-
1
-
-
72849144434
-
Sequencing technologies - the next generation
-
10.1038/nrg2626, 19997069
-
Metzker M. Sequencing technologies - the next generation. Nature Reviews Genetics 2010, 11:31-46. 10.1038/nrg2626, 19997069.
-
(2010)
Nature Reviews Genetics
, vol.11
, pp. 31-46
-
-
Metzker, M.1
-
2
-
-
0023822631
-
Relationship between gene trees and species trees
-
Pamilo P, Nei M. Relationship between gene trees and species trees. Mol. Biol. Evol 1988, 5:568-583.
-
(1988)
Mol. Biol. Evol
, vol.5
, pp. 568-583
-
-
Pamilo, P.1
Nei, M.2
-
3
-
-
0031504952
-
Gene trees in species trees
-
Maddison W. Gene trees in species trees. Syst. Biol 1997, 46:523-536.
-
(1997)
Syst. Biol
, vol.46
, pp. 523-536
-
-
Maddison, W.1
-
4
-
-
0000365320
-
Fitting the gene lineage into its species lineage: A parsimony strategy illustrated by cladograms constructed from globin sequences
-
Goodman M, Czelusniak J, Moore G, Romero-Herrera A, Matsuda G. Fitting the gene lineage into its species lineage: A parsimony strategy illustrated by cladograms constructed from globin sequences. Syst. Zool 1979, 28:132-168.
-
(1979)
Syst. Zool
, vol.28
, pp. 132-168
-
-
Goodman, M.1
Czelusniak, J.2
Moore, G.3
Romero-Herrera, A.4
Matsuda, G.5
-
5
-
-
12044253257
-
Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas
-
Page R. Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas. Syst. Biol 1994, 43:58-77.
-
(1994)
Syst. Biol
, vol.43
, pp. 58-77
-
-
Page, R.1
-
6
-
-
0034938644
-
From gene trees to species trees
-
Ma B, Li M, Zhang L. From gene trees to species trees. SIAM J. Comput 2010, 30:729-752.
-
(2010)
SIAM J. Comput
, vol.30
, pp. 729-752
-
-
Ma, B.1
Li, M.2
Zhang, L.3
-
7
-
-
80052886059
-
From gene trees to species trees II: species tree inference by minimizing deep coalescence event
-
accepted
-
Zhang L. From gene trees to species trees II: species tree inference by minimizing deep coalescence event. IEEE/ACM Transactions on Computational Biology and Bioinformatics 2011, accepted.
-
(2011)
IEEE/ACM Transactions on Computational Biology and Bioinformatics
-
-
Zhang, L.1
-
8
-
-
27844468683
-
Reconciling a gene tree to a species tree under the duplication cost model
-
Bonizzoni P, Della Vedova G, Dondi R. Reconciling a gene tree to a species tree under the duplication cost model. Theoretical Computer Science 2005, 347:36-53.
-
(2005)
Theoretical Computer Science
, vol.347
, pp. 36-53
-
-
Bonizzoni, P.1
Della Vedova, G.2
Dondi, R.3
-
10
-
-
70349414048
-
The gene evolution model and computing its associated probabilities
-
Arvestad L, Lagergren J, Sennblad B. The gene evolution model and computing its associated probabilities. J. ACM 2009, 56(2):1-44.
-
(2009)
J. ACM
, vol.56
, Issue.2
, pp. 1-44
-
-
Arvestad, L.1
Lagergren, J.2
Sennblad, B.3
-
11
-
-
0033692378
-
Notung: A program for dating gene duplications and optimizing gene family trees
-
10.1089/106652700750050871, 11108472
-
Chen K, Durand D, Farach-Colton M. Notung: A program for dating gene duplications and optimizing gene family trees. Journal of Computational Biology 2000, 7:429-447. 10.1089/106652700750050871, 11108472.
-
(2000)
Journal of Computational Biology
, vol.7
, pp. 429-447
-
-
Chen, K.1
Durand, D.2
Farach-Colton, M.3
-
12
-
-
0031949306
-
Duplication-based measures of difference between gene and species trees
-
10.1089/cmb.1998.5.135, 9541877
-
Eulenstein O, Mirkin B, Vingron M. Duplication-based measures of difference between gene and species trees. Journal of Computational Biology 1998, 5:135-148. 10.1089/cmb.1998.5.135, 9541877.
-
(1998)
Journal of Computational Biology
, vol.5
, pp. 135-148
-
-
Eulenstein, O.1
Mirkin, B.2
Vingron, M.3
-
13
-
-
46249107577
-
The multiple gene duplication problem revisited
-
Bansal M, Eulenstein O. The multiple gene duplication problem revisited. Bioinformatics 2008, 23:132-138.
-
(2008)
Bioinformatics
, vol.23
, pp. 132-138
-
-
Bansal, M.1
Eulenstein, O.2
-
14
-
-
68049099068
-
Coalescent methods for estimating phylogenetic trees
-
10.1016/j.ympev.2009.05.033, 19501178
-
Liu L, Yu L, Kubatko L, Pearl D, Edwards S. Coalescent methods for estimating phylogenetic trees. Mol. Phylogenet. Evol 2009, 53:320-328. 10.1016/j.ympev.2009.05.033, 19501178.
-
(2009)
Mol. Phylogenet. Evol
, vol.53
, pp. 320-328
-
-
Liu, L.1
Yu, L.2
Kubatko, L.3
Pearl, D.4
Edwards, S.5
-
15
-
-
67650324396
-
New perspectives on gene family evolution: Losses in reconciliation and a link with supertrees
-
Springer Berlin / Heidelberg, Batzoglou S
-
Chauve C, El-Mabrouk N. New perspectives on gene family evolution: Losses in reconciliation and a link with supertrees. Research in Computational Molecular Biology, LNCS 5541 2009, 46-58. Springer Berlin / Heidelberg, Batzoglou S.
-
(2009)
Research in Computational Molecular Biology, LNCS 5541
, pp. 46-58
-
-
Chauve, C.1
El-Mabrouk, N.2
-
16
-
-
65649131928
-
Gene tree discordance, phylogenetic inference, and the multispecies coalescent
-
10.1016/j.tree.2009.01.009, 19307040
-
Degnan J, Rosenberg N. Gene tree discordance, phylogenetic inference, and the multispecies coalescent. Trends in Ecology and Evolution 2009, 24:332-340. 10.1016/j.tree.2009.01.009, 19307040.
-
(2009)
Trends in Ecology and Evolution
, vol.24
, pp. 332-340
-
-
Degnan, J.1
Rosenberg, N.2
-
17
-
-
78651298101
-
Consistency properties of species tree inference by minimizing deep coalescences
-
10.1089/cmb.2010.0102, 21210728
-
Than C, Rosenberg N. Consistency properties of species tree inference by minimizing deep coalescences. Journal of Computational Biology 2011, 18:1-15. 10.1089/cmb.2010.0102, 21210728.
-
(2011)
Journal of Computational Biology
, vol.18
, pp. 1-15
-
-
Than, C.1
Rosenberg, N.2
-
18
-
-
70349658769
-
Species tree inference by minimizing deep coalescences
-
10.1371/journal.pcbi.1000501, 2729383, 19749978
-
Than C, Nakhleh L. Species tree inference by minimizing deep coalescences. PLoS Computational Biology 2009, 5(9):e1000501. 10.1371/journal.pcbi.1000501, 2729383, 19749978.
-
(2009)
PLoS Computational Biology
, vol.5
, Issue.9
-
-
Than, C.1
Nakhleh, L.2
-
19
-
-
0034530345
-
Origins of the coalescent. 1974-1982
-
1461350, 11102348
-
Kingman J. Origins of the coalescent. 1974-1982. Genetics 2000, 156:1461-1463. 1461350, 11102348.
-
(2000)
Genetics
, vol.156
, pp. 1461-1463
-
-
Kingman, J.1
-
20
-
-
70349820532
-
Space of gene/species trees reconciliations and parsimonious models
-
10.1089/cmb.2009.0095, 19754270
-
Doyon J, Chauve C, Hamel S. Space of gene/species trees reconciliations and parsimonious models. Journal of Computational Biology 2009, 16:1399-1418. 10.1089/cmb.2009.0095, 19754270.
-
(2009)
Journal of Computational Biology
, vol.16
, pp. 1399-1418
-
-
Doyon, J.1
Chauve, C.2
Hamel, S.3
-
21
-
-
84888282532
-
An efficient method for exploring the space of gene tree/species tree reconciliations in a probabilistic framework
-
Doyon J, Hamel S, Chauve C. An efficient method for exploring the space of gene tree/species tree reconciliations in a probabilistic framework. preprint 2010,
-
(2010)
preprint
-
-
Doyon, J.1
Hamel, S.2
Chauve, C.3
-
22
-
-
2442562450
-
Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution
-
Arvestad L, Berglund A, Lagergren J, Sennblad B. Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution. Proceedings of the eighth annual international conference on Research in computational molecular biology, RECOMB '04 2004, 326-335.
-
(2004)
Proceedings of the eighth annual international conference on Research in computational molecular biology, RECOMB '04
, pp. 326-335
-
-
Arvestad, L.1
Berglund, A.2
Lagergren, J.3
Sennblad, B.4
|