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Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005: Improved Consensus Network Techniques for Genome-Scale Phylogeny
Citation
Holland, BR and Jermiin, LS and Moulton, V, Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005: Improved Consensus Network Techniques for Genome-Scale Phylogeny, Molecular Biology and Evolution, 23, (5) pp. 848-855. ISSN 0737-4038 (2006) [Refereed Article]
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The definitive publisher-authenticated version is available online at: www.oxfordjournals.org
DOI: doi:10.1093/molbev/msj061
Abstract
Although recent studies indicate that estimating phylogenies from alignments of concatenated genes greatly reduces
the stochastic error, the potential for systematic error still remains, heightening the need for reliable methods to analyze
multigene data sets. Consensus methods provide an alternative, more inclusive, approach for analyzing collections of trees
arising from multiple genes. We extend a previously described consensus network method for genome-scale phylogeny
(Holland, B. R., K. T. Huber, V. Moulton, and P. J. Lockhart. 2004. Using consensus networks to visualize contradictory
evidence for species phylogeny. Mol. Biol. Evol. 21:14591461.) to incorporate additional information. This additional
information could come from bootstrap analysis, Bayesian analysis, or various methods to find confidence sets of trees. The
new methods can be extended to include edge weights representing genetic distance. We use three data sets to illustrate the
approach: 61 genes from 14 angiosperm taxa and one gymnosperm, 106 genes from eight yeast taxa, and 46 members of
a gene family from 15 vertebrate taxa.
Item Details
Item Type: | Refereed Article |
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Keywords: | consensus networks genome-scale phylogeny gene trees |
Research Division: | Mathematical Sciences |
Research Group: | Applied mathematics |
Research Field: | Biological mathematics |
Objective Division: | Expanding Knowledge |
Objective Group: | Expanding knowledge |
Objective Field: | Expanding knowledge in the biological sciences |
UTAS Author: | Holland, BR (Professor Barbara Holland) |
ID Code: | 63273 |
Year Published: | 2006 |
Web of Science® Times Cited: | 30 |
Deposited By: | Mathematics |
Deposited On: | 2010-04-27 |
Last Modified: | 2010-04-30 |
Downloads: | 0 |
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