Comparing two long biological sequences using a DSM system

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 2790, Issue , 2004, Pages 517-524

  Melo, Renata Cristina F ^a   Walter, Maria Emília Telles ^a   Melo, Alba Cristina Magalhaes Alves ^a   Batista, Rodolfo ^a   Nardelli, Marcelo ^a   Martins, Thelmo ^a   Fonseca, Tiago ^a  

^a UNIVERSITY OF BRASILIA   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

DISTRIBUTED COMPUTER SYSTEMS; DNA; GENE ENCODING; HEURISTIC METHODS; MEMORY ARCHITECTURE;

BIOLOGICAL SEQUENCES; COMPUTATIONAL POWER; DISTRIBUTED ARCHITECTURE; DISTRIBUTED SHARED MEMORY SYSTEMS; PROGRAMMING SUPPORT; RELAXED MEMORY MODELS; SEQUENCE COMPARISONS; SHARED MEMORY PROGRAMMING;

DNA SEQUENCES;

EID: 35048886122     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: None     Document Type: Article

References (14)

1. S. F. Altschul et al. - Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, v. 25, n. 17, p. 3389-3402, 1997.
2. K. Gharachorloo et al, "Memory Consistency and Event Ordering in Scalable Shared-Memory Multiprocessors", Proc. Int. Symp. On Computer Architecture, May, 1990, p. 15-24.
3. L. Grate, M. Diekhans, D. Dahle, R. Hughey, Sequence Analysis With the Kestrel SIMD Parallel Processor-1998.
4. W. Hu., W. Shi., Z. Tang.: JIAJIA: An SVM System Based on A New Cache Coherence Protocol. In Proc. of HPCN99, LNCS 1593, pp. 463-472, Springer-Verlag, April, 1999.
5. W.Hu, W.Shi, "JIAJIA User's Manual", Technical report, CAS - China, 1999.
6. th ACM SPAA'96, June, 1996, pages 277-287.
7. Lamport L., How to Make a Multiprocessor Computer that Correctly Executes Multiprocess Programs, IEEE Transactions on Computers, 1979, 690-691.
8. K. Li, "Shared Virtual Memory on Loosely Coupled Architectures", PhDThesis, Yale, 1986.
9. W. S. Martins, et al., A Multithread Parallel Implementation of a Dynamic Programming Algorithm for Sequence Comparison, Proc. SBAC-PAD, 2001, Pirenopolis, Brazil, p. 1-8.
10. Mosberger D.: Memory Consistency Models, Operating Systems Review, p. 18-26, 1993.
11. J. C. Setubal, J. Meidanis, Introduction to Computational Molecular Biology. Pacific Grove, CA, United States: Brooks/Cole Publishing Company, 1997.
12. T. F. Smith, M. S. Waterman, Identification of common molecular sub-sequences - Journal of Molecular Biology, 147 (1) 195-197-1981.
13. W. R. Pearson; D. L. Lipman, Improved tools for biological sequence comparison. Proceedings Of The National Academy Of Science USA, v. 85, p. 2444-2448, April 1988.
14. Schwartz Et Al. - PipMaker - A Web Server for Aligning Two Genomic DNA Sequences - Genome Research 10:577-586, April 2000 - http://bio.cse.psu.edu.