NDLI: New Approaches to Compare Phylogenetic Search Heuristics

Content Provider	IEEE Xplore Digital Library
Author	Seung-Jin Sul Matthews, S. Williams, T.L.
Copyright Year	2008
Description	Author affiliation: Dept. of Comput. Sci., Texas A&M Univ., College Station, TX (Seung-Jin Sul; Matthews, S.; Williams, T.L.)
Abstract	We present new and novel insights into the behavior of two maximum parsimony heuristics for building evolutionary trees of different sizes. First, our results show that the heuristics find different classes of good-scoring trees, where the different classes of trees may have significant evolutionary implications. Secondly, we develop a new entropy-based measure to quantify the diversity among the evolutionary trees found by the heuristics. Overall, topological distance measures such as the Robinson-Foulds distance identify more diversity among a collection of trees than parsimony scores, which implies more powerful heuristics could be designed that use a combination of parsimony scores and topological distances. Thus, by understanding phylogenetic heuristic behavior, better heuristics could be designed, which ultimately leads to more accurate evolutionary trees.
Starting Page	239
Ending Page	245
File Size	168283
Page Count	7
File Format	PDF
ISBN	9780769534527
DOI	10.1109/BIBM.2008.81
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2008-11-03
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	phylogenetic trees phylogenetic heuristics Organisms Phylogeny Biomedical measurements Topology History Convergence Computer science maximum parsimony Inference algorithms Performance analysis Bioinformatics performance analysis
Content Type	Text
Resource Type	Article

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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