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Using the tangle: A consistent construction of phylogenetic distance matrices for quartets
Citation
Sumner, JG and Jarvis, PD, Using the tangle: A consistent construction of phylogenetic distance matrices for quartets, Mathematical Biosciences, 204, (1) pp. 49-67. ISSN 0025-5564 (2006) [Refereed Article]
DOI: doi:10.1016/j.mbs.2006.05.008
Abstract
Distance based algorithms are a common technique in the construction of phylogenetic trees from taxonomic sequence data. The first step in the implementation of these algorithms is the calculation of a pairwise distance matrix to give a measure of the evolutionary change between any pair of the extant taxa. A standard technique is to use the log det formula to construct pairwise distances from aligned sequence data. We review a distance measure valid for the most general models, and show how the log det formula can be used as an estimator thereof. We then show that the foundation upon which the log det formula is constructed can be generalized to produce a previously unknown estimator which improves the consistency of the distance matrices constructed from the log det formula. This distance estimator provides a consistent technique for constructing quartets from phylogenetic sequence data under the assumption of the most general Markov model of sequence evolution. © 2006 Elsevier Inc. All rights reserved.
Item Details
Item Type: | Refereed Article |
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Research Division: | Physical Sciences |
Research Group: | Other physical sciences |
Research Field: | Other physical sciences not elsewhere classified |
Objective Division: | Expanding Knowledge |
Objective Group: | Expanding knowledge |
Objective Field: | Expanding knowledge in the physical sciences |
UTAS Author: | Sumner, JG (Associate Professor Jeremy Sumner) |
UTAS Author: | Jarvis, PD (Dr Peter Jarvis) |
ID Code: | 41367 |
Year Published: | 2006 |
Funding Support: | Australian Research Council (DP0344996) |
Web of Science® Times Cited: | 11 |
Deposited By: | Physics |
Deposited On: | 2006-08-01 |
Last Modified: | 2007-03-21 |
Downloads: | 0 |
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