-
1
-
-
0001567207
-
Inferring a tree from lowest common ancestors with an application to the optimization of relational expressions
-
A.V. Aho, Y. Sagiv, T.G. Szymanski, and J.D. Ullman, "Inferring a Tree from Lowest Common Ancestors with an Application to the Optimization of Relational Expressions," SIAM J. Computing, vol. 10, no. 3, pp. 405-421, 1981.
-
(1981)
SIAM J. Computing
, vol.10
, Issue.3
, pp. 405-421
-
-
Aho, A.V.1
Sagiv, Y.2
Szymanski, T.G.3
Ullman, J.D.4
-
2
-
-
4544250512
-
Expander flows, geometric embeddings and graph partitioning
-
S. Arora, S. Rao, and U. Vazirani, "Expander Flows, Geometric Embeddings and Graph Partitioning," Proc. Symp. Foundations of Computer Science (FOCS), pp. 222-231, 2004.
-
(2004)
Proc. Symp. Foundations of Computer Science (FOCS)
, pp. 222-231
-
-
Arora, S.1
Rao, S.2
Vazirani, U.3
-
3
-
-
0002844544
-
Combining trees as a way of combining data sets for phylogenetic inference
-
B.R. Baum, "Combining Trees as a Way of Combining Data Sets for Phylogenetic Inference," Taxon, vol. 41, pp. 3-10, 1992.
-
(1992)
Taxon
, vol.41
, pp. 3-10
-
-
Baum, B.R.1
-
4
-
-
0031721805
-
Constructing phylogenies from quartets: Elucidation of eutherian superordinal relationships
-
1998, earlier version appeared in Proc. RECOMB
-
A. Ben-Dor, B. Chor, D. Graur, R. Ophir, and D. Pelleg, "Constructing Phylogenies from Quartets: Elucidation of Eutherian Superordinal Relationships," J. Computational Biology, vol. 5, no. 3, pp. 377-390, 1998, earlier version appeared in Proc. RECOMB, 1998.
-
(1998)
J. Computational Biology
, vol.5
, Issue.3
, pp. 377-390
-
-
Ben-Dor, A.1
Chor, B.2
Graur, D.3
Ophir, R.4
Pelleg, D.5
-
5
-
-
0001117764
-
Inferring evolutionary trees with strong combinatorial evidence
-
V. Berry and O. Gascuel, "Inferring Evolutionary Trees with Strong Combinatorial Evidence," Theoretical Computer Science, vol. 240, pp. 271-298, 2001.
-
(2001)
Theoretical Computer Science
, vol.240
, pp. 271-298
-
-
Berry, V.1
Gascuel, O.2
-
6
-
-
4544357678
-
A species-level phylogenetic supertree of marsupials
-
M. Cardillo, O.R.P. Bininda Emonds, E. Boakes, and A. Purvis, "A Species-Level Phylogenetic Supertree of Marsupials," J. Zoology, vol. 264, no. 1, pp. 11-31, 2004.
-
(2004)
J. Zoology
, vol.264
, Issue.1
, pp. 11-31
-
-
Cardillo, M.1
Bininda Emonds, O.R.P.2
Boakes, E.3
Purvis, A.4
-
7
-
-
33845880639
-
Performance of a new invariants method on homogeneous and nonhomogeneous quartet trees
-
M. Casanellas and J. Fernández-Sánchez, "Performance of a New Invariants Method on Homogeneous and Nonhomogeneous Quartet Trees," Molecular Biology and Evolution, vol. 24, no. 1, pp. 288-293, 2007.
-
(2007)
Molecular Biology and Evolution
, vol.24
, Issue.1
, pp. 288-293
-
-
Casanellas, M.1
Fernández-Sánchez, J.2
-
8
-
-
84926074258
-
Catalog of small trees
-
L. Pachter and B. Sturmfels, eds., chapter 15 Cambridge Univ. Press
-
M. Casanellas, L.D. Garcia, and S. Sullivant, "Catalog of Small Trees," Algebraic Statistics for Computational Biology, L. Pachter and B. Sturmfels, eds., chapter 15, pp. 291-305, Cambridge Univ. Press, 2005.
