High Performance Computing and Grid in Asia Pacific Region, International Conference on (2005)

Beijing, China

Nov. 30, 2005 to Dec. 3, 2005

ISBN: 0-7695-2486-9

pp: 66-72

Chun-Yuan Lin , National Tsing Hua University, China

Jiayi Zhou , Chung Hua University, China

Chuan Yi Tang , National Tsing Hua University, China

Kun-Ming Yu , Chung Hua University, China

ABSTRACT

An ultrametric tree is an evolutionary tree in which the distances from the root to all leaves in the tree are equal. The Minimum Ultrametric Tree construction problem is the problem of constructing an ultrametric tree from distance matrices with minimum cost. It is shown that to construct a minimum cost ultrametric tree is NP-hard. In this paper, we present an efficient parallel branch and bound algorithm to construct a minimum ultrametric tree with less cost. The experimental results show that our proposed algorithm can discover optimal solutions for 38 species within reasonable time with 16 computing nodes.

INDEX TERMS

Parallel computing, branch-and-bound, evolutionary tree, distance matrices, minimum ultrametric trees.

CITATION

Chun-Yuan Lin,
Jiayi Zhou,
Chuan Yi Tang,
Kun-Ming Yu,
"Parallel Branch-and-Bound Algorithm for Constructing Evolutionary Trees from Distance Matrix",

*High Performance Computing and Grid in Asia Pacific Region, International Conference on*, vol. 00, no. , pp. 66-72, 2005, doi:10.1109/HPCASIA.2005.65SEARCH