Document Detail


TIBA: A Tool for Phylogeny Inference from Rearrangement Data with Bootstrap Analysis.
MedLine Citation:
PMID:  23060619     Owner:  NLM     Status:  Publisher    
Abstract/OtherAbstract:
SUMMARY: TIBA is a tool to reconstruct phylogenetic trees from rearragement data which consists of ordered lists of synteny blocks (or genes) where each synteny block is shared with all of its homologs in the input genomes. The evolution of these synteny blocks, through rearrangement operations, is modeled by the uniform Double-Cut-and-Join model. Using a true distance estimate under this model and simple distance based methods TIBA reconstructs a phylogeny of the input genomes. Unlike any previous tool for inferring phylogenies from rearrangement data, TIBA uses novel methods of robustness estimation to provide support values for the edges in the inferred tree. AVAILABILITY: http://lcbb.epfl.ch/softwares/tiba.html CONTACT: vaibhav.rajan@epfl.ch.
Authors:
Yu Lin; Vaibhav Rajan; Bernard Moret
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Publication Detail:
Type:  JOURNAL ARTICLE     Date:  2012-10-11
Journal Detail:
Title:  Bioinformatics (Oxford, England)     Volume:  -     ISSN:  1367-4811     ISO Abbreviation:  Bioinformatics     Publication Date:  2012 Oct 
Date Detail:
Created Date:  2012-10-12     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  9808944     Medline TA:  Bioinformatics     Country:  -    
Other Details:
Languages:  ENG     Pagination:  -     Citation Subset:  -    
Affiliation:
Laboratory for Computational Biology and Bioinformatics, EPFL, EPFL-IC-LCBB INJ 230, Station 14, CH-1015 Lausanne, Switzerland.
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