-
(2005)
Algebraic Statistics for Computational Biology
, pp. 291-305
-
-
Casanellas, M.1
Garcia, L.D.2
Sullivant, S.3
-
9
-
-
0033795444
-
Multiple maxima of likelihood in phylogenetic trees: An analytic approach
-
earlier version appeared in Proc. RECOMB, 2000
-
B. Chor, M. Hendy, B. Holland, and D. Penny, "Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach," Molecular Biology and Evolution, vol. 17, no. 10, pp. 1529-1541, 2000, earlier version appeared in Proc. RECOMB, 2000.
-
(2000)
Molecular Biology and Evolution
, vol.17
, Issue.10
, pp. 1529-1541
-
-
Chor, B.1
Hendy, M.2
Holland, B.3
Penny, D.4
-
10
-
-
33744462065
-
Maximum likelihood molecular clock comb: Analytic solutions
-
DOI 10.1089/cmb.2006.13.819
-
B. Chor, A. Khetan, and S. Snir, "Maximum Likelihood Molecular Clock Comb: Analytic Solutions," J. Computational Biology, vol. 13, pp. 819-837, 2006, Earlier Version Appeared in Proc. Seventh Ann. Int'l Conf. Research in Computational Molecular Biology (RECOMB '03). (Pubitemid 43801008)
-
(2006)
Journal of Computational Biology
, vol.13
, Issue.3
, pp. 819-837
-
-
Chor, B.1
Khetan, A.2
Snir, S.3
-
11
-
-
12444268422
-
Molecular clock fork phylogenies: Closed form analytic maximum likelihood solutions
-
Dec.
-
B. Chor and S. Snir, "Molecular Clock Fork Phylogenies: Closed Form Analytic Maximum Likelihood Solutions," Systematic Biology, vol. 53, pp. 963-967, Dec. 2004.
-
(2004)
Systematic Biology
, vol.53
, pp. 963-967
-
-
Chor, B.1
Snir, S.2
-
12
-
-
13844250623
-
Clann: Investigating phylogenetic information through supertree analyses
-
C.J. Creevey and J.O. McInerney, "Clann: Investigating Phylogenetic Information through Supertree Analyses," Bioinformatics, vol. 21, no. 3, pp. 390-392, 2005.
-
(2005)
Bioinformatics
, vol.21
, Issue.3
, pp. 390-392
-
-
Creevey, C.J.1
McInerney, J.O.2
-
13
-
-
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," Proc. 10th Ann. Int'l Conf. Research in Computational Molecular Biology (RECOMB '06), 2006.
-
(2006)
Proc. 10th Ann. Int'l Conf. Research in Computational Molecular Biology (RECOMB '06)
-
-
Daskalakis, C.1
Hill, C.2
Jaffe, A.3
Mihaescu, R.4
Mossel, E.5
Rao, S.6
-
14
-
-
0033480324
-
A few logs suffice to build (Almost) all trees (i)
-
P. Erdös, M. Steel, L. Szekely, and T. Warnow, "A Few Logs Suffice to Build (Almost) all Trees (i)," Random Structures and Algorithms, vol. 14, pp. 153-184, 1999.
-
(1999)
Random Structures and Algorithms
, vol.14
, pp. 153-184
-
-
Erdös, P.1
Steel, M.2
Szekely, L.3
Warnow, T.4
-
15
-
-
0001860411
-
A few logs suffice to build (Almost) all trees (ii)
-
P. Erdös, M. Steel, L. Szekely, and T. Warnow, "A Few Logs Suffice to Build (Almost) all Trees (ii)," Theoretical Computer Science, vol. 221, pp. 77-118, 1999.
-
(1999)
Theoretical Computer Science
, vol.221
, pp. 77-118
-
-
Erdös, P.1
Steel, M.2
Szekely, L.3
Warnow, T.4
-
16
-
-
2442598026
-
Performance of flip supertrees with a heuristic algorithm
-
O. Eulenstein, D. Chen, J.G. Burleigh, D. Fernández-Baca, and M.J. Sanderson, "Performance of Flip Supertrees with a Heuristic Algorithm," Systematic Biology, vol. 53, no. 2, pp. 299-308, 2004.
-
(2004)
Systematic Biology
, vol.53
, Issue.2
, pp. 299-308
-
-
Eulenstein, O.1
Chen, D.2
Burleigh, J.G.3
Fernández-Baca, D.4
Sanderson, M.J.5
-
18
-
-
84893574327
-
Improved approximation algorithms for maximum cut and satisfiability problems using semidefinite programming
-
Nov.
