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SC
1995
ACM
13 years 8 months ago
Parallelizing the Phylogeny Problem
The problem of determining the evolutionary history of species in the form of phylogenetic trees is known as the phylogeny problem. We present a parallelization of the character c...
Jeff A. Jones, Katherine A. Yelick
ICPADS
2005
IEEE
13 years 10 months ago
PRec-I-DCM3: A Parallel Framework for Fast and Accurate Large Scale Phylogeny Reconstruction
: Accurate reconstruction of phylogenetic trees very often involves solving hard optimization problems, particularly the maximum parsimony (MP) and maximum likelihood (ML) problems...
Cristian Coarfa, Yuri Dotsenko, John M. Mellor-Cru...
IPPS
2006
IEEE
13 years 10 months ago
Parallel multiple sequence alignment with local phylogeny search by simulated annealing
The problem of multiple sequence alignment is one of the most important problems in computational biology. In this paper we present a new method that simultaneously performs multi...
Jaroslaw Zola, Denis Trystram, Andrei Tchernykh, C...
JPDC
2006
112views more  JPDC 2006»
13 years 4 months ago
Large scale multiple sequence alignment with simultaneous phylogeny inference
Multiple sequence alignment (MSA) and phylogenetic tree reconstruction are one of the most important problems in the computational biology. While both these problems are of great ...
Gilles Parmentier, Denis Trystram, Jaroslaw Zola
BIBE
2007
IEEE
126views Bioinformatics» more  BIBE 2007»
13 years 6 months ago
FPGA Acceleration of Phylogeny Reconstruction for Whole Genome Data
In this paper we describe our design and characterization of a co-processor architecture to accelerate median-based phylogenetic reconstruction for generearrangement data. Our curr...
Jason D. Bakos, Panormitis E. Elenis, Jijun Tang