On the compatibility of quartet trees

Noga Alon, Sagi Snir, Raphael Yuster

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Scopus citations

Abstract

Phylogenetic tree reconstruction is a fundamental biological problem. Quartet trees, trees over four species, are the minimal informational unit for phylogenetic classification. While every phylogenetic tree over n species defines (n4) quartets, not every set of quartets is compatible with some phylogenetic tree. Here we focus on the compatibility of quartet sets. We provide several results addressing the question of what can be inferred about the compatibility of a set from its subsets. Most of our results use probabilistic arguments to prove the sought characteristics. In particular we show that there are quartet sets Q of size m = cn log n in which every subset of cardinality c'n/ log n is compatible, and yet no fraction of more than 1/3 + ε of Q is compatible. On the other hand, in contrast to the classical result stating when Q is the densest, i.e. m = (n4) the consistency of any set of 3 quartets implies full consistency, we show that even for m = Θ((n4)) there are (very) inconsistent sets for which every subset of large constant cardinality is consistent. Our final result, relates to the conjecture of Bandelt and Dress regarding the maximum quartet distance between trees. We provide asymptotic upper and lower bounds for this value.

Original languageEnglish (US)
Title of host publicationProceedings of the 25th Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2014
PublisherAssociation for Computing Machinery
Pages535-545
Number of pages11
ISBN (Print)9781611973389
DOIs
StatePublished - 2014
Event25th Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2014 - Portland, OR, United States
Duration: Jan 5 2014Jan 7 2014

Publication series

NameProceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms

Other

Other25th Annual ACM-SIAM Symposium on Discrete Algorithms, SODA 2014
CountryUnited States
CityPortland, OR
Period1/5/141/7/14

All Science Journal Classification (ASJC) codes

  • Software
  • Mathematics(all)

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