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Volumn 65, Issue 1, 2002, Pages 73-96

Finding similar regions in many sequences

Author keywords

Approximation algorithms; Computational biology; Consensus alignment; Consensus patterns

Indexed keywords

ALGORITHMS; APPROXIMATION THEORY; DNA; FUNCTIONS; INTEGRATION; MATHEMATICAL MODELS; PROBLEM SOLVING;

EID: 10044245485     PISSN: 00220000     EISSN: 10902724     Source Type: Journal    
DOI: 10.1006/jcss.2002.1823     Document Type: Conference Paper
Times cited : (107)

References (26)
  • 2
    • 0028784743 scopus 로고
    • Matrix search 1.0: A computer program that scans DNA sequences for transcriptional elements using a database of weight matrices
    • Q. Chan, G. Hertz, and Q. Stormo, Matrix search 1.0: a computer program that scans DNA sequences for transcriptional elements using a database of weight matrices, Comput. Appl. Biosci. (1995), 563-566.
    • (1995) Comput. Appl. Biosci. , pp. 563-566
    • Chan, Q.1    Hertz, G.2    Stormo, Q.3
  • 3
    • 0029146491 scopus 로고
    • Identification of common motifs in unaligned DNA sequences: Application to Escherichia coli Lrp regulon
    • Y. M. Fraenkel, Y. Mandel, D. Friedberg, and H. Margalit, Identification of common motifs in unaligned DNA sequences: application to Escherichia coli Lrp regulon, Comput. Appl. Biosci. (1995), 379-387.
    • (1995) Comput. Appl. Biosci. , pp. 379-387
    • Fraenkel, Y.M.1    Mandel, Y.2    Friedberg, D.3    Margalit, H.4
  • 5
    • 0027351056 scopus 로고
    • Efficient methods for multiple sequence alignment with guaranteed error bounds
    • D. Gusfield, Efficient methods for multiple sequence alignment with guaranteed error bounds, Bull. Math. Biol. 30 (1993), 141-154.
    • (1993) Bull. Math. Biol. , vol.30 , pp. 141-154
    • Gusfield, D.1
  • 7
    • 0001811485 scopus 로고
    • Identification of consensus patterns in unaligned DNA and protein sequences: A large-deviation statistical basis for penalizing gaps
    • (Lim and Cantor, Eds.) World Scientific, Singapore
    • G. Hertz and G. Stormo, Identification of consensus patterns in unaligned DNA and protein sequences: a large-deviation statistical basis for penalizing gaps, in "Proc. 3rd Int'l Conf. Bioinformatics and Genome Research" (Lim and Cantor, Eds.) pp. 201-216, World Scientific, Singapore, 1995.
    • (1995) Proc. 3rd Int'l Conf. Bioinformatics and Genome Research , pp. 201-216
    • Hertz, G.1    Stormo, G.2
  • 8
    • 0003037529 scopus 로고
    • Reducibility among combinatorial problems
    • (R. E. Miller and J. W. Thatcher, Eds.) Plenum Press, New York
    • R. Karp, Reducibility among combinatorial problems, in "Complexity of Computer Computation" (R. E. Miller and J. W. Thatcher, Eds.) pp. 85-103, Plenum Press, New York, 1972.
    • (1972) Complexity of Computer Computation , pp. 85-103
    • Karp, R.1
  • 10
    • 0025320805 scopus 로고
    • An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences
    • C. Lawrence and A. Reilly, An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences, Proteins 7 (1990), 41-51.
    • (1990) Proteins , vol.7 , pp. 41-51
    • Lawrence, C.1    Reilly, A.2
  • 12
    • 0141653290 scopus 로고    scopus 로고
    • On the closest string and substring problems
    • to appear in
    • M. Li, B. Ma, and L. Wang, On the closest string and substring problems, to appear in Journal of the ACM, 2002.
