High speed GAML-based phylogenetic tree reconstruction using HW/SW codesign

Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003

Volumn , Issue , 2003, Pages 470-473

  Mak, T S T ^a   Lam, K P ^a  

^a CHINESE UNIVERSITY OF HONG KONG   (Hong Kong)

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; COMPUTER HARDWARE; DNA SEQUENCES; FIELD PROGRAMMABLE GATE ARRAYS (FPGA); FUNCTION EVALUATION; GENETIC ALGORITHMS; HARDWARE; HARDWARE-SOFTWARE CODESIGN; MAXIMUM LIKELIHOOD; TOPOLOGY; TREES (MATHEMATICS);

FITNESS EVALUATIONS; GENETIC ALGORITHM FOR MAXIMUM LIKELIHOODS; HARDWARE/SOFTWARE; HIGH-PERFORMANCE HARDWARE; MAXIMUM LIKELIHOOD FUNCTION; PHYLOGENETIC TREE RECONSTRUCTION; PHYLOGENETIC TREES; SOFTWARE SOLUTION;

RECONFIGURABLE HARDWARE;

EID: 14044270314     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/CSB.2003.1227376     Document Type: Conference Paper

References (6)

1. Felsenstein J., "Evolutionary trees from dna sequences: A maximum likelihood approach", J. Mol. Evol., 17:368-376, 1981
2. Lewis P., "A genetic algorithm for maximum-likelihood phylogeny inference using nucleotide sequence data", Molecular Biology Evolution, 15(3):277-283, 1998
3. th International Conference on Field Programmable Logic and Applications, France, 2002
4. XSV-800 Prototyping Board Manual, online, http://www.xess.com/manuals/xsv-manual-v1-0.pdf
5. Guccione S., Levi D., Sundararajan P., "XHWIF: A Portable Hardware Interface for Reconfigurable Computing", Proceedings of SPIE, Reconfigurable Technology: FPGAs and Reconfigurable Processors for Computing and Communications III, USA, 2001
6. Swofford D. L., Begle D. P., "PAUP: Phylogenetic analysis using parsimony", Version 3.1, Smithsonian Institution, Laboratory of Molecular Systematics, Washington D. C., 1993