceedings of the National Academy of Sciences
, vol.91
, Issue.4
, pp. 1455-1459
-
-
Lake, J.1
-
28
-
-
0028361182
-
Recovering Evolutionary Trees under a More Realistic Model of Sequence
-
P. Lockhart, M. Steel, M. Hendy, and D. Penny. Recovering Evolutionary Trees under a More Realistic Model of Sequence. Mol Biol Evol, 11(4):605-612, 1994.
-
(1994)
Mol Biol Evol
, vol.11
, Issue.4
, pp. 605-612
-
-
Lockhart, P.1
Steel, M.2
Hendy, M.3
Penny, D.4
-
29
-
-
0242523720
-
On the impossibility of reconstructing ancestral data and phylogenies
-
E. Mossel. On the impossibility of reconstructing ancestral data and phylogenies. J. Comput. Biol., 10(5):669-678, 2003.
-
(2003)
J. Comput. Biol
, vol.10
, Issue.5
, pp. 669-678
-
-
Mossel, E.1
-
30
-
-
2442663027
-
Phase transitions in phylogeny
-
E. Mossel. Phase transitions in phylogeny. Trans. Amer. Math. Soc., 356(6):2379-2404, 2004.
-
(2004)
Trans. Amer. Math. Soc
, vol.356
, Issue.6
, pp. 2379-2404
-
-
Mossel, E.1
-
31
-
-
33847726622
-
Distorted metrics on trees and phylogenetic forests
-
E. Mossel. Distorted metrics on trees and phylogenetic forests. IEEE/ACM Trans. Comput Bio. Bioinform., 4(1): 108-116, 2007.
-
(2007)
IEEE/ACM Trans. Comput Bio. Bioinform
, vol.4
, Issue.1
, pp. 108-116
-
-
Mossel, E.1
-
32
-
-
1842550501
-
Information flow on trees
-
E. Mossel and Y Peres. Information flow on trees. Ann. Appl. Probab., 13(3):817-844, 2003.
-
(2003)
Ann. Appl. Probab
, vol.13
, Issue.3
, pp. 817-844
-
-
Mossel, E.1
Peres, Y.2
-
33
-
-
33746918412
-
Learning nonsingular phylogenies and hidden Markov models
-
E. Mossel and S. Roch. Learning nonsingular phylogenies and hidden Markov models. Ann. Appl. Probab., 16(2):583-614, 2006.
-
(2006)
Ann. Appl. Probab
, vol.16
, Issue.2
, pp. 583-614
-
-
Mossel, E.1
Roch, S.2
-
34
-
-
25844516325
-
Phylogenetic MCMC Algorithms Are Misleading on Mixtures of Trees
-
E. Mossel and E. Vigoda. Phylogenetic MCMC Algorithms Are Misleading on Mixtures of Trees. Science, 309(5744):2207-2209, 2005.
-
(2005)
Science
, vol.309
, Issue.5744
, pp. 2207-2209
-
-
Mossel, E.1
Vigoda, E.2
-
35
-
-
33144459988
-
A short proof that phylogenetic tree reconstruction by maximum likelihood is hard
-
92-94
-
S. Roch. A short proof that phylogenetic tree reconstruction by maximum likelihood is hard. IEEE/ACM Trans. Comput. Biology Bioinform., 3(1):92-94, 2006.
-
(2006)
IEEE/ACM Trans. Comput. Biology Bioinform
, vol.3
, Issue.1
-
-
Roch, S.1
-
36
-
-
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. Mol. Biol. Evol., 4(4):406-425, 1987.
-
(1987)
Mol. Biol. Evol
, vol.4
, Issue.4
, pp. 406-425
-
-
Saitou, N.1
Nei, M.2
-
37
-
-
0000491446
-
Additive similarity trees
-
S. Sattath and A. Tversky. Additive similarity trees. Psychometrika, 42:319-345,1977.
-
(1977)
Psychometrika
, vol.42
, pp. 319-345
-
-
Sattath, S.1
Tversky, A.2
-
39
-
-
43949153645
-
Recovering a tree from the leaf colourations it generates under a Markov model
-
M. Steel. Recovering a tree from the leaf colourations it generates under a Markov model. Appl. Math. Lett., 7(2): 19-23, 1994.
-
(1994)
Appl. Math. Lett
, vol.7
, Issue.2
, pp. 19-23
-
-
Steel, M.1
-
40
-
-
0345832906
-
My Favourite Conjecture
-
Preprint
-
M. Steel. My Favourite Conjecture. Preprint, 2001.
-
(2001)
-
-
Steel, M.1
-
41
-
-
0011469880
-
Inverting random functions
-
Combinatorics and biology Los Alamos, NM
-
M. A. Steel and L. A. Székely. Inverting random functions. Ann. Comb, 3(1): 103-113, 1999. Combinatorics and biology (Los Alamos, NM, 1998).
-
(1998)
Ann. Comb
, vol.3
, Issue.1
, pp. 103-113
-
-
Steel, M.A.1
Székely, L.A.2
-
42
-
-
0036662360
-
-
M. A. Steel and L. A. Székely. Inverting random functions. II. Explicit bounds for discrete maximum likelihood estimation, with applications. SIAM J. Discrete Math., 15(4):562-575 (electronic), 2002.
-
M. A. Steel and L. A. Székely. Inverting random functions. II. Explicit bounds for discrete maximum likelihood estimation, with applications. SIAM J. Discrete Math., 15(4):562-575 (electronic), 2002.
-
-
-
|