    • (2002) Journal of the ACM
    • Li, M.1    Ma, B.2    Wang, L.3
  • 13
    • 84937390208 scopus 로고    scopus 로고
    • A polynomial time approximation scheme for the closest substring problem
    • "CPM "2000," Springer-Verlag, Berlin/New York
    • B. Ma, A polynomial time approximation scheme for the closest substring problem, m "CPM "2000," Lecture Notes in Computer Science, Vol. 1848, pp. 99-107, Springer-Verlag, Berlin/New York, 2000.
    • (2000) Lecture Notes in Computer Science , vol.1848 , pp. 99-107
    • Ma, B.1
  • 15
    • 0027097378 scopus 로고
    • Multiple alignment, communication cost, and graph matching
    • P. Pevzner, Multiple alignment, communication cost, and graph matching, SIAM J. Appl. Math. 52 (1992), 1763-1779.
    • (1992) SIAM J. Appl. Math. , vol.52 , pp. 1763-1779
    • Pevzner, P.1
  • 16
    • 0024604147 scopus 로고
    • Predictive motifs derived from cytosine methyltransferases
    • J. Posfai, A. Bhagwat, G. Posfai, and R. Roberts, Predictive motifs derived from cytosine methyltransferases, Nucl. Acids Res. 17 (1989), 2421-2435.
    • (1989) Nucl. Acids Res. , vol.17 , pp. 2421-2435
    • Posfai, J.1    Bhagwat, A.2    Posfai, G.3    Roberts, R.4
  • 17
    • 0030013909 scopus 로고    scopus 로고
    • SIGNAL SCAN 4.0: Additional databases and sequence formats
    • D. S. Prestridge, SIGNAL SCAN 4.0: additional databases and sequence formats, Comput. Appl. Biosci. (1996), 157-160.
    • (1996) Comput. Appl. Biosci. , pp. 157-160
    • Prestridge, D.S.1
  • 18
    • 0026571052 scopus 로고
    • A search for common patterns in many sequences
    • M. A. Roytberg, A search for common patterns in many sequences, Comput. Appl. Biosci. (1992), 57-64.
    • (1992) Comput. Appl. Biosci. , pp. 57-64
    • Roytberg, M.A.1
  • 21
    • 0026077562 scopus 로고
    • Identifying protein-binding sites from unaligned DNA fragments
    • G. Stormo and G. W. Hartzell III, Identifying protein-binding sites from unaligned DNA fragments, Proc. Natl. Acad. Sci. USA 88 (1991), 5699-5703.
    • (1991) Proc. Natl. Acad. Sci. USA , vol.88 , pp. 5699-5703
    • Stormo, G.1    Hartzell III, G.W.2
  • 22
    • 0028679709 scopus 로고
    • On the complexity of multiple sequence alignment
    • L. Wang and T. Jiang, On the complexity of multiple sequence alignment, J. Comp. Biol. 1 (1994), 337-348.
    • (1994) J. Comp. Biol. , vol.1 , pp. 337-348
    • Wang, L.1    Jiang, T.2
  • 23
    • 0023057161 scopus 로고
    • Multiple sequence alignment by consensus
    • M. Waterman, Multiple sequence alignment by consensus, Nucl. Acids Res. 14 (1986), 9095-9102.
    • (1986) Nucl. Acids Res. , vol.14 , pp. 9095-9102
    • Waterman, M.1
  • 24
    • 0021665479 scopus 로고
    • Pattern recognition in several sequences: Consensus and alignment
    • M. Waterman, R. Arratia, and D. Galas, Pattern recognition in several sequences: consensus and alignment, Bull. Math. Biol. 46 (1984), 515-527.
    • (1984) Bull. Math. Biol. , vol.46 , pp. 515-527
    • Waterman, M.1    Arratia, R.2    Galas, D.3
  • 25
    • 0000220975 scopus 로고
    • Line geometries for sequence comparisons
    • M. Waterman and M. Perlwitz, Line geometries for sequence comparisons, Bull. Math. Biol. 46 (1984), 567-577.
    • (1984) Bull. Math. Biol. , vol.46 , pp. 567-577
    • Waterman, M.1    Perlwitz, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.