146 related articles for article (PubMed ID: 20849963)
1. Alignment of, and phylogenetic inference from, random sequences: the susceptibility of alternative alignment methods to creating artifactual resolution and support.
Simmons MP; Müller KF; Norton AP
Mol Phylogenet Evol; 2010 Dec; 57(3):1004-16. PubMed ID: 20849963
[TBL] [Abstract][Full Text] [Related]
2. Ancestral sequence alignment under optimal conditions.
Hudek AK; Brown DG
BMC Bioinformatics; 2005 Nov; 6():273. PubMed ID: 16293191
[TBL] [Abstract][Full Text] [Related]
3. SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.
Liu K; Warnow TJ; Holder MT; Nelesen SM; Yu J; Stamatakis AP; Linder CR
Syst Biol; 2012 Jan; 61(1):90-106. PubMed ID: 22139466
[TBL] [Abstract][Full Text] [Related]
4. Significant improvement in accuracy of multiple protein sequence alignments by iterative refinement as assessed by reference to structural alignments.
Gotoh O
J Mol Biol; 1996 Dec; 264(4):823-38. PubMed ID: 8980688
[TBL] [Abstract][Full Text] [Related]
5. Joint Bayesian estimation of alignment and phylogeny.
Redelings BD; Suchard MA
Syst Biol; 2005 Jun; 54(3):401-18. PubMed ID: 16012107
[TBL] [Abstract][Full Text] [Related]
6. The deterministic effects of alignment bias in phylogenetic inference.
Simmons MP; Müller KF; Webb CT
Cladistics; 2011 Aug; 27(4):402-416. PubMed ID: 34875794
[TBL] [Abstract][Full Text] [Related]
7. Simultaneous statistical multiple alignment and phylogeny reconstruction.
Fleissner R; Metzler D; von Haeseler A
Syst Biol; 2005 Aug; 54(4):548-61. PubMed ID: 16085574
[TBL] [Abstract][Full Text] [Related]
8. A Monte Carlo approach successfully identifies randomness in multiple sequence alignments: a more objective means of data exclusion.
Misof B; Misof K
Syst Biol; 2009 Feb; 58(1):21-34. PubMed ID: 20525566
[TBL] [Abstract][Full Text] [Related]
9. Alignment and topological accuracy of the direct optimization approach via POY and traditional phylogenetics via ClustalW + PAUP*.
Ogden TH; Rosenberg MS
Syst Biol; 2007 Apr; 56(2):182-93. PubMed ID: 17454974
[TBL] [Abstract][Full Text] [Related]
10. The impact of rRNA secondary structure consideration in alignment and tree reconstruction: simulated data and a case study on the phylogeny of hexapods.
Letsch HO; Kück P; Stocsits RR; Misof B
Mol Biol Evol; 2010 Nov; 27(11):2507-21. PubMed ID: 20530152
[TBL] [Abstract][Full Text] [Related]
11. Phylogenetic inference from conserved sites alignments.
Grundy WN; Naylor GJ
J Exp Zool; 1999 Aug; 285(2):128-39. PubMed ID: 10440724
[TBL] [Abstract][Full Text] [Related]
12. On the quality of tree-based protein classification.
Lazareva-Ulitsky B; Diemer K; Thomas PD
Bioinformatics; 2005 May; 21(9):1876-90. PubMed ID: 15647305
[TBL] [Abstract][Full Text] [Related]
13. Assessment of phylogenomic and orthology approaches for phylogenetic inference.
Dutilh BE; van Noort V; van der Heijden RT; Boekhout T; Snel B; Huynen MA
Bioinformatics; 2007 Apr; 23(7):815-24. PubMed ID: 17237036
[TBL] [Abstract][Full Text] [Related]
14. PhyPA: Phylogenetic method with pairwise sequence alignment outperforms likelihood methods in phylogenetics involving highly diverged sequences.
Xia X
Mol Phylogenet Evol; 2016 Sep; 102():331-43. PubMed ID: 27377322
[TBL] [Abstract][Full Text] [Related]
15. Alignment methods: strategies, challenges, benchmarking, and comparative overview.
Löytynoja A
Methods Mol Biol; 2012; 855():203-35. PubMed ID: 22407710
[TBL] [Abstract][Full Text] [Related]
16. Characterization of pairwise and multiple sequence alignment errors.
Landan G; Graur D
Gene; 2009 Jul; 441(1-2):141-7. PubMed ID: 18614299
[TBL] [Abstract][Full Text] [Related]
17. MISHIMA--a new method for high speed multiple alignment of nucleotide sequences of bacterial genome scale data.
Kryukov K; Saitou N
BMC Bioinformatics; 2010 Mar; 11():142. PubMed ID: 20298584
[TBL] [Abstract][Full Text] [Related]
18. Comparing programs and methods to use for global multiple sequence alignment.
Mount DW
Cold Spring Harb Protoc; 2009 Jul; 2009(7):pdb.ip61. PubMed ID: 20147201
[TBL] [Abstract][Full Text] [Related]
19. Exploring the relationship between sequence similarity and accurate phylogenetic trees.
Cantarel BL; Morrison HG; Pearson W
Mol Biol Evol; 2006 Nov; 23(11):2090-100. PubMed ID: 16891377
[TBL] [Abstract][Full Text] [Related]
20. Multiple sequence alignment accuracy and phylogenetic inference.
Ogden TH; Rosenberg MS
Syst Biol; 2006 Apr; 55(2):314-28. PubMed ID: 16611602
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]