-
M.X. Goemans and D.P. Williamson, "Improved Approximation Algorithms for Maximum Cut and Satisfiability Problems Using Semidefinite Programming," J. Assoc. for Computing Machinery, vol. 42, no. 6, pp. 1115-1145, Nov. 1995.
-
(1995)
J. Assoc. for Computing Machinery
, vol.42
, Issue.6
, pp. 1115-1145
-
-
Goemans, M.X.1
Williamson, D.P.2
-
19
-
-
58449096222
-
Fast and reliable reconstruction of phylogenetic trees with very short branches
-
I. Gronau, S. Moran, and S. Snir, "Fast and Reliable Reconstruction of Phylogenetic Trees with Very Short Branches," Proc. ACM-SIAM Symp. Discrete Algorithms (SODA), pp. 379-388, 2008.
-
(2008)
Proc. ACM-SIAM Symp. Discrete Algorithms (SODA)
, pp. 379-388
-
-
Gronau, I.1
Moran, S.2
Snir, S.3
-
20
-
-
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. Computational Biology, vol. 6, pp. 369-386, 1999.
-
(1999)
J. Computational Biology
, vol.6
, pp. 369-386
-
-
Huson, D.1
Nettles, S.2
Warnow, T.3
-
21
-
-
33847726622
-
Distorted metrics on trees and phylogenetic forests
-
Jan.-Mar.
-
E. Mossel, "Distorted Metrics on Trees and Phylogenetic Forests," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 4, no. 1, pp. 108-116, Jan.-Mar. 2007.
-
(2007)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.4
, Issue.1
, pp. 108-116
-
-
Mossel, E.1
-
22
-
-
0000710057
-
Molecular phylogeny of the 'temperate herbaceous tribes' of papilionoid legumes: A supertree approach
-
P. Herendeen and A. Bruneau, eds. Royal Botanic Gardens
-
M. Wojciechowski, M. Sanderson, K. Steele, and A. Liston, "Molecular Phylogeny of the 'Temperate Herbaceous Tribes' of Papilionoid Legumes: A Supertree Approach," Advances in Legume Systematics, Part 9, P. Herendeen and A. Bruneau, eds., vol. 9, pp. 277-298, Royal Botanic Gardens, 2000.
-
(2000)
Advances in Legume Systematics, Part 9
, vol.9
, pp. 277-298
-
-
Wojciechowski, M.1
Sanderson, M.2
Steele, K.3
Liston, A.4
-
23
-
-
23144461098
-
A complete phylogeny of the whales, dolphins and even-toed hoofed mammals (Cetartiodactyla)
-
S. Price, O. Bininda Emonds, and J. Gittleman, "A Complete Phylogeny of the Whales, Dolphins and Even-Toed Hoofed Mammals (Cetartiodactyla)," Biological Rev., vol. 80, no. 3, pp. 445-473, 2005.
-
(2005)
Biological Rev.
, vol.80
, Issue.3
, pp. 445-473
-
-
Price, S.1
Bininda Emonds, O.2
Gittleman, J.3
-
24
-
-
0027104018
-
Matrix representation in reconstructing phylogenetic-relationships among the eukaryotes
-
M.A. Ragan, "Matrix Representation in Reconstructing Phylogenetic-Relationships among the Eukaryotes," Biosystems, vol. 28, pp. 47-55, 1992.
-
(1992)
Biosystems
, vol.28
, pp. 47-55
-
-
Ragan, M.A.1
-
25
-
-
0032225752
-
Taxon sampling and the accuracy of large phylogenies
-
B. Rannala, J.P. Huelsenbeck, Z. Yang, and R. Nielsen, "Taxon Sampling and the Accuracy of Large Phylogenies," Systematic Biology, vol. 47, pp. 702-710, 1998.
-
(1998)
Systematic Biology
, vol.47
, pp. 702-710
-
-
Rannala, B.1
Huelsenbeck, J.P.2
Yang, Z.3
Nielsen, R.4
-
26
-
-
0034983479
-
Quartet-based phylogenetic inference: Improvements and limits
-
V. Ranwez and O. Gascuel, "Quartet-Based Phylogenetic Inference: Improvements and Limits," Molecular Biology and Evolution, vol. 18, pp. 1103-1116, 2001.
-
(2001)
Molecular Biology and Evolution
, vol.18
, pp. 1103-1116
-
-
Ranwez, V.1
Gascuel, O.2
-
27
-
-
0031224822
-
Analyzing large datasets: RbcL 500 revisited
-
K. Rice, M. Donoghue, and R. Olmstead, "Analyzing Large Datasets: rbcL 500 Revisited," Systematic Biology, vol. 46, no. 3, pp. 554-563, 1997.
-
(1997)
Systematic Biology
, vol.46
, Issue.3
, pp. 554-563
-
-
Rice, K.1
Donoghue, M.2
Olmstead, R.3
-
28
-
-
14044251530
-
Rec-i-dcm3: A fast algorithmic technique for reconstructing large phylogenetic tree
-
U. Roshan, B.M.E. Moret, T.L. Williams, and T. Warnow, "Rec-i-dcm3: A Fast Algorithmic Technique for Reconstructing Large Phylogenetic Tree," Proc. IEEE Computational Systems Bioinformatics Conf. (CSB), 2004.
-
(2004)
Proc. IEEE Computational Systems Bioinformatics Conf. (CSB)
-
-
Roshan, U.1
Moret, B.M.E.2
Williams, T.L.3
Warnow, T.4
-
29
-
-
33845652502
-
Using max cut to enhance rooted trees consistency
-
Oct.-Dec. preliminary version appeared in Proc. WABI, 2005
-
S. Snir and S. Rao, "Using Max Cut to Enhance Rooted Trees Consistency," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 3, no. 4, pp. 323-333, Oct.-Dec. 2006, preliminary version appeared in Proc. WABI, 2005.
-
(2006)
IEEE/ACM Trans. Computational Biology and Bioinformatics
, vol.3
, Issue.4
, pp. 323-333
-
-
Snir, S.1
Rao, S.2
-
30
-
-
39449105691
-
Short quartet puzzling: A new quartet-based phylogeny reconstruction algorithm
-
S. Snir, T. Warnow, and S. Rao, "Short Quartet Puzzling: A New Quartet-Based Phylogeny Reconstruction Algorithm," J. Computational Biology, vol. 1, no. 15, pp. 91-103, 2008.
-
(2008)
J. Computational Biology
, vol.1
, Issue.15
, pp. 91-103
-
-
Snir, S.1
Warnow, T.2
Rao, S.3
-
31
-
-
52449147252
-
The complexity of reconstructing trees from qualitative characters and subtress
-
M. Steel, "The Complexity of Reconstructing Trees from Qualitative Characters and Subtress," J. Classification, vol. 9, no. 1, pp. 91-116, 1992.
-
(1992)
J. Classification
, vol.9
, Issue.1
, pp. 91-116
-
-
Steel, M.1
-
32
-
-
0000338432
-
Bayesian probabilities and quartet puzzling
-
K. Strimmer, N. Goldman, and A. von Haeseler, "Bayesian Probabilities and Quartet Puzzling," Molecular Biology and Evolution, vol. 14, pp. 210-211, 1997.
-
(1997)
Molecular Biology and Evolution
, vol.14
, pp. 210-211
-
-
Strimmer, K.1
Goldman, N.2
Von Haeseler, A.3
-
33
-
-
0029836454
-
Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
-
K. Strimmer and A. von Haeseler, "Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies," Molecular Biology and Evolution, vol. 13, no. 7, pp. 964-969, 1996, ftp://ftp.ebi.ac.uk/ pub/software/unix/puzzle/.
-
(1996)
Molecular Biology and Evolution
, vol.13
, Issue.7
, pp. 964-969
-
-
Strimmer, K.1
Von Haeseler, A.2
-
34
-
-
0032927880
-
Building phylogenetic trees from quartets by using local inconsistency measures
-
S. Willson, "Building Phylogenetic Trees from Quartets by Using Local Inconsistency Measures," Molecular Biology and Evolution, vol. 16, pp. 685-693, 1998.
-
(1998)
Molecular Biology and Evolution
, vol.16
, pp. 685-693
-
-
Willson, S.1
|