287 related articles for article (PubMed ID: 22759416)
1. Efficient error correction algorithms for gene tree reconciliation based on duplication, duplication and loss, and deep coalescence.
Chaudhary R; Burleigh JG; Eulenstein O
BMC Bioinformatics; 2012 Jun; 13 Suppl 10(Suppl 10):S11. PubMed ID: 22759416
[TBL] [Abstract][Full Text] [Related]
2. Algorithms for genome-scale phylogenetics using gene tree parsimony.
Bansal MS; Eulenstein O
IEEE/ACM Trans Comput Biol Bioinform; 2013; 10(4):939-56. PubMed ID: 24334388
[TBL] [Abstract][Full Text] [Related]
3. Efficient genome-scale phylogenetic analysis under the duplication-loss and deep coalescence cost models.
Bansal MS; Burleigh JG; Eulenstein O
BMC Bioinformatics; 2010 Jan; 11 Suppl 1(Suppl 1):S42. PubMed ID: 20122216
[TBL] [Abstract][Full Text] [Related]
4. Algorithms: simultaneous error-correction and rooting for gene tree reconciliation and the gene duplication problem.
Górecki P; Eulenstein O
BMC Bioinformatics; 2012 Jun; 13 Suppl 10(Suppl 10):S14. PubMed ID: 22759419
[TBL] [Abstract][Full Text] [Related]
5. iGTP: a software package for large-scale gene tree parsimony analysis.
Chaudhary R; Bansal MS; Wehe A; Fernández-Baca D; Eulenstein O
BMC Bioinformatics; 2010 Nov; 11():574. PubMed ID: 21092314
[TBL] [Abstract][Full Text] [Related]
6. Maximum likelihood models and algorithms for gene tree evolution with duplications and losses.
Górecki P; Burleigh GJ; Eulenstein O
BMC Bioinformatics; 2011 Feb; 12 Suppl 1(Suppl 1):S15. PubMed ID: 21342544
[TBL] [Abstract][Full Text] [Related]
7. From gene trees to species trees II: species tree inference by minimizing deep coalescence events.
Zhang L
IEEE/ACM Trans Comput Biol Bioinform; 2011; 8(6):1685-91. PubMed ID: 21576759
[TBL] [Abstract][Full Text] [Related]
8. Consensus properties for the deep coalescence problem and their application for scalable tree search.
Lin HT; Burleigh JG; Eulenstein O
BMC Bioinformatics; 2012 Jun; 13 Suppl 10(Suppl 10):S12. PubMed ID: 22759417
[TBL] [Abstract][Full Text] [Related]
9. The Unconstrained Diameters of the Duplication-Loss Cost and the Loss Cost.
Gorecki P; Eulenstein O; Tiuryn J
IEEE/ACM Trans Comput Biol Bioinform; 2021; 18(6):2125-2135. PubMed ID: 31150345
[TBL] [Abstract][Full Text] [Related]
10. Reconciliation feasibility in the presence of gene duplication, loss, and coalescence with multiple individuals per species.
Rogers J; Fishberg A; Youngs N; Wu YC
BMC Bioinformatics; 2017 Jun; 18(1):292. PubMed ID: 28583091
[TBL] [Abstract][Full Text] [Related]
11. Inferring duplication episodes from unrooted gene trees.
Paszek J; Górecki P
BMC Genomics; 2018 May; 19(Suppl 5):288. PubMed ID: 29745844
[TBL] [Abstract][Full Text] [Related]
12. Exact Algorithms for Duplication-Transfer-Loss Reconciliation with Non-Binary Gene Trees.
Kordi M; Bansal MS
IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(4):1077-1090. PubMed ID: 28622673
[TBL] [Abstract][Full Text] [Related]
13. Unified modeling of gene duplication, loss, and coalescence using a locus tree.
Rasmussen MD; Kellis M
Genome Res; 2012 Apr; 22(4):755-65. PubMed ID: 22271778
[TBL] [Abstract][Full Text] [Related]
14. Structural properties of the reconciliation space and their applications in enumerating nearly-optimal reconciliations between a gene tree and a species tree.
Wu T; Zhang L
BMC Bioinformatics; 2011 Oct; 12 Suppl 9(Suppl 9):S7. PubMed ID: 22151151
[TBL] [Abstract][Full Text] [Related]
15. Reconciliation with non-binary species trees.
Vernot B; Stolzer M; Goldman A; Durand D
J Comput Biol; 2008 Oct; 15(8):981-1006. PubMed ID: 18808330
[TBL] [Abstract][Full Text] [Related]
16. Neighborhoods of trees in circular orderings.
Bastkowski S; Moulton V; Spillner A; Wu T
Bull Math Biol; 2015 Jan; 77(1):46-70. PubMed ID: 25477080
[TBL] [Abstract][Full Text] [Related]
17. Most parsimonious reconciliation in the presence of gene duplication, loss, and deep coalescence using labeled coalescent trees.
Wu YC; Rasmussen MD; Bansal MS; Kellis M
Genome Res; 2014 Mar; 24(3):475-86. PubMed ID: 24310000
[TBL] [Abstract][Full Text] [Related]
18. ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony.
Jacox E; Chauve C; Szöllősi GJ; Ponty Y; Scornavacca C
Bioinformatics; 2016 Jul; 32(13):2056-8. PubMed ID: 27153713
[TBL] [Abstract][Full Text] [Related]
19. On the impact of uncertain gene tree rooting on duplication-transfer-loss reconciliation.
Kundu S; Bansal MS
BMC Bioinformatics; 2018 Aug; 19(Suppl 9):290. PubMed ID: 30367593
[TBL] [Abstract][Full Text] [Related]
20. Species Tree Estimation from Genome-Wide Data with guenomu.
de Oliveira Martins L; Posada D
Methods Mol Biol; 2017; 1525():461-478. PubMed ID: 27896732
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]