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Volumn 12, Issue 6, 1996, Pages 473-479

Parallel hardware for sequence comparison and alignment

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; COMPUTER SYSTEM; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE ANALYSIS;

EID: 0030462897     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/12.6.473     Document Type: Article
Times cited : (75)

References (36)
  • 1
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul.S.F. et al. (1990) Basic local alignment search tool. JMB, 215, 403-410.
    • (1990) JMB , vol.215 , pp. 403-410
    • Altschul, S.F.1
  • 3
    • 0028581714 scopus 로고
    • A SIMD solution to the sequence comparison problem on the MGAP
    • (Capello.P. et al., eds) pp., Los Alamitos, CA: IEEE CS
    • Borah, M., Bajwa, R.S., Hannenhalli, S. and Irwin, M.J. (1994) A SIMD solution to the sequence comparison problem on the MGAP. In: ASAP, (Capello.P. et al., eds) pp. 336-45, Los Alamitos, CA: IEEE CS.
    • (1994) ASAP , pp. 336-345
    • Borah, M.1    Bajwa, R.S.2    Hannenhalli, S.3    Irwin, M.J.4
  • 5
    • 84891466442 scopus 로고
    • Biological information signal processor
    • eds) pp, Los Alamitos, CA: IEEE CS
    • Chow, E., Hunkapiller, T., Peterson, I. and Waterman, M.S. (1991) Biological information signal processor. In: ASAP, (Valero.M. et al., eds) pp. 144-160, Los Alamitos, CA: IEEE CS.
    • (1991) ASAP, (Valero.M. Et Al. , pp. 144-160
    • Chow, E.1    Hunkapiller, T.2    Peterson, I.3    Waterman, M.S.4
  • 6
    • 2542490420 scopus 로고
    • Obtained from compugen@datasrv.co.il
    • Compugen Ltd. (1994) Biocellerator information package. Obtained from compugen@datasrv.co.il.
    • (1994) Biocellerator Information Package
  • 8
    • 0025807368 scopus 로고
    • Building and using a highly parallel programmable logic array
    • Gokhale.M. et al. (1991) Building and using a highly parallel programmable logic array. Computer, 24(1), 81-89.
    • (1991) Computer , vol.24 , Issue.1 , pp. 81-89
    • Gokhale, M.1
  • 9
    • 0029290396 scopus 로고
    • Processing in memory: The Terasys massively parallel PIM array
    • Gokhale.M. et al., (1995) Processing in memory: The Terasys massively parallel PIM array. Computer, 28(4), 23-31.
    • (1995) Computer , vol.28 , Issue.4 , pp. 23-31
    • Gokhale, M.1
  • 10
    • 0020484488 scopus 로고
    • An improved algorithm for matching biological sequences
    • Gotoh.O. (1982) An improved algorithm for matching biological sequences. JMB, 162(3), 705-708.
    • (1982) JMB , vol.162 , Issue.3 , pp. 705-708
    • Gotoh, O.1
  • 13
    • 0016518550 scopus 로고
    • A linear space algorithm for computing maximal common subsequences
    • Hirschberg, D.S. (1975) A linear space algorithm for computing maximal common subsequences. Communications of the ACM, 18(6), 341-343.
    • (1975) Communications of the ACM , vol.18 , Issue.6 , pp. 341-343
    • Hirschberg, D.S.1
  • 14
    • 0029728013 scopus 로고    scopus 로고
    • Kestrel: A programmable array for sequence analysis
    • Los Alamitos, CA: IEEE CS
    • Hirschberg, J.D., Hughey, R., Karplus, K. and Speck, D. (1996) Kestrel: A programmable array for sequence analysis. In: ASAP, Los Alamitos, CA: IEEE CS.
    • (1996) ASAP
    • Hirschberg, J.D.1    Hughey, R.2    Karplus, K.3    Speck, D.4
  • 15
    • 8644270136 scopus 로고
    • A systolic array for the sequence alignment problem. Technical Report CS-92-22 Dept. CS
    • Providence, RI
    • Hoang, D.T. (1992) A systolic array for the sequence alignment problem. Technical Report CS-92-22 Dept. CS, Brown Univ. Providence, RI.
    • (1992) Brown Univ
    • Hoang, D.T.1
  • 17
    • 0024686368 scopus 로고
    • A space-efficient paralle sequence comparison algorithm for a message-passing multiprocessor
    • Huang, X. (1989) A space-efficient paralle sequence comparison algorithm for a message-passing multiprocessor. International Journal of Parallel Programming, 18(3), 223-239.
    • (1989) International Journal of Parallel Programming , vol.18 , Issue.3 , pp. 223-239
    • Huang, X.1
  • 18
    • 0029887381 scopus 로고    scopus 로고
    • Hidden Markov models for sequence analysis: Extension and analysis of the basic method
    • Hughey.R. and Krogh, A. (1996) Hidden Markov models for sequence analysis: Extension and analysis of the basic method. CABIOS, 12(2), 95-107.
    • (1996) CABIOS , vol.12 , Issue.2 , pp. 95-107
    • Hughey, R.1    Krogh, A.2
  • 19
    • 0006847759 scopus 로고
    • B-SYS: A 470-processor programmable systolic array
    • ed) volume, pp., Boca Raton, FL: CRC Press
    • Hughey, R. and Lopresti, D.P. (1991) B-SYS: A 470-processor programmable systolic array. In: ICPP, (Wu, C, ed) volume 1 pp. 580-583, Boca Raton, FL: CRC Press
    • (1991) ICPP, (Wu, C , vol.1 , pp. 580-583
    • Hughey, R.1    Lopresti, D.P.2
  • 20
    • 0026763575 scopus 로고
    • String editing on a one-way linear array of finate-state machines
    • Ibarra.O.H., Jiang, T. and Wang, H. (1992) String editing on a one-way linear array of finate-state machines. IEEE Transactions on Computers, 41(1), 112-118.
    • (1992) IEEE Transactions on Computers , vol.41 , Issue.1 , pp. 112-118
    • Ibarra, O.H.1    Jiang, T.2    Wang, H.3
  • 21
    • 0028181441 scopus 로고
    • Hidden Markov models in computational biology: Applications to protein modeling
    • Krogh.A., Brown.M., Mian.I.S., Sjknder, K. and Haussler.D. (1994) Hidden Markov models in computational biology: Applications to protein modeling. JMB, 235, 1501-1531.
    • (1994) JMB , vol.235 , pp. 1501-1531
    • Krogh, A.1    Brown, M.2    Mian, I.S.3    Sjknder, K.4    Haussler, D.5
  • 23
    • 0028685607 scopus 로고
    • High speed pattern matching in genetic data base with reconfigurtable hardware
    • eds) pp, Menlo Park, CA: AAAI/ MIT Press
    • Lemoine, E., Quinqueton, J. and Sallantin, J. (1994) High speed pattern matching in genetic data base with reconfigurtable hardware. In: ISMB, (Altman.R. et al., eds) pp. 269-275, Menlo Park, CA: AAAI/ MIT Press.
    • (1994) ISMB, (Altman.R. Et Al. , pp. 269-275
    • Lemoine, E.1    Quinqueton, J.2    Sallantin, J.3
  • 25
    • 0023382868 scopus 로고
    • P-NAC: A systolic array for comparing nucleic acid sequences
    • Lopresti.D.P. (1987). P-NAC: A systolic array for comparing nucleic acid sequences. Computer, 20(7), 98-99.
    • (1987) Computer , vol.20 , Issue.7 , pp. 98-99
    • Lopresti, D.P.1
  • 27
    • 0023984847 scopus 로고
    • Optimal alignments in linear space
    • Myers, E.W. and Miller, W. (1988). Optimal alignments in linear space. CABIOS, 4(1), 11-17.
    • (1988) CABIOS , vol.4 , Issue.1 , pp. 11-17
    • Myers, E.W.1    Miller, W.2
  • 28
    • 0025677017 scopus 로고
    • The design of the Maspar MP-1: A cost effective massively parallel computer
    • pp., Los Alamitos, CA: IEEE Computer Society Press
    • NickollsJ.R. (1990) The design of the Maspar MP-1: A cost effective massively parallel computer. In: COMPCON Spring 1990 pp. 25-28, Los Alamitos, CA: IEEE Computer Society Press.
    • (1990) COMPCON Spring 1990 , pp. 25-28
    • Nickollsj, R.1
  • 29
    • 33749732175 scopus 로고    scopus 로고
    • Pasadena, CA
    • Paracel Inc (1996). FDF-3 product information. Pasadena, CA, http://www.paracel.com.
    • (1996) FDF-3 Product Information
  • 31
    • 0029006770 scopus 로고
    • Comparison of methods for searching protein sequence databases
    • Pearson.W.R. (1995b). Comparison of methods for searching protein sequence databases. Protein Science, 4(6), 1145-1160.
    • (1995) Protein Science , vol.4 , Issue.6 , pp. 1145-1160
    • Pearson, W.R.1
  • 32
    • 0024967791 scopus 로고
    • New chip may speed genome analysis
    • Roberts.L. (1989). New chip may speed genome analysis. Science, 244(4905), 655-6.
    • (1989) Science , vol.244 , Issue.4905 , pp. 655-656
    • Roberts, L.1
  • 33
    • 0000821965 scopus 로고
    • On the theory and computation of evolutionary distances
    • Sellers, P.H. (1974) On the theory and computation of evolutionary distances. SIAM J. Appl. Math. 26, 787-793.
    • (1974) SIAM J. Appl. Math. , vol.26 , pp. 787-793
    • Sellers, P.H.1
  • 34
    • 2542473437 scopus 로고
    • A scalable systolic multiprocessor system for biosequence similarity analysis
    • Singh, R. et al. (1993) A scalable systolic multiprocessor system for biosequence similarity analysis. In: Symp. Integrated Systems, (Snyder.L., ed) pp. 169-181, Cambridge, MA: MIT Press.
    • (1993) Symp. Integrated Systems , pp. 169-181
    • Singh, R.1
  • 35
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith.T.F. and Waterman, M.S. (1981) Identification of common molecular subsequences. JMB, 147, 195-197.
    • (1981) JMB , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 36
    • 2542433212 scopus 로고    scopus 로고
    • Incline Village, NV
    • Time Logic Inc. (1996) Decypher II product literature. Incline Village, NV, http://www.timelogic.com.
    • (1996) Decypher II Product Literature


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.