Document Detail


Polynomial supertree methods revisited.
MedLine Citation:
PMID:  22229028     Owner:  NLM     Status:  In-Data-Review    
Abstract/OtherAbstract:
Supertree methods allow to reconstruct large phylogenetic trees by combining smaller trees with overlapping leaf sets into one, more comprehensive supertree. The most commonly used supertree method, matrix representation with parsimony (MRP), produces accurate supertrees but is rather slow due to the underlying hard optimization problem. In this paper, we present an extensive simulation study comparing the performance of MRP and the polynomial supertree methods MinCut Supertree, Modified MinCut Supertree, Build-with-distances, PhySIC, PhySIC_IST, and super distance matrix. We consider both quality and resolution of the reconstructed supertrees. Our findings illustrate the tradeoff between accuracy and running time in supertree construction, as well as the pros and cons of voting- and veto-based supertree approaches. Based on our results, we make some general suggestions for supertree methods yet to come.
Authors:
Malte Brinkmeyer; Thasso Griebel; Sebastian Böcker
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Publication Detail:
Type:  Journal Article     Date:  2011-12-21
Journal Detail:
Title:  Advances in bioinformatics     Volume:  2011     ISSN:  1687-8035     ISO Abbreviation:  Adv Bioinformatics     Publication Date:  2011  
Date Detail:
Created Date:  2012-01-09     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101515444     Medline TA:  Adv Bioinformatics     Country:  Egypt    
Other Details:
Languages:  eng     Pagination:  524182     Citation Subset:  -    
Affiliation:
Department of Computer Science, Friedrich Schiller University, 07743 Jena, Germany.
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