Literature DB >> 33425038

On the approximability of the fixed-tree balanced minimum evolution problem.

Martin Frohn1.   

Abstract

The Fixed-Tree BMEP (FT-BMEP) is a special case of the Balanced Minimum Evolution Problem (BMEP) that consists of finding the assignment of a set of n taxa to the n leaves of a given unrooted binary tree so as to minimize the BMEP objective function. Deciding the computational complexity of the FT-BMEP has been an open problem for almost a decade. Here, we show that a few modifications to Fiorini and Joret's proof of the NP -hardness of the BMEP suffice to prove the general NP -hardness of the FT-BMEP as well as its strong inapproximability.
© The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature 2021.

Entities:  

Keywords:  Computational complexity; Fixed-tree balanced minimum evolution problem; Phylogenetics

Year:  2021        PMID: 33425038      PMCID: PMC7778423          DOI: 10.1007/s11590-020-01677-x

Source DB:  PubMed          Journal:  Optim Lett        ISSN: 1862-4472            Impact factor:   1.769


  14 in total

1.  Direct calculation of a tree length using a distance matrix.

Authors:  Y Pauplin
Journal:  J Mol Evol       Date:  2000-07       Impact factor: 2.395

2.  Theoretical foundation of the balanced minimum evolution method of phylogenetic inference and its relationship to weighted least-squares tree fitting.

Authors:  Richard Desper; Olivier Gascuel
Journal:  Mol Biol Evol       Date:  2003-12-23       Impact factor: 16.240

3.  Facets of the balanced minimal evolution polytope.

Authors:  Stefan Forcey; Logan Keefe; William Sands
Journal:  J Math Biol       Date:  2015-12-29       Impact factor: 2.259

Review 4.  Neighbor-joining revealed.

Authors:  Olivier Gascuel; Mike Steel
Journal:  Mol Biol Evol       Date:  2006-07-28       Impact factor: 16.240

5.  Consistency of topological moves based on the balanced minimum evolution principle of phylogenetic inference.

Authors:  Magnus Bordewich; Olivier Gascuel; Katharina T Huber; Vincent Moulton
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2009 Jan-Mar       Impact factor: 3.710

6.  Optimality of the neighbor joining algorithm and faces of the balanced minimum evolution polytope.

Authors:  David C Haws; Terrell L Hodge; Ruriko Yoshida
Journal:  Bull Math Biol       Date:  2011-03-04       Impact factor: 1.758

7.  imPhy: Imputing Phylogenetic Trees with Missing Information Using Mathematical Programming.

Authors:  Niko Yasui; Chrysafis Vogiatzis; Ruriko Yoshida; Kenji Fukumizu
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2018-11-30       Impact factor: 3.710

8.  Split-Facets for Balanced Minimal Evolution Polytopes and the Permutoassociahedron.

Authors:  Stefan Forcey; Logan Keefe; William Sands
Journal:  Bull Math Biol       Date:  2017-03-22       Impact factor: 1.758

9.  On the optimality of the neighbor-joining algorithm.

Authors:  Kord Eickmeyer; Peter Huggins; Lior Pachter; Ruriko Yoshida
Journal:  Algorithms Mol Biol       Date:  2008-04-30       Impact factor: 1.405

Review 10.  Cancer evolution: mathematical models and computational inference.

Authors:  Niko Beerenwinkel; Roland F Schwarz; Moritz Gerstung; Florian Markowetz
Journal:  Syst Biol       Date:  2014-10-07       Impact factor: 15.